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Initial commit: v0.1.0
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hoellinger
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58
CONTRIBUTING.md
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58
CONTRIBUTING.md
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|
|
@ -0,0 +1,58 @@
|
|||
# Contributing to SelfiSys
|
||||
|
||||
We welcome contributions to the SelfiSys repository! Please follow these guidelines when contributing.
|
||||
|
||||
---
|
||||
|
||||
## Reporting Issues
|
||||
|
||||
If you find a bug or have a suggestion, please open an issue in the [GitHub repository](https://github.com/hoellin/selfisys_public). Include as much detail as possible:
|
||||
- Steps to reproduce the issue
|
||||
- Expected vs. actual behaviour
|
||||
- Relevant error messages or logs (if applicable)
|
||||
- Suggestions for improvement (if applicable)
|
||||
|
||||
If you are unsure whether your issue is a bug or have questions about the code, you are welcome to open an issue for discussion.
|
||||
|
||||
## Submitting Contributions
|
||||
|
||||
1. Fork the repository and create a new branch for your changes.
|
||||
2. Ensure your contributions are well-documented and adhere to the highest coding standards.
|
||||
3. Test your changes thoroughly before submitting:
|
||||
- Ensure Jupyter notebooks run without errors from top to bottom.
|
||||
- Validate new functionality or fixes using appropriate test cases.
|
||||
4. Before submitting a pull request, synchronise your fork with the main repository to incorporate upstream changes.
|
||||
- Add the main repository as a remote.
|
||||
```bash
|
||||
git remote add upstream https://github.com/hoellin/selfisys_public.git
|
||||
```
|
||||
- Fetch the latest changes from the upstream repository.
|
||||
```bash
|
||||
git fetch upstream
|
||||
```
|
||||
- Merge the changes into your local repository.
|
||||
```bash
|
||||
git merge upstream/main
|
||||
```
|
||||
5. Open a pull request describing your changes to the main repository.
|
||||
|
||||
## Style Guidelines
|
||||
|
||||
Follow best practices for Python coding and Jupyter notebooks.
|
||||
|
||||
### Python code
|
||||
|
||||
Refer to the [PEP 8 Style Guide](https://pep8.org/) for Python coding standards.
|
||||
|
||||
### Jupyter Notebooks
|
||||
|
||||
- Use clear and concise Markdown cells to explain code and results.
|
||||
- Avoid leaving unnecessary output (e.g., debugging print statements).
|
||||
- Ensure notebooks are runnable from top to bottom.
|
||||
- For tips on creating clean and effective Jupyter notebooks, see [Jupyter Notebook Best Practices](https://realpython.com/jupyter-notebook-best-practices/).
|
||||
|
||||
---
|
||||
|
||||
## Questions?
|
||||
|
||||
If you have any questions or need further clarification, feel free to [contact the authors](mailto:tristan.hoellinger@iap.fr).
|
||||
674
LICENSE
Normal file
674
LICENSE
Normal file
|
|
@ -0,0 +1,674 @@
|
|||
GNU GENERAL PUBLIC LICENSE
|
||||
Version 3, 29 June 2007
|
||||
|
||||
Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/>
|
||||
Everyone is permitted to copy and distribute verbatim copies
|
||||
of this license document, but changing it is not allowed.
|
||||
|
||||
Preamble
|
||||
|
||||
The GNU General Public License is a free, copyleft license for
|
||||
software and other kinds of works.
|
||||
|
||||
The licenses for most software and other practical works are designed
|
||||
to take away your freedom to share and change the works. By contrast,
|
||||
the GNU General Public License is intended to guarantee your freedom to
|
||||
share and change all versions of a program--to make sure it remains free
|
||||
software for all its users. We, the Free Software Foundation, use the
|
||||
GNU General Public License for most of our software; it applies also to
|
||||
any other work released this way by its authors. You can apply it to
|
||||
your programs, too.
|
||||
|
||||
When we speak of free software, we are referring to freedom, not
|
||||
price. Our General Public Licenses are designed to make sure that you
|
||||
have the freedom to distribute copies of free software (and charge for
|
||||
them if you wish), that you receive source code or can get it if you
|
||||
want it, that you can change the software or use pieces of it in new
|
||||
free programs, and that you know you can do these things.
|
||||
|
||||
To protect your rights, we need to prevent others from denying you
|
||||
these rights or asking you to surrender the rights. Therefore, you have
|
||||
certain responsibilities if you distribute copies of the software, or if
|
||||
you modify it: responsibilities to respect the freedom of others.
|
||||
|
||||
For example, if you distribute copies of such a program, whether
|
||||
gratis or for a fee, you must pass on to the recipients the same
|
||||
freedoms that you received. You must make sure that they, too, receive
|
||||
or can get the source code. And you must show them these terms so they
|
||||
know their rights.
|
||||
|
||||
Developers that use the GNU GPL protect your rights with two steps:
|
||||
(1) assert copyright on the software, and (2) offer you this License
|
||||
giving you legal permission to copy, distribute and/or modify it.
|
||||
|
||||
For the developers' and authors' protection, the GPL clearly explains
|
||||
that there is no warranty for this free software. For both users' and
|
||||
authors' sake, the GPL requires that modified versions be marked as
|
||||
changed, so that their problems will not be attributed erroneously to
|
||||
authors of previous versions.
|
||||
|
||||
Some devices are designed to deny users access to install or run
|
||||
modified versions of the software inside them, although the manufacturer
|
||||
can do so. This is fundamentally incompatible with the aim of
|
||||
protecting users' freedom to change the software. The systematic
|
||||
pattern of such abuse occurs in the area of products for individuals to
|
||||
use, which is precisely where it is most unacceptable. Therefore, we
|
||||
have designed this version of the GPL to prohibit the practice for those
|
||||
products. If such problems arise substantially in other domains, we
|
||||
stand ready to extend this provision to those domains in future versions
|
||||
of the GPL, as needed to protect the freedom of users.
|
||||
|
||||
Finally, every program is threatened constantly by software patents.
|
||||
States should not allow patents to restrict development and use of
|
||||
software on general-purpose computers, but in those that do, we wish to
|
||||
avoid the special danger that patents applied to a free program could
|
||||
make it effectively proprietary. To prevent this, the GPL assures that
|
||||
patents cannot be used to render the program non-free.
|
||||
|
||||
The precise terms and conditions for copying, distribution and
|
||||
modification follow.
|
||||
|
||||
TERMS AND CONDITIONS
|
||||
|
||||
0. Definitions.
|
||||
|
||||
"This License" refers to version 3 of the GNU General Public License.
|
||||
|
||||
"Copyright" also means copyright-like laws that apply to other kinds of
|
||||
works, such as semiconductor masks.
|
||||
|
||||
"The Program" refers to any copyrightable work licensed under this
|
||||
License. Each licensee is addressed as "you". "Licensees" and
|
||||
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|
||||
|
||||
To "modify" a work means to copy from or adapt all or part of the work
|
||||
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|
||||
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|
||||
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|
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|
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A "covered work" means either the unmodified Program or a work based
|
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|
||||
|
||||
To "propagate" a work means to do anything with it that, without
|
||||
permission, would make you directly or secondarily liable for
|
||||
infringement under applicable copyright law, except executing it on a
|
||||
computer or modifying a private copy. Propagation includes copying,
|
||||
distribution (with or without modification), making available to the
|
||||
public, and in some countries other activities as well.
|
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|
||||
To "convey" a work means any kind of propagation that enables other
|
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parties to make or receive copies. Mere interaction with a user through
|
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a computer network, with no transfer of a copy, is not conveying.
|
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|
||||
An interactive user interface displays "Appropriate Legal Notices"
|
||||
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|
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|
||||
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|
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|
||||
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|
||||
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|
||||
menu, a prominent item in the list meets this criterion.
|
||||
|
||||
1. Source Code.
|
||||
|
||||
The "source code" for a work means the preferred form of the work
|
||||
for making modifications to it. "Object code" means any non-source
|
||||
form of a work.
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|
||||
A "Standard Interface" means an interface that either is an official
|
||||
standard defined by a recognized standards body, or, in the case of
|
||||
interfaces specified for a particular programming language, one that
|
||||
is widely used among developers working in that language.
|
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|
||||
The "System Libraries" of an executable work include anything, other
|
||||
than the work as a whole, that (a) is included in the normal form of
|
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packaging a Major Component, but which is not part of that Major
|
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|
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Major Component, or to implement a Standard Interface for which an
|
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|
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"Major Component", in this context, means a major essential component
|
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|
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|
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The "Corresponding Source" for a work in object code form means all
|
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the source code needed to generate, install, and (for an executable
|
||||
work) run the object code and to modify the work, including scripts to
|
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|
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System Libraries, or general-purpose tools or generally available free
|
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programs which are used unmodified in performing those activities but
|
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which are not part of the work. For example, Corresponding Source
|
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includes interface definition files associated with source files for
|
||||
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|
||||
linked subprograms that the work is specifically designed to require,
|
||||
such as by intimate data communication or control flow between those
|
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|
||||
|
||||
The Corresponding Source need not include anything that users
|
||||
can regenerate automatically from other parts of the Corresponding
|
||||
Source.
|
||||
|
||||
The Corresponding Source for a work in source code form is that
|
||||
same work.
|
||||
|
||||
2. Basic Permissions.
|
||||
|
||||
All rights granted under this License are granted for the term of
|
||||
copyright on the Program, and are irrevocable provided the stated
|
||||
conditions are met. This License explicitly affirms your unlimited
|
||||
permission to run the unmodified Program. The output from running a
|
||||
covered work is covered by this License only if the output, given its
|
||||
content, constitutes a covered work. This License acknowledges your
|
||||
rights of fair use or other equivalent, as provided by copyright law.
|
||||
|
||||
You may make, run and propagate covered works that you do not
|
||||
convey, without conditions so long as your license otherwise remains
|
||||
in force. You may convey covered works to others for the sole purpose
|
||||
of having them make modifications exclusively for you, or provide you
|
||||
with facilities for running those works, provided that you comply with
|
||||
the terms of this License in conveying all material for which you do
|
||||
not control copyright. Those thus making or running the covered works
|
||||
for you must do so exclusively on your behalf, under your direction
|
||||
and control, on terms that prohibit them from making any copies of
|
||||
your copyrighted material outside their relationship with you.
|
||||
|
||||
Conveying under any other circumstances is permitted solely under
|
||||
the conditions stated below. Sublicensing is not allowed; section 10
|
||||
makes it unnecessary.
|
||||
|
||||
3. Protecting Users' Legal Rights From Anti-Circumvention Law.
|
||||
|
||||
No covered work shall be deemed part of an effective technological
|
||||
measure under any applicable law fulfilling obligations under article
|
||||
11 of the WIPO copyright treaty adopted on 20 December 1996, or
|
||||
similar laws prohibiting or restricting circumvention of such
|
||||
measures.
|
||||
|
||||
When you convey a covered work, you waive any legal power to forbid
|
||||
circumvention of technological measures to the extent such circumvention
|
||||
is effected by exercising rights under this License with respect to
|
||||
the covered work, and you disclaim any intention to limit operation or
|
||||
modification of the work as a means of enforcing, against the work's
|
||||
users, your or third parties' legal rights to forbid circumvention of
|
||||
technological measures.
|
||||
|
||||
4. Conveying Verbatim Copies.
|
||||
|
||||
You may convey verbatim copies of the Program's source code as you
|
||||
receive it, in any medium, provided that you conspicuously and
|
||||
appropriately publish on each copy an appropriate copyright notice;
|
||||
keep intact all notices stating that this License and any
|
||||
non-permissive terms added in accord with section 7 apply to the code;
|
||||
keep intact all notices of the absence of any warranty; and give all
|
||||
recipients a copy of this License along with the Program.
|
||||
|
||||
You may charge any price or no price for each copy that you convey,
|
||||
and you may offer support or warranty protection for a fee.
|
||||
|
||||
5. Conveying Modified Source Versions.
|
||||
|
||||
You may convey a work based on the Program, or the modifications to
|
||||
produce it from the Program, in the form of source code under the
|
||||
terms of section 4, provided that you also meet all of these conditions:
|
||||
|
||||
a) The work must carry prominent notices stating that you modified
|
||||
it, and giving a relevant date.
|
||||
|
||||
b) The work must carry prominent notices stating that it is
|
||||
released under this License and any conditions added under section
|
||||
7. This requirement modifies the requirement in section 4 to
|
||||
"keep intact all notices".
|
||||
|
||||
c) You must license the entire work, as a whole, under this
|
||||
License to anyone who comes into possession of a copy. This
|
||||
License will therefore apply, along with any applicable section 7
|
||||
additional terms, to the whole of the work, and all its parts,
|
||||
regardless of how they are packaged. This License gives no
|
||||
permission to license the work in any other way, but it does not
|
||||
invalidate such permission if you have separately received it.
|
||||
|
||||
d) If the work has interactive user interfaces, each must display
|
||||
Appropriate Legal Notices; however, if the Program has interactive
|
||||
interfaces that do not display Appropriate Legal Notices, your
|
||||
work need not make them do so.
|
||||
|
||||
A compilation of a covered work with other separate and independent
|
||||
works, which are not by their nature extensions of the covered work,
|
||||
and which are not combined with it such as to form a larger program,
|
||||
in or on a volume of a storage or distribution medium, is called an
|
||||
"aggregate" if the compilation and its resulting copyright are not
|
||||
used to limit the access or legal rights of the compilation's users
|
||||
beyond what the individual works permit. Inclusion of a covered work
|
||||
in an aggregate does not cause this License to apply to the other
|
||||
parts of the aggregate.
|
||||
|
||||
6. Conveying Non-Source Forms.
|
||||
|
||||
You may convey a covered work in object code form under the terms
|
||||
of sections 4 and 5, provided that you also convey the
|
||||
machine-readable Corresponding Source under the terms of this License,
|
||||
in one of these ways:
|
||||
|
||||
a) Convey the object code in, or embodied in, a physical product
|
||||
(including a physical distribution medium), accompanied by the
|
||||
Corresponding Source fixed on a durable physical medium
|
||||
customarily used for software interchange.
|
||||
|
||||
b) Convey the object code in, or embodied in, a physical product
|
||||
(including a physical distribution medium), accompanied by a
|
||||
written offer, valid for at least three years and valid for as
|
||||
long as you offer spare parts or customer support for that product
|
||||
model, to give anyone who possesses the object code either (1) a
|
||||
copy of the Corresponding Source for all the software in the
|
||||
product that is covered by this License, on a durable physical
|
||||
medium customarily used for software interchange, for a price no
|
||||
more than your reasonable cost of physically performing this
|
||||
conveying of source, or (2) access to copy the
|
||||
Corresponding Source from a network server at no charge.
|
||||
|
||||
c) Convey individual copies of the object code with a copy of the
|
||||
written offer to provide the Corresponding Source. This
|
||||
alternative is allowed only occasionally and noncommercially, and
|
||||
only if you received the object code with such an offer, in accord
|
||||
with subsection 6b.
|
||||
|
||||
d) Convey the object code by offering access from a designated
|
||||
place (gratis or for a charge), and offer equivalent access to the
|
||||
Corresponding Source in the same way through the same place at no
|
||||
further charge. You need not require recipients to copy the
|
||||
Corresponding Source along with the object code. If the place to
|
||||
copy the object code is a network server, the Corresponding Source
|
||||
may be on a different server (operated by you or a third party)
|
||||
that supports equivalent copying facilities, provided you maintain
|
||||
clear directions next to the object code saying where to find the
|
||||
Corresponding Source. Regardless of what server hosts the
|
||||
Corresponding Source, you remain obligated to ensure that it is
|
||||
available for as long as needed to satisfy these requirements.
|
||||
|
||||
e) Convey the object code using peer-to-peer transmission, provided
|
||||
you inform other peers where the object code and Corresponding
|
||||
Source of the work are being offered to the general public at no
|
||||
charge under subsection 6d.
|
||||
|
||||
A separable portion of the object code, whose source code is excluded
|
||||
from the Corresponding Source as a System Library, need not be
|
||||
included in conveying the object code work.
|
||||
|
||||
A "User Product" is either (1) a "consumer product", which means any
|
||||
tangible personal property which is normally used for personal, family,
|
||||
or household purposes, or (2) anything designed or sold for incorporation
|
||||
into a dwelling. In determining whether a product is a consumer product,
|
||||
doubtful cases shall be resolved in favor of coverage. For a particular
|
||||
product received by a particular user, "normally used" refers to a
|
||||
typical or common use of that class of product, regardless of the status
|
||||
of the particular user or of the way in which the particular user
|
||||
actually uses, or expects or is expected to use, the product. A product
|
||||
is a consumer product regardless of whether the product has substantial
|
||||
commercial, industrial or non-consumer uses, unless such uses represent
|
||||
the only significant mode of use of the product.
|
||||
|
||||
"Installation Information" for a User Product means any methods,
|
||||
procedures, authorization keys, or other information required to install
|
||||
and execute modified versions of a covered work in that User Product from
|
||||
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|
||||
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|
||||
code is in no case prevented or interfered with solely because
|
||||
modification has been made.
|
||||
|
||||
If you convey an object code work under this section in, or with, or
|
||||
specifically for use in, a User Product, and the conveying occurs as
|
||||
part of a transaction in which the right of possession and use of the
|
||||
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|
||||
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|
||||
Corresponding Source conveyed under this section must be accompanied
|
||||
by the Installation Information. But this requirement does not apply
|
||||
if neither you nor any third party retains the ability to install
|
||||
modified object code on the User Product (for example, the work has
|
||||
been installed in ROM).
|
||||
|
||||
The requirement to provide Installation Information does not include a
|
||||
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|
||||
for a work that has been modified or installed by the recipient, or for
|
||||
the User Product in which it has been modified or installed. Access to a
|
||||
network may be denied when the modification itself materially and
|
||||
adversely affects the operation of the network or violates the rules and
|
||||
protocols for communication across the network.
|
||||
|
||||
Corresponding Source conveyed, and Installation Information provided,
|
||||
in accord with this section must be in a format that is publicly
|
||||
documented (and with an implementation available to the public in
|
||||
source code form), and must require no special password or key for
|
||||
unpacking, reading or copying.
|
||||
|
||||
7. Additional Terms.
|
||||
|
||||
"Additional permissions" are terms that supplement the terms of this
|
||||
License by making exceptions from one or more of its conditions.
|
||||
Additional permissions that are applicable to the entire Program shall
|
||||
be treated as though they were included in this License, to the extent
|
||||
that they are valid under applicable law. If additional permissions
|
||||
apply only to part of the Program, that part may be used separately
|
||||
under those permissions, but the entire Program remains governed by
|
||||
this License without regard to the additional permissions.
|
||||
|
||||
When you convey a copy of a covered work, you may at your option
|
||||
remove any additional permissions from that copy, or from any part of
|
||||
it. (Additional permissions may be written to require their own
|
||||
removal in certain cases when you modify the work.) You may place
|
||||
additional permissions on material, added by you to a covered work,
|
||||
for which you have or can give appropriate copyright permission.
|
||||
|
||||
Notwithstanding any other provision of this License, for material you
|
||||
add to a covered work, you may (if authorized by the copyright holders of
|
||||
that material) supplement the terms of this License with terms:
|
||||
|
||||
a) Disclaiming warranty or limiting liability differently from the
|
||||
terms of sections 15 and 16 of this License; or
|
||||
|
||||
b) Requiring preservation of specified reasonable legal notices or
|
||||
author attributions in that material or in the Appropriate Legal
|
||||
Notices displayed by works containing it; or
|
||||
|
||||
c) Prohibiting misrepresentation of the origin of that material, or
|
||||
requiring that modified versions of such material be marked in
|
||||
reasonable ways as different from the original version; or
|
||||
|
||||
d) Limiting the use for publicity purposes of names of licensors or
|
||||
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|
||||
|
||||
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||||
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||||
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|
||||
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||||
|
||||
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||||
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|
||||
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|
||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
|
||||
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|
||||
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|
||||
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|
||||
|
||||
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|
||||
|
||||
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||||
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||||
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||||
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||||
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|
||||
|
||||
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||||
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||||
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||||
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|
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||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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|
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|
||||
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|
||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
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||||
|
||||
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||||
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||||
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||||
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|
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|
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||||
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|
||||
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||||
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||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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||||
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|
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||||
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||||
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||||
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||||
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||||
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||||
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|
||||
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|
||||
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||||
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||||
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|
||||
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||||
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||||
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|
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|
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|
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|
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||||
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|
||||
|
||||
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||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
END OF TERMS AND CONDITIONS
|
||||
|
||||
How to Apply These Terms to Your New Programs
|
||||
|
||||
If you develop a new program, and you want it to be of the greatest
|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
|
||||
Also add information on how to contact you by electronic and paper mail.
|
||||
|
||||
If the program does terminal interaction, make it output a short
|
||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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||||
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||||
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|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
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|
||||
83
README.md
Normal file
83
README.md
Normal file
|
|
@ -0,0 +1,83 @@
|
|||
# SelfiSys: Assess the Impact of Systematic Effects in Galaxy Surveys
|
||||
|
||||
[](https://arxiv.org/abs/2412.04443)
|
||||
[](https://github.com/hoellin/selfisys_public/blob/main/LICENSE)
|
||||
[](https://github.com/hoellin/selfisys_public)
|
||||
[](https://github.com/hoellin/selfisys_public/commits/main)
|
||||
|
||||
|
||||
**SelfiSys** is a Python package designed to address the issue of model misspecification in field-based, implicit likelihood cosmological inference.
|
||||
|
||||
It leverages the inferred initial matter power spectrum, enabling a thorough diagnosis of systematic effects in large-scale spectroscopic galaxy surveys.
|
||||
|
||||
## Key Features
|
||||
|
||||
- **Custom hidden-box forward models**
|
||||
|
||||
We provide a `HiddenBox` class to simulate realistic spectroscopic galaxy surveys. It accommodates fully non-linear gravitational evolution, and incorporates multiple systematic effects observed in real-world survey, e.g., misspecified galaxy bias, survey mask, selection functions, dust extinction, line interlopers, or inaccurate gravity solver.
|
||||
|
||||
- **Diagnosis of systematic effects**
|
||||
|
||||
Diagnose the impact of systematic effects using the inferred initial matter power spectrum, prior to performing cosmological inference.
|
||||
|
||||
- **Cosmological inference**
|
||||
|
||||
Perform inference of cosmological parameters using Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.
|
||||
|
||||
---
|
||||
|
||||
## Documentation
|
||||
|
||||
The documentation, including a detailed API reference, is available at [hoellin.github.io/selfisys_public](https://hoellin.github.io/selfisys_public/).
|
||||
|
||||
For practical examples demonstrating how to use SelfiSys, visit the [SelfiSys Examples Repository](https://github.com/hoellin/selfisys_examples).
|
||||
|
||||
## Contributors
|
||||
|
||||
- **Tristan Hoellinger**, [tristan.hoellinger@iap.fr](mailto:tristan.hoellinger@iap.fr)
|
||||
Principal developer and maintainer, Institut d’Astrophysique de Paris (IAP).
|
||||
|
||||
For information on contributing, refer to [CONTRIBUTING.md](CONTRIBUTING.md).
|
||||
|
||||
## References
|
||||
|
||||
If you use the SelfiSys package in your research, please cite the following paper and feel free to [contact the authors](mailto:tristan.hoellinger@iap.fr) for feedback, collaboration opportunities, or other inquiries.
|
||||
|
||||
**Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum**
|
||||
*Hoellinger, T. and Leclercq, F., 2024*
|
||||
[arXiv:2412.04443](https://arxiv.org/abs/2412.04443) [[astro-ph.CO]](https://arxiv.org/abs/2412.04443) [[ADS]](https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443) [[pdf]](https://arxiv.org/pdf/2412.04443)
|
||||
|
||||
BibTeX entry for citation:
|
||||
```bibtex
|
||||
@ARTICLE{hoellinger2024diagnosing,
|
||||
author = {Hoellinger, Tristan and Leclercq, Florent},
|
||||
title = "{Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum}",
|
||||
journal = {arXiv e-prints},
|
||||
keywords = {Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics},
|
||||
year = 2024,
|
||||
month = dec,
|
||||
eid = {arXiv:2412.04443},
|
||||
pages = {arXiv:2412.04443},
|
||||
doi = {10.48550/arXiv.2412.04443},
|
||||
archivePrefix = {arXiv},
|
||||
eprint = {2412.04443},
|
||||
primaryClass = {astro-ph.CO},
|
||||
adsurl = {https://ui.adsabs.harvard.edu/abs/2024arXiv241204443H},
|
||||
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
|
||||
}
|
||||
```
|
||||
|
||||
## Requirements
|
||||
|
||||
The code is written in Python 3.10 and depends on the following packages:
|
||||
- [`pySELFI`](https://pyselfi.readthedocs.io/en/latest/): Python implementation of the Simulator Expansion for Likelihood-Free Inference.
|
||||
- [`Simbelmynë`](https://simbelmyne.readthedocs.io/en/latest/): A hierarchical probabilistic simulator for generating synthetic galaxy survey data.
|
||||
- [`ELFI`](https://elfi.readthedocs.io/en/latest/): A statistical software package for likelihood-free inference, implementing in particular Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.
|
||||
|
||||
A comprehensive list of dependencies, including version specifications to ensure reproducibility, will be provided in a yaml file, along with installation instructions, in a future release.
|
||||
|
||||
---
|
||||
|
||||
## License
|
||||
|
||||
This software is distributed under the GPLv3 Licence. Please review the [LICENSE](https://github.com/hoellin/selfisys_public/blob/main/LICENSE) file in the repository to understand the terms of use and ensure compliance. By downloading and using this software, you agree to the terms of the licence.
|
||||
44
REFERENCES.md
Normal file
44
REFERENCES.md
Normal file
|
|
@ -0,0 +1,44 @@
|
|||
# References
|
||||
|
||||
If you use the SelfiSys package in your research, please cite the following paper and feel free to [contact the authors](mailto:tristan.hoellinger@iap.fr) for feedback, collaboration opportunities, or other inquiries.
|
||||
|
||||
**Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum**
|
||||
*Hoellinger, T. and Leclercq, F., 2024*
|
||||
[arXiv:2412.04443](https://arxiv.org/abs/2412.04443) [[astro-ph.CO]](https://arxiv.org/abs/2412.04443) [[ADS]](https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443) [[pdf]](https://arxiv.org/pdf/2412.04443)
|
||||
|
||||
BibTeX entry for citation:
|
||||
```bibtex
|
||||
@ARTICLE{hoellinger2024diagnosing,
|
||||
author = {Hoellinger, Tristan and Leclercq, Florent},
|
||||
title = "{Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum}",
|
||||
journal = {arXiv e-prints},
|
||||
keywords = {Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics},
|
||||
year = 2024,
|
||||
month = dec,
|
||||
eid = {arXiv:2412.04443},
|
||||
pages = {arXiv:2412.04443},
|
||||
doi = {10.48550/arXiv.2412.04443},
|
||||
archivePrefix = {arXiv},
|
||||
eprint = {2412.04443},
|
||||
primaryClass = {astro-ph.CO},
|
||||
adsurl = {https://ui.adsabs.harvard.edu/abs/2024arXiv241204443H},
|
||||
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
|
||||
}
|
||||
```
|
||||
|
||||
Other references relevant to the SelfiSys pipeline and cited in the code are listed below.
|
||||
|
||||
- **[jasche2010bayesian]**
|
||||
Jasche, J., Kitaura, F. S., Wandelt, B. D., and Enßlin, T. A., “Bayesian power-spectrum inference for large-scale structure data”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 406, no. 1, OUP, pp. 60–85, 2010. [doi:10.1111/j.1365-2966.2010.16610.x](https://doi.org/10.48550/arXiv.0911.2493).
|
||||
|
||||
- **[gil2015power]**
|
||||
Gil-Marín, H., “The power spectrum and bispectrum of SDSS DR11 BOSS galaxies - I. Bias and gravity”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 451, no. 1, OUP, pp. 539–580, 2015. [doi:10.1093/mnras/stv961](https://doi.org/10.48550/arXiv.1407.5668).
|
||||
|
||||
- **[howlett2015clustering]**
|
||||
Howlett, C., Ross, A. J., Samushia, L., Percival, W. J., and Manera, M., “The clustering of the SDSS main galaxy sample - II. Mock galaxy catalogues and a measurement of the growth of structure from redshift space distortions at z = 0.15”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 449, no. 1, OUP, pp. 848–866, 2015. [doi:10.1093/mnras/stu2693](https://doi.org/10.48550/arXiv.1409.3238).
|
||||
|
||||
- **[leclercq2019primordial]**
|
||||
Florent Leclercq, Wolfgang Enzi, Jens Jasche, Alan Heavens, Primordial power spectrum and cosmology from black-box galaxy surveys, Monthly Notices of the Royal Astronomical Society, Volume 490, Issue 3, December 2019, Pages 4237–4253, [doi:10.1093/mnras/stz2718](https://doi.org/10.1093/mnras/stz2718).
|
||||
|
||||
- **[hoellinger2024diagnosing]**
|
||||
Hoellinger, T. and Leclercq, F., “Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum”, <i>arXiv e-prints</i>, Art. no. arXiv:2412.04443, 2024. [doi.org:10.48550/arXiv.2412.04443](https://doi.org/10.48550/arXiv.2412.04443).
|
||||
384
docs/CONTRIBUTING.html
Normal file
384
docs/CONTRIBUTING.html
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|
|
@ -0,0 +1,384 @@
|
|||
|
||||
|
||||
<!DOCTYPE html>
|
||||
<html class="writer-html5" lang="en" data-content_root="./">
|
||||
<head>
|
||||
<meta charset="utf-8" /><meta name="viewport" content="width=device-width, initial-scale=1" />
|
||||
|
||||
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
|
||||
<title>Contributing to SelfiSys — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
|
||||
<link rel="stylesheet" type="text/css" href="_static/pygments.css?v=80d5e7a1" />
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<link rel="stylesheet" type="text/css" href="_static/css/theme.css?v=e59714d7" />
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<script src="_static/jquery.js?v=5d32c60e"></script>
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||||
<script src="_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
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<script src="_static/documentation_options.js?v=75025241"></script>
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<script src="_static/doctools.js?v=9bcbadda"></script>
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||||
<script src="_static/sphinx_highlight.js?v=dc90522c"></script>
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<script src="_static/js/theme.js"></script>
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<link rel="index" title="Index" href="genindex.html" />
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<link rel="search" title="Search" href="search.html" />
|
||||
<link rel="next" title="References" href="REFERENCES.html" />
|
||||
<link rel="prev" title="selfisys.utils package" href="selfisys.utils.html" />
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||||
</head>
|
||||
|
||||
<body class="wy-body-for-nav">
|
||||
<div class="wy-grid-for-nav">
|
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<nav data-toggle="wy-nav-shift" class="wy-nav-side">
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<div class="wy-side-scroll">
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<div class="wy-side-nav-search" >
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<a href="index.html" class="icon icon-home">
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SelfiSys
|
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</a>
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<div role="search">
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<form id="rtd-search-form" class="wy-form" action="search.html" method="get">
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<input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
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<input type="hidden" name="check_keywords" value="yes" />
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
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<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul class="current">
|
||||
<li class="toctree-l1 current"><a class="current reference internal" href="#">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
|
||||
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
|
||||
<a href="index.html">SelfiSys</a>
|
||||
</nav>
|
||||
|
||||
<div class="wy-nav-content">
|
||||
<div class="rst-content style-external-links">
|
||||
<div role="navigation" aria-label="Page navigation">
|
||||
<ul class="wy-breadcrumbs">
|
||||
<li><a href="index.html" class="icon icon-home" aria-label="Home"></a></li>
|
||||
<li class="breadcrumb-item active">Contributing to SelfiSys</li>
|
||||
<li class="wy-breadcrumbs-aside">
|
||||
<a href="https://github.com/hoellin/selfisys_public/blob/main/docs/source/CONTRIBUTING.md" class="fa fa-github"> Edit on GitHub</a>
|
||||
</li>
|
||||
</ul>
|
||||
<hr/>
|
||||
</div>
|
||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<section id="contributing-to-selfisys">
|
||||
<h1>Contributing to SelfiSys<a class="headerlink" href="#contributing-to-selfisys" title="Link to this heading"></a></h1>
|
||||
<p>We welcome contributions to the SelfiSys repository! Please follow these guidelines when contributing.</p>
|
||||
<hr class="docutils" />
|
||||
<section id="reporting-issues">
|
||||
<h2>Reporting Issues<a class="headerlink" href="#reporting-issues" title="Link to this heading"></a></h2>
|
||||
<p>If you find a bug or have a suggestion, please open an issue in the <a class="reference external" href="https://github.com/hoellin/selfisys_public">GitHub repository</a>. Include as much detail as possible:</p>
|
||||
<ul class="simple">
|
||||
<li><p>Steps to reproduce the issue</p></li>
|
||||
<li><p>Expected vs. actual behaviour</p></li>
|
||||
<li><p>Relevant error messages or logs (if applicable)</p></li>
|
||||
<li><p>Suggestions for improvement (if applicable)</p></li>
|
||||
</ul>
|
||||
<p>If you are unsure whether your issue is a bug or have questions about the code, you are welcome to open an issue for discussion.</p>
|
||||
</section>
|
||||
<section id="submitting-contributions">
|
||||
<h2>Submitting Contributions<a class="headerlink" href="#submitting-contributions" title="Link to this heading"></a></h2>
|
||||
<ol class="arabic">
|
||||
<li><p>Fork the repository and create a new branch for your changes.</p></li>
|
||||
<li><p>Ensure your contributions are well-documented and adhere to the highest coding standards.</p></li>
|
||||
<li><p>Test your changes thoroughly before submitting:</p>
|
||||
<ul class="simple">
|
||||
<li><p>Ensure Jupyter notebooks run without errors from top to bottom.</p></li>
|
||||
<li><p>Validate new functionality or fixes using appropriate test cases.</p></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li><p>Before submitting a pull request, synchronise your fork with the main repository to incorporate upstream changes.</p>
|
||||
<ul>
|
||||
<li><p>Add the main repository as a remote.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>git<span class="w"> </span>remote<span class="w"> </span>add<span class="w"> </span>upstream<span class="w"> </span>https://github.com/hoellin/selfisys_public.git
|
||||
</pre></div>
|
||||
</div>
|
||||
</li>
|
||||
<li><p>Fetch the latest changes from the upstream repository.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>git<span class="w"> </span>fetch<span class="w"> </span>upstream
|
||||
</pre></div>
|
||||
</div>
|
||||
</li>
|
||||
<li><p>Merge the changes into your local repository.</p>
|
||||
<div class="highlight-bash notranslate"><div class="highlight"><pre><span></span>git<span class="w"> </span>merge<span class="w"> </span>upstream/main
|
||||
</pre></div>
|
||||
</div>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li><p>Open a pull request describing your changes to the main repository.</p></li>
|
||||
</ol>
|
||||
</section>
|
||||
<section id="style-guidelines">
|
||||
<h2>Style Guidelines<a class="headerlink" href="#style-guidelines" title="Link to this heading"></a></h2>
|
||||
<p>Follow best practices for Python coding and Jupyter notebooks.</p>
|
||||
<section id="python-code">
|
||||
<h3>Python code<a class="headerlink" href="#python-code" title="Link to this heading"></a></h3>
|
||||
<p>Refer to the <a class="reference external" href="https://pep8.org/">PEP 8 Style Guide</a> for Python coding standards.</p>
|
||||
</section>
|
||||
<section id="jupyter-notebooks">
|
||||
<h3>Jupyter Notebooks<a class="headerlink" href="#jupyter-notebooks" title="Link to this heading"></a></h3>
|
||||
<ul class="simple">
|
||||
<li><p>Use clear and concise Markdown cells to explain code and results.</p></li>
|
||||
<li><p>Avoid leaving unnecessary output (e.g., debugging print statements).</p></li>
|
||||
<li><p>Ensure notebooks are runnable from top to bottom.</p></li>
|
||||
<li><p>For tips on creating clean and effective Jupyter notebooks, see <a class="reference external" href="https://realpython.com/jupyter-notebook-best-practices/">Jupyter Notebook Best Practices</a>.</p></li>
|
||||
</ul>
|
||||
</section>
|
||||
</section>
|
||||
<hr class="docutils" />
|
||||
<section id="questions">
|
||||
<h2>Questions?<a class="headerlink" href="#questions" title="Link to this heading"></a></h2>
|
||||
<p>If you have any questions or need further clarification, feel free to <a class="reference external" href="mailto:tristan.hoellinger%40iap.fr">contact the authors</a>.</p>
|
||||
</section>
|
||||
</section>
|
||||
|
||||
|
||||
</div>
|
||||
</div>
|
||||
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<title>SelfiSys: Assess the Impact of Systematic Effects in Galaxy Surveys — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference internal" href="selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
|
||||
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
|
||||
<a href="index.html">SelfiSys</a>
|
||||
</nav>
|
||||
|
||||
<div class="wy-nav-content">
|
||||
<div class="rst-content style-external-links">
|
||||
<div role="navigation" aria-label="Page navigation">
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||||
<ul class="wy-breadcrumbs">
|
||||
<li><a href="index.html" class="icon icon-home" aria-label="Home"></a></li>
|
||||
<li class="breadcrumb-item active">SelfiSys: Assess the Impact of Systematic Effects in Galaxy Surveys</li>
|
||||
<li class="wy-breadcrumbs-aside">
|
||||
<a href="https://github.com/hoellin/selfisys_public/blob/main/docs/source/README.md" class="fa fa-github"> Edit on GitHub</a>
|
||||
</li>
|
||||
</ul>
|
||||
<hr/>
|
||||
</div>
|
||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<section id="selfisys-assess-the-impact-of-systematic-effects-in-galaxy-surveys">
|
||||
<h1>SelfiSys: Assess the Impact of Systematic Effects in Galaxy Surveys<a class="headerlink" href="#selfisys-assess-the-impact-of-systematic-effects-in-galaxy-surveys" title="Link to this heading"></a></h1>
|
||||
<p><a class="reference external" href="https://arxiv.org/abs/2412.04443"><img alt="arXiv" src="https://img.shields.io/badge/astro--ph.CO-arxiv%3A2412.04443-B31B1B.svg?style=flat" /></a>
|
||||
<a class="reference external" href="https://github.com/hoellin/selfisys_public/blob/main/LICENSE"><img alt="GPLv3 license" src="https://img.shields.io/badge/License-GPLv3-blue.svg" /></a>
|
||||
<a class="reference external" href="https://github.com/hoellin/selfisys_public"><img alt="GitHub version" src="https://img.shields.io/github/tag/hoellin/selfisys_public.svg?label=version" /></a>
|
||||
<a class="reference external" href="https://github.com/hoellin/selfisys_public/commits/main"><img alt="GitHub last commit" src="https://img.shields.io/github/last-commit/hoellin/selfisys_public.svg" /></a></p>
|
||||
<p><strong>SelfiSys</strong> is a Python package designed to address the issue of model misspecification in field-based, implicit likelihood cosmological inference.</p>
|
||||
<p>It leverages the inferred initial matter power spectrum, enabling a thorough diagnosis of systematic effects in large-scale spectroscopic galaxy surveys.</p>
|
||||
<section id="key-features">
|
||||
<h2>Key Features<a class="headerlink" href="#key-features" title="Link to this heading"></a></h2>
|
||||
<ul class="simple">
|
||||
<li><p><strong>Custom hidden-box forward models</strong></p></li>
|
||||
</ul>
|
||||
<p>We provide a <code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code> class to simulate realistic spectroscopic galaxy surveys. It accommodates fully non-linear gravitational evolution, and incorporates multiple systematic effects observed in real-world survey, e.g., misspecified galaxy bias, survey mask, selection functions, dust extinction, line interlopers, or inaccurate gravity solver.</p>
|
||||
<ul class="simple">
|
||||
<li><p><strong>Diagnosis of systematic effects</strong></p></li>
|
||||
</ul>
|
||||
<p>Diagnose the impact of systematic effects using the inferred initial matter power spectrum, prior to performing cosmological inference.</p>
|
||||
<ul class="simple">
|
||||
<li><p><strong>Cosmological inference</strong></p></li>
|
||||
</ul>
|
||||
<p>Perform inference of cosmological parameters using Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.</p>
|
||||
</section>
|
||||
<hr class="docutils" />
|
||||
<section id="documentation">
|
||||
<h2>Documentation<a class="headerlink" href="#documentation" title="Link to this heading"></a></h2>
|
||||
<p>The documentation, including a detailed API reference, is available at <a class="reference external" href="https://hoellin.github.io/selfisys_public/">hoellin.github.io/selfisys_public</a>.</p>
|
||||
<p>For practical examples demonstrating how to use SelfiSys, visit the <a class="reference external" href="https://github.com/hoellin/selfisys_examples">SelfiSys Examples Repository</a>.</p>
|
||||
</section>
|
||||
<section id="contributors">
|
||||
<h2>Contributors<a class="headerlink" href="#contributors" title="Link to this heading"></a></h2>
|
||||
<ul class="simple">
|
||||
<li><p><strong>Tristan Hoellinger</strong>, <a class="reference external" href="mailto:tristan.hoellinger%40iap.fr">tristan<span>.</span>hoellinger<span>@</span>iap<span>.</span>fr</a><br />
|
||||
Principal developer and maintainer, Institut d’Astrophysique de Paris (IAP).</p></li>
|
||||
</ul>
|
||||
<p>For information on contributing, refer to <a class="reference internal" href="CONTRIBUTING.html"><span class="std std-doc">CONTRIBUTING.md</span></a>.</p>
|
||||
</section>
|
||||
<section id="references">
|
||||
<h2>References<a class="headerlink" href="#references" title="Link to this heading"></a></h2>
|
||||
<p>If you use the SelfiSys package in your research, please cite the following paper and feel free to <a class="reference external" href="mailto:tristan.hoellinger%40iap.fr">contact the authors</a> for feedback, collaboration opportunities, or other inquiries.</p>
|
||||
<p><strong>Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum</strong>
|
||||
<em>Hoellinger, T. and Leclercq, F., 2024</em>
|
||||
<a class="reference external" href="https://arxiv.org/abs/2412.04443">arXiv:2412.04443</a> <a class="reference external" href="https://arxiv.org/abs/2412.04443">[astro-ph.CO]</a> <a class="reference external" href="https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443">[ADS]</a> <a class="reference external" href="https://arxiv.org/pdf/2412.04443">[pdf]</a></p>
|
||||
<p>BibTeX entry for citation:</p>
|
||||
<div class="highlight-bibtex notranslate"><div class="highlight"><pre><span></span><span class="nc">@ARTICLE</span><span class="p">{</span><span class="nl">hoellinger2024diagnosing</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">author</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{Hoellinger, Tristan and Leclercq, Florent}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">title</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">"{Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum}"</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">journal</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv e-prints}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">keywords</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">year</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="m">2024</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">month</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="nv">dec</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">eid</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv:2412.04443}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">pages</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv:2412.04443}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">doi</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{10.48550/arXiv.2412.04443}</span><span class="p">,</span>
|
||||
<span class="na">archivePrefix</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">eprint</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{2412.04443}</span><span class="p">,</span>
|
||||
<span class="na">primaryClass</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{astro-ph.CO}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">adsurl</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{https://ui.adsabs.harvard.edu/abs/2024arXiv241204443H}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">adsnote</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{Provided by the SAO/NASA Astrophysics Data System}</span>
|
||||
<span class="p">}</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
</section>
|
||||
<section id="requirements">
|
||||
<h2>Requirements<a class="headerlink" href="#requirements" title="Link to this heading"></a></h2>
|
||||
<p>The code is written in Python 3.10 and depends on the following packages:</p>
|
||||
<ul class="simple">
|
||||
<li><p><a class="reference external" href="https://pyselfi.readthedocs.io/en/latest/"><code class="docutils literal notranslate"><span class="pre">pySELFI</span></code></a>: Python implementation of the Simulator Expansion for Likelihood-Free Inference.</p></li>
|
||||
<li><p><a class="reference external" href="https://simbelmyne.readthedocs.io/en/latest/"><code class="docutils literal notranslate"><span class="pre">Simbelmynë</span></code></a>: A hierarchical probabilistic simulator for generating synthetic galaxy survey data.</p></li>
|
||||
<li><p><a class="reference external" href="https://elfi.readthedocs.io/en/latest/"><code class="docutils literal notranslate"><span class="pre">ELFI</span></code></a>: A statistical software package for likelihood-free inference, implementing in particular Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.</p></li>
|
||||
</ul>
|
||||
<p>A comprehensive list of dependencies, including version specifications to ensure reproducibility, will be provided in a yaml file, along with installation instructions, in a future release.</p>
|
||||
</section>
|
||||
<hr class="docutils" />
|
||||
<section id="license">
|
||||
<h2>License<a class="headerlink" href="#license" title="Link to this heading"></a></h2>
|
||||
<p>This software is distributed under the GPLv3 Licence. Please review the <a class="reference external" href="https://github.com/hoellin/selfisys_public/blob/main/LICENSE">LICENSE</a> file in the repository to understand the terms of use and ensure compliance. By downloading and using this software, you agree to the terms of the licence.</p>
|
||||
</section>
|
||||
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|
||||
|
||||
|
||||
</div>
|
||||
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|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
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<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
|
||||
</div>
|
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|
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350
docs/REFERENCES.html
Normal file
350
docs/REFERENCES.html
Normal file
|
|
@ -0,0 +1,350 @@
|
|||
|
||||
|
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<!DOCTYPE html>
|
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|
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
|
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<title>References — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
|
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SelfiSys
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
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<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul class="current">
|
||||
<li class="toctree-l1 current"><a class="current reference internal" href="#">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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||||
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
|
||||
<a href="index.html">SelfiSys</a>
|
||||
</nav>
|
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|
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<div class="wy-nav-content">
|
||||
<div class="rst-content style-external-links">
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<div role="navigation" aria-label="Page navigation">
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<ul class="wy-breadcrumbs">
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||||
<li><a href="index.html" class="icon icon-home" aria-label="Home"></a></li>
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||||
<li class="breadcrumb-item active">References</li>
|
||||
<li class="wy-breadcrumbs-aside">
|
||||
<a href="https://github.com/hoellin/selfisys_public/blob/main/docs/source/REFERENCES.md" class="fa fa-github"> Edit on GitHub</a>
|
||||
</li>
|
||||
</ul>
|
||||
<hr/>
|
||||
</div>
|
||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<section id="references">
|
||||
<h1>References<a class="headerlink" href="#references" title="Link to this heading"></a></h1>
|
||||
<p>If you use the SelfiSys package in your research, please cite the following paper and feel free to <a class="reference external" href="mailto:tristan.hoellinger%40iap.fr">contact the authors</a> for feedback, collaboration opportunities, or other inquiries.</p>
|
||||
<p><strong>Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum</strong>
|
||||
<em>Hoellinger, T. and Leclercq, F., 2024</em>
|
||||
<a class="reference external" href="https://arxiv.org/abs/2412.04443">arXiv:2412.04443</a> <a class="reference external" href="https://arxiv.org/abs/2412.04443">[astro-ph.CO]</a> <a class="reference external" href="https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443">[ADS]</a> <a class="reference external" href="https://arxiv.org/pdf/2412.04443">[pdf]</a></p>
|
||||
<p>BibTeX entry for citation:</p>
|
||||
<div class="highlight-bibtex notranslate"><div class="highlight"><pre><span></span><span class="nc">@ARTICLE</span><span class="p">{</span><span class="nl">hoellinger2024diagnosing</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">author</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{Hoellinger, Tristan and Leclercq, Florent}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">title</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">"{Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum}"</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">journal</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv e-prints}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">keywords</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">year</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="m">2024</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">month</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="nv">dec</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">eid</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv:2412.04443}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">pages</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv:2412.04443}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">doi</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{10.48550/arXiv.2412.04443}</span><span class="p">,</span>
|
||||
<span class="na">archivePrefix</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{arXiv}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">eprint</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{2412.04443}</span><span class="p">,</span>
|
||||
<span class="na">primaryClass</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{astro-ph.CO}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">adsurl</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{https://ui.adsabs.harvard.edu/abs/2024arXiv241204443H}</span><span class="p">,</span>
|
||||
<span class="w"> </span><span class="na">adsnote</span><span class="w"> </span><span class="p">=</span><span class="w"> </span><span class="s">{Provided by the SAO/NASA Astrophysics Data System}</span>
|
||||
<span class="p">}</span>
|
||||
</pre></div>
|
||||
</div>
|
||||
<p>Other references relevant to the SelfiSys pipeline and cited in the code are listed below.</p>
|
||||
<ul class="simple">
|
||||
<li><p><strong>[jasche2010bayesian]</strong>
|
||||
Jasche, J., Kitaura, F. S., Wandelt, B. D., and Enßlin, T. A., “Bayesian power-spectrum inference for large-scale structure data”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 406, no. 1, OUP, pp. 60–85, 2010. <a class="reference external" href="https://doi.org/10.48550/arXiv.0911.2493">doi:10.1111/j.1365-2966.2010.16610.x</a>.</p></li>
|
||||
<li><p><strong>[gil2015power]</strong>
|
||||
Gil-Marín, H., “The power spectrum and bispectrum of SDSS DR11 BOSS galaxies - I. Bias and gravity”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 451, no. 1, OUP, pp. 539–580, 2015. <a class="reference external" href="https://doi.org/10.48550/arXiv.1407.5668">doi:10.1093/mnras/stv961</a>.</p></li>
|
||||
<li><p><strong>[howlett2015clustering]</strong>
|
||||
Howlett, C., Ross, A. J., Samushia, L., Percival, W. J., and Manera, M., “The clustering of the SDSS main galaxy sample - II. Mock galaxy catalogues and a measurement of the growth of structure from redshift space distortions at z = 0.15”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 449, no. 1, OUP, pp. 848–866, 2015. <a class="reference external" href="https://doi.org/10.48550/arXiv.1409.3238">doi:10.1093/mnras/stu2693</a>.</p></li>
|
||||
<li><p><strong>[leclercq2019primordial]</strong>
|
||||
Florent Leclercq, Wolfgang Enzi, Jens Jasche, Alan Heavens, Primordial power spectrum and cosmology from black-box galaxy surveys, Monthly Notices of the Royal Astronomical Society, Volume 490, Issue 3, December 2019, Pages 4237–4253, <a class="reference external" href="https://doi.org/10.1093/mnras/stz2718">doi:10.1093/mnras/stz2718</a>.</p></li>
|
||||
<li><p><strong>[hoellinger2024diagnosing]</strong>
|
||||
Hoellinger, T. and Leclercq, F., “Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum”, <i>arXiv e-prints</i>, Art. no. arXiv:2412.04443, 2024. <a class="reference external" href="https://doi.org/10.48550/arXiv.2412.04443">doi.org:10.48550/arXiv.2412.04443</a>.</p></li>
|
||||
</ul>
|
||||
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|
||||
|
||||
|
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326
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference internal" href="../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
|
||||
<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
|
||||
<a href="../index.html">SelfiSys</a>
|
||||
</nav>
|
||||
|
||||
<div class="wy-nav-content">
|
||||
<div class="rst-content style-external-links">
|
||||
<div role="navigation" aria-label="Page navigation">
|
||||
<ul class="wy-breadcrumbs">
|
||||
<li><a href="../index.html" class="icon icon-home" aria-label="Home"></a></li>
|
||||
<li class="breadcrumb-item active">Overview: module code</li>
|
||||
<li class="wy-breadcrumbs-aside">
|
||||
</li>
|
||||
</ul>
|
||||
<hr/>
|
||||
</div>
|
||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>All modules for which code is available</h1>
|
||||
<ul><li><a href="selfisys/grf.html">selfisys.grf</a></li>
|
||||
<li><a href="selfisys/hiddenbox.html">selfisys.hiddenbox</a></li>
|
||||
<li><a href="selfisys/normalise_hb.html">selfisys.normalise_hb</a></li>
|
||||
<li><a href="selfisys/prior.html">selfisys.prior</a></li>
|
||||
<li><a href="selfisys/sbmy_interface.html">selfisys.sbmy_interface</a></li>
|
||||
<li><a href="selfisys/selection_functions.html">selfisys.selection_functions</a></li>
|
||||
<li><a href="selfisys/selfi_interface.html">selfisys.selfi_interface</a></li>
|
||||
<li><a href="selfisys/setup_model.html">selfisys.setup_model</a></li>
|
||||
<li><a href="selfisys/utils/examples_utils.html">selfisys.utils.examples_utils</a></li>
|
||||
<li><a href="selfisys/utils/logger.html">selfisys.utils.logger</a></li>
|
||||
<li><a href="selfisys/utils/low_level.html">selfisys.utils.low_level</a></li>
|
||||
<li><a href="selfisys/utils/parser.html">selfisys.utils.parser</a></li>
|
||||
<li><a href="selfisys/utils/path_utils.html">selfisys.utils.path_utils</a></li>
|
||||
<li><a href="selfisys/utils/plot_examples.html">selfisys.utils.plot_examples</a></li>
|
||||
<li><a href="selfisys/utils/plot_params.html">selfisys.utils.plot_params</a></li>
|
||||
<li><a href="selfisys/utils/plot_utils.html">selfisys.utils.plot_utils</a></li>
|
||||
<li><a href="selfisys/utils/timestepping.html">selfisys.utils.timestepping</a></li>
|
||||
<li><a href="selfisys/utils/tools.html">selfisys.utils.tools</a></li>
|
||||
<li><a href="selfisys/utils/workers.html">selfisys.utils.workers</a></li>
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<li class="toctree-l1"><a class="reference internal" href="../../selfisys.hiddenbox.html">hiddenbox</a><ul>
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<li class="toctree-l2"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
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<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
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||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
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|
||||
</li>
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||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
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||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../REFERENCES.html">References</a></li>
|
||||
</ul>
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<li><a href="../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.grf</li>
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<li class="wy-breadcrumbs-aside">
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</li>
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<hr/>
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
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<div itemprop="articleBody">
|
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|
||||
<h1>Source code for selfisys.grf</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Tools for generating Gaussian random fields from given power spectra.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.logger</span> <span class="kn">import</span> <span class="n">getCustomLogger</span>
|
||||
|
||||
<span class="n">logger</span> <span class="o">=</span> <span class="n">getCustomLogger</span><span class="p">(</span><span class="vm">__name__</span><span class="p">)</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="primordial_grf">
|
||||
<a class="viewcode-back" href="../../selfisys.grf.html#selfisys.grf.primordial_grf">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">primordial_grf</span><span class="p">(</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">N</span><span class="p">,</span>
|
||||
<span class="n">seedphases</span><span class="p">,</span>
|
||||
<span class="n">fname_powerspectrum</span><span class="p">,</span>
|
||||
<span class="n">fname_outputinitialdensity</span><span class="p">,</span>
|
||||
<span class="n">force_sim</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
|
||||
<span class="n">return_g</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
|
||||
<span class="n">verbose</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Generate a Gaussian random field from a specified input power</span>
|
||||
<span class="sd"> spectrum.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Side length of the simulation box in Mpc/h.</span>
|
||||
<span class="sd"> N : int</span>
|
||||
<span class="sd"> Grid resolution (number of cells per dimension).</span>
|
||||
<span class="sd"> seedphases : int</span>
|
||||
<span class="sd"> Seed for random phase generation (for reproducibility).</span>
|
||||
<span class="sd"> fname_powerspectrum : str</span>
|
||||
<span class="sd"> File path to the input power spectrum.</span>
|
||||
<span class="sd"> fname_outputinitialdensity : str</span>
|
||||
<span class="sd"> File path to store the generated initial density field.</span>
|
||||
<span class="sd"> force_sim : bool, optional</span>
|
||||
<span class="sd"> If True, regenerate the GRF even if the output file exists.</span>
|
||||
<span class="sd"> Default is False.</span>
|
||||
<span class="sd"> return_g : bool, optional</span>
|
||||
<span class="sd"> If True, return the GRF as a numpy array. Default is False.</span>
|
||||
<span class="sd"> verbose : int, optional</span>
|
||||
<span class="sd"> Verbosity level (0 = silent, 1 = progress, 2 = detailed).</span>
|
||||
<span class="sd"> Default is 0.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
<span class="sd"> OSError</span>
|
||||
<span class="sd"> If the power spectrum file cannot be read.</span>
|
||||
<span class="sd"> RuntimeError</span>
|
||||
<span class="sd"> If an unexpected error occurs during power spectrum reading.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> numpy.ndarray or None</span>
|
||||
<span class="sd"> The GRF data if `return_g` is True, otherwise None.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">os.path</span> <span class="kn">import</span> <span class="n">exists</span>
|
||||
<span class="kn">from</span> <span class="nn">gc</span> <span class="kn">import</span> <span class="n">collect</span>
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.power</span> <span class="kn">import</span> <span class="n">PowerSpectrum</span>
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.field</span> <span class="kn">import</span> <span class="n">Field</span>
|
||||
|
||||
<span class="c1"># Skip simulation if output already exists and overwrite is not requested</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">force_sim</span> <span class="ow">and</span> <span class="n">exists</span><span class="p">(</span><span class="n">fname_outputinitialdensity</span><span class="p">):</span>
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.field</span> <span class="kn">import</span> <span class="n">read_basefield</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">verbose</span> <span class="o">></span> <span class="mi">0</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">fname_outputinitialdensity</span><span class="si">}</span><span class="s2"> already exists. Skipping simulation."</span><span class="p">)</span>
|
||||
<span class="k">return</span> <span class="n">read_basefield</span><span class="p">(</span><span class="n">fname_outputinitialdensity</span><span class="p">)</span><span class="o">.</span><span class="n">data</span> <span class="k">if</span> <span class="n">return_g</span> <span class="k">else</span> <span class="kc">None</span>
|
||||
|
||||
<span class="c1"># Read the power spectrum</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">P</span> <span class="o">=</span> <span class="n">PowerSpectrum</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">fname_powerspectrum</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Unable to read power spectrum file: </span><span class="si">{</span><span class="n">fname_powerspectrum</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">exception</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Unexpected error while reading power spectrum: </span><span class="si">{</span><span class="n">e</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
|
||||
<span class="c1"># Generate the Gaussian random field</span>
|
||||
<span class="k">if</span> <span class="n">verbose</span> <span class="o">></span> <span class="mi">1</span><span class="p">:</span>
|
||||
<span class="n">g</span> <span class="o">=</span> <span class="n">Field</span><span class="o">.</span><span class="n">GRF</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">P</span><span class="p">,</span> <span class="mf">1e3</span><span class="p">,</span> <span class="n">seedphases</span><span class="p">)</span> <span class="c1"># a_init = 1e3</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.low_level</span> <span class="kn">import</span> <span class="n">stdout_redirector</span>
|
||||
<span class="kn">from</span> <span class="nn">io</span> <span class="kn">import</span> <span class="n">BytesIO</span>
|
||||
|
||||
<span class="c1"># Suppress standard output to avoid cluttering logs</span>
|
||||
<span class="k">with</span> <span class="n">BytesIO</span><span class="p">()</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
<span class="k">with</span> <span class="n">stdout_redirector</span><span class="p">(</span><span class="n">f</span><span class="p">):</span>
|
||||
<span class="n">g</span> <span class="o">=</span> <span class="n">Field</span><span class="o">.</span><span class="n">GRF</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">N</span><span class="p">,</span> <span class="n">P</span><span class="p">,</span> <span class="mf">1e3</span><span class="p">,</span> <span class="n">seedphases</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Write the field to disk</span>
|
||||
<span class="n">g</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">fname_outputinitialdensity</span><span class="p">)</span>
|
||||
<span class="n">field</span> <span class="o">=</span> <span class="n">g</span><span class="o">.</span><span class="n">data</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span> <span class="k">if</span> <span class="n">return_g</span> <span class="k">else</span> <span class="kc">None</span>
|
||||
|
||||
<span class="c1"># Free memory</span>
|
||||
<span class="k">del</span> <span class="n">g</span>
|
||||
<span class="n">collect</span><span class="p">()</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">field</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
|
||||
</div>
|
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|
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Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
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</footer>
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jQuery(function () {
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SphinxRtdTheme.Navigation.enable(true);
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</html>
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1848
docs/_modules/selfisys/hiddenbox.html
Normal file
1848
docs/_modules/selfisys/hiddenbox.html
Normal file
File diff suppressed because it is too large
Load diff
596
docs/_modules/selfisys/normalise_hb.html
Normal file
596
docs/_modules/selfisys/normalise_hb.html
Normal file
|
|
@ -0,0 +1,596 @@
|
|||
|
||||
|
||||
<!DOCTYPE html>
|
||||
<html class="writer-html5" lang="en" data-content_root="../../">
|
||||
<head>
|
||||
<meta charset="utf-8" />
|
||||
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
|
||||
<title>selfisys.normalise_hb — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
|
||||
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=80d5e7a1" />
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<link rel="stylesheet" type="text/css" href="../../_static/css/theme.css?v=e59714d7" />
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<script src="../../_static/jquery.js?v=5d32c60e"></script>
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<script src="../../_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
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<script src="../../_static/documentation_options.js?v=75025241"></script>
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<script src="../../_static/js/theme.js"></script>
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<link rel="index" title="Index" href="../../genindex.html" />
|
||||
<link rel="search" title="Search" href="../../search.html" />
|
||||
</head>
|
||||
|
||||
<body class="wy-body-for-nav">
|
||||
<div class="wy-grid-for-nav">
|
||||
<nav data-toggle="wy-nav-shift" class="wy-nav-side">
|
||||
<div class="wy-side-scroll">
|
||||
<div class="wy-side-nav-search" >
|
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|
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|
||||
|
||||
<a href="../../index.html" class="icon icon-home">
|
||||
SelfiSys
|
||||
</a>
|
||||
<div role="search">
|
||||
<form id="rtd-search-form" class="wy-form" action="../../search.html" method="get">
|
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<input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
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<input type="hidden" name="check_keywords" value="yes" />
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<input type="hidden" name="area" value="default" />
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</form>
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</div>
|
||||
</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
|
||||
<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../REFERENCES.html">References</a></li>
|
||||
</ul>
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||||
|
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<li><a href="../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.normalise_hb</li>
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<li class="wy-breadcrumbs-aside">
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<hr/>
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
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<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.normalise_hb</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Tools to define normalisation constants for the hidden box."""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Tuple</span><span class="p">,</span> <span class="n">Dict</span><span class="p">,</span> <span class="n">Any</span>
|
||||
|
||||
<span class="kn">from</span> <span class="nn">selfisys.global_parameters</span> <span class="kn">import</span> <span class="n">MIN_K_NORMALISATION</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.hiddenbox</span> <span class="kn">import</span> <span class="n">HiddenBox</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="worker_normalisation">
|
||||
<a class="viewcode-back" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">worker_normalisation</span><span class="p">(</span>
|
||||
<span class="n">hidden_box</span><span class="p">:</span> <span class="n">HiddenBox</span><span class="p">,</span>
|
||||
<span class="n">params</span><span class="p">:</span> <span class="n">Tuple</span><span class="p">[</span><span class="n">Dict</span><span class="p">[</span><span class="nb">str</span><span class="p">,</span> <span class="n">Any</span><span class="p">],</span> <span class="nb">list</span><span class="p">,</span> <span class="nb">list</span><span class="p">,</span> <span class="nb">bool</span><span class="p">],</span>
|
||||
<span class="p">)</span> <span class="o">-></span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""Worker function to compute the normalisation constants,</span>
|
||||
<span class="sd"> compatible with Python multiprocessing.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> hidden_box : HiddenBox</span>
|
||||
<span class="sd"> Instance of the HiddenBox class.</span>
|
||||
<span class="sd"> params : tuple</span>
|
||||
<span class="sd"> A tuple containing (cosmo, seedphase, seednoise, force).</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> phi : ndarray</span>
|
||||
<span class="sd"> Computed summary statistics.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="n">seedphase</span><span class="p">,</span>
|
||||
<span class="n">seednoise</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">=</span> <span class="n">params</span>
|
||||
<span class="n">name</span> <span class="o">=</span> <span class="p">(</span>
|
||||
<span class="s2">"norm"</span>
|
||||
<span class="o">+</span> <span class="s2">"__"</span>
|
||||
<span class="o">+</span> <span class="s2">"_"</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="nb">str</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">s</span><span class="p">))</span> <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">seedphase</span><span class="p">])</span>
|
||||
<span class="o">+</span> <span class="s2">"__"</span>
|
||||
<span class="o">+</span> <span class="s2">"_"</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="nb">str</span><span class="p">(</span><span class="nb">int</span><span class="p">(</span><span class="n">s</span><span class="p">))</span> <span class="k">for</span> <span class="n">s</span> <span class="ow">in</span> <span class="n">seednoise</span><span class="p">])</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">verbosity</span> <span class="o">></span> <span class="mi">1</span><span class="p">:</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_PrintMessage</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="s2">"Running simulation..."</span><span class="p">)</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_indent</span><span class="p">()</span>
|
||||
<span class="n">phi</span> <span class="o">=</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">make_data</span><span class="p">(</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="n">name</span><span class="p">,</span>
|
||||
<span class="n">seedphase</span><span class="p">,</span>
|
||||
<span class="n">seednoise</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_unindent</span><span class="p">()</span>
|
||||
<span class="k">elif</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">verbosity</span> <span class="o">></span> <span class="mi">0</span><span class="p">:</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.low_level</span> <span class="kn">import</span> <span class="p">(</span>
|
||||
<span class="n">stdout_redirector</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="kn">from</span> <span class="nn">io</span> <span class="kn">import</span> <span class="n">BytesIO</span>
|
||||
|
||||
<span class="n">f</span> <span class="o">=</span> <span class="n">BytesIO</span><span class="p">()</span>
|
||||
<span class="k">with</span> <span class="n">stdout_redirector</span><span class="p">(</span><span class="n">f</span><span class="p">):</span>
|
||||
<span class="n">phi</span> <span class="o">=</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">make_data</span><span class="p">(</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="n">name</span><span class="p">,</span>
|
||||
<span class="n">seedphase</span><span class="p">,</span>
|
||||
<span class="n">seednoise</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">f</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.low_level</span> <span class="kn">import</span> <span class="p">(</span>
|
||||
<span class="n">stdout_redirector</span><span class="p">,</span>
|
||||
<span class="n">stderr_redirector</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="kn">from</span> <span class="nn">io</span> <span class="kn">import</span> <span class="n">BytesIO</span>
|
||||
|
||||
<span class="n">f</span> <span class="o">=</span> <span class="n">BytesIO</span><span class="p">()</span>
|
||||
<span class="n">g</span> <span class="o">=</span> <span class="n">BytesIO</span><span class="p">()</span>
|
||||
<span class="k">with</span> <span class="n">stdout_redirector</span><span class="p">(</span><span class="n">f</span><span class="p">),</span> <span class="n">stderr_redirector</span><span class="p">(</span><span class="n">g</span><span class="p">):</span>
|
||||
<span class="n">phi</span> <span class="o">=</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">make_data</span><span class="p">(</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="n">name</span><span class="p">,</span>
|
||||
<span class="n">seedphase</span><span class="p">,</span>
|
||||
<span class="n">seednoise</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">f</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="n">g</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">phi</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="worker_normalisation_wrapper">
|
||||
<a class="viewcode-back" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">worker_normalisation_wrapper</span><span class="p">(</span><span class="n">args</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Wrapper function for the worker_normalisation function.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> args : tuple</span>
|
||||
<span class="sd"> A tuple containing (hidden_box, params).</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> phi : ndarray</span>
|
||||
<span class="sd"> Computed summary statistics.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">hidden_box</span><span class="p">,</span> <span class="n">params</span> <span class="o">=</span> <span class="n">args</span>
|
||||
<span class="k">return</span> <span class="n">worker_normalisation</span><span class="p">(</span><span class="n">hidden_box</span><span class="p">,</span> <span class="n">params</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="worker_normalisation_public">
|
||||
<a class="viewcode-back" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">worker_normalisation_public</span><span class="p">(</span>
|
||||
<span class="n">hidden_box</span><span class="p">,</span>
|
||||
<span class="n">cosmo</span><span class="p">:</span> <span class="n">Dict</span><span class="p">[</span><span class="nb">str</span><span class="p">,</span> <span class="n">Any</span><span class="p">],</span>
|
||||
<span class="n">N</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">i</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Run the i-th simulation required to compute the normalisation</span>
|
||||
<span class="sd"> constants.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> hidden_box : HiddenBox</span>
|
||||
<span class="sd"> Instance of the HiddenBox class.</span>
|
||||
<span class="sd"> cosmo : dict</span>
|
||||
<span class="sd"> Cosmological and some infrastructure parameters.</span>
|
||||
<span class="sd"> N : int</span>
|
||||
<span class="sd"> Total number of realisations required.</span>
|
||||
<span class="sd"> i : int</span>
|
||||
<span class="sd"> Index of the simulation to be computed.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">params</span> <span class="o">=</span> <span class="p">(</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="p">[</span>
|
||||
<span class="n">i</span><span class="p">,</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_HiddenBox__global_seednorm</span><span class="p">,</span>
|
||||
<span class="p">],</span>
|
||||
<span class="p">[</span>
|
||||
<span class="n">i</span> <span class="o">+</span> <span class="n">N</span><span class="p">,</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_HiddenBox__global_seednorm</span><span class="p">,</span>
|
||||
<span class="p">],</span>
|
||||
<span class="kc">False</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">worker_normalisation</span><span class="p">(</span><span class="n">hidden_box</span><span class="p">,</span> <span class="n">params</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="define_normalisation">
|
||||
<a class="viewcode-back" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">define_normalisation</span><span class="p">(</span>
|
||||
<span class="n">hidden_box</span><span class="p">:</span> <span class="n">HiddenBox</span><span class="p">,</span>
|
||||
<span class="n">Pbins</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">,</span>
|
||||
<span class="n">cosmo</span><span class="p">:</span> <span class="n">Dict</span><span class="p">[</span><span class="nb">str</span><span class="p">,</span> <span class="n">Any</span><span class="p">],</span>
|
||||
<span class="n">N</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">min_k_norma</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="n">MIN_K_NORMALISATION</span><span class="p">,</span>
|
||||
<span class="n">npar</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">1</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">-></span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""Define the normalisation constants for the HiddenBox instance.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> hidden_box : HiddenBox</span>
|
||||
<span class="sd"> Instance of the HiddenBox class.</span>
|
||||
<span class="sd"> Pbins : ndarray</span>
|
||||
<span class="sd"> Array of P bin values.</span>
|
||||
<span class="sd"> cosmo : dict</span>
|
||||
<span class="sd"> Cosmological and infrastructure parameters.</span>
|
||||
<span class="sd"> N : int</span>
|
||||
<span class="sd"> Number of realisations required.</span>
|
||||
<span class="sd"> min_k_norma : float, optional</span>
|
||||
<span class="sd"> Minimum k value to compute the normalisation constants.</span>
|
||||
<span class="sd"> npar : int, optional</span>
|
||||
<span class="sd"> Number of parallel processes to use. Default is 1.</span>
|
||||
<span class="sd"> force : bool, optional</span>
|
||||
<span class="sd"> If True, force recomputation. Default is False.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> norm_csts : ndarray</span>
|
||||
<span class="sd"> Normalisation constants for the HiddenBox instance.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">tqdm.auto</span> <span class="k">as</span> <span class="nn">tqdm</span>
|
||||
<span class="kn">from</span> <span class="nn">multiprocessing</span> <span class="kn">import</span> <span class="n">Pool</span>
|
||||
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_PrintMessage</span><span class="p">(</span>
|
||||
<span class="mi">0</span><span class="p">,</span>
|
||||
<span class="s2">"Defining normalisation constants..."</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_indent</span><span class="p">()</span>
|
||||
<span class="n">indices</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">where</span><span class="p">(</span><span class="n">Pbins</span> <span class="o">></span> <span class="n">min_k_norma</span><span class="p">)</span>
|
||||
<span class="n">tasks</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">hidden_box</span><span class="p">,</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="p">[</span>
|
||||
<span class="n">i</span><span class="p">,</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_HiddenBox__global_seednorm</span><span class="p">,</span>
|
||||
<span class="p">],</span>
|
||||
<span class="p">[</span>
|
||||
<span class="n">i</span> <span class="o">+</span> <span class="n">N</span><span class="p">,</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_HiddenBox__global_seednorm</span><span class="p">,</span>
|
||||
<span class="p">],</span>
|
||||
<span class="n">force</span><span class="p">,</span>
|
||||
<span class="p">),</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">N</span><span class="p">)</span>
|
||||
<span class="p">]</span>
|
||||
|
||||
<span class="n">ncors</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">cpu_count</span><span class="p">()</span>
|
||||
<span class="n">nprocs</span> <span class="o">=</span> <span class="nb">min</span><span class="p">(</span><span class="n">npar</span><span class="p">,</span> <span class="n">ncors</span><span class="p">)</span>
|
||||
|
||||
<span class="n">norm_csts_list</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">((</span><span class="n">hidden_box</span><span class="o">.</span><span class="n">_Npop</span><span class="p">,</span> <span class="n">N</span><span class="p">))</span>
|
||||
<span class="k">if</span> <span class="n">npar</span> <span class="o">></span> <span class="mi">1</span><span class="p">:</span>
|
||||
<span class="k">with</span> <span class="n">Pool</span><span class="p">(</span><span class="n">nprocs</span><span class="p">)</span> <span class="k">as</span> <span class="n">p</span><span class="p">:</span>
|
||||
<span class="k">for</span> <span class="n">j</span><span class="p">,</span> <span class="n">val</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span>
|
||||
<span class="n">tqdm</span><span class="o">.</span><span class="n">tqdm</span><span class="p">(</span>
|
||||
<span class="n">p</span><span class="o">.</span><span class="n">imap</span><span class="p">(</span>
|
||||
<span class="n">worker_normalisation_wrapper</span><span class="p">,</span>
|
||||
<span class="n">tasks</span><span class="p">,</span>
|
||||
<span class="p">),</span>
|
||||
<span class="n">total</span><span class="o">=</span><span class="n">N</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="p">):</span>
|
||||
<span class="n">norm_csts_list</span><span class="p">[:,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
|
||||
<span class="p">[</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span>
|
||||
<span class="n">val</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">Psingle</span> <span class="p">:</span> <span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">Psingle</span><span class="p">][</span><span class="n">indices</span><span class="p">]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">hidden_box</span><span class="o">.</span><span class="n">_Npop</span><span class="p">)</span>
|
||||
<span class="p">]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">for</span> <span class="n">j</span><span class="p">,</span> <span class="n">val</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span>
|
||||
<span class="n">tqdm</span><span class="o">.</span><span class="n">tqdm</span><span class="p">(</span>
|
||||
<span class="nb">map</span><span class="p">(</span>
|
||||
<span class="n">worker_normalisation_wrapper</span><span class="p">,</span>
|
||||
<span class="n">tasks</span><span class="p">,</span>
|
||||
<span class="p">),</span>
|
||||
<span class="n">total</span><span class="o">=</span><span class="n">N</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="p">):</span>
|
||||
<span class="n">val</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">val</span><span class="p">)</span>
|
||||
<span class="n">norm_csts_list</span><span class="p">[:,</span> <span class="n">j</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span>
|
||||
<span class="p">[</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">val</span><span class="p">[</span><span class="n">i</span> <span class="o">*</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">Psingle</span> <span class="p">:</span> <span class="p">(</span><span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="n">hidden_box</span><span class="o">.</span><span class="n">Psingle</span><span class="p">][</span><span class="n">indices</span><span class="p">])</span>
|
||||
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">hidden_box</span><span class="o">.</span><span class="n">_Npop</span><span class="p">)</span>
|
||||
<span class="p">]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">norm_csts</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">mean</span><span class="p">(</span><span class="n">norm_csts_list</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_unindent</span><span class="p">()</span>
|
||||
<span class="n">hidden_box</span><span class="o">.</span><span class="n">_PrintMessage</span><span class="p">(</span>
|
||||
<span class="mi">0</span><span class="p">,</span>
|
||||
<span class="s2">"Defining normalisation constants done."</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">norm_csts</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
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<hr/>
|
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<div role="contentinfo">
|
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<p>© Copyright 2025, Tristan Hoellinger.</p>
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</div>
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Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
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1028
docs/_modules/selfisys/prior.html
Normal file
1028
docs/_modules/selfisys/prior.html
Normal file
File diff suppressed because it is too large
Load diff
1212
docs/_modules/selfisys/sbmy_interface.html
Normal file
1212
docs/_modules/selfisys/sbmy_interface.html
Normal file
File diff suppressed because it is too large
Load diff
638
docs/_modules/selfisys/selection_functions.html
Normal file
638
docs/_modules/selfisys/selection_functions.html
Normal file
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|
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<!DOCTYPE html>
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<html class="writer-html5" lang="en" data-content_root="../../">
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<head>
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
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<title>selfisys.selection_functions — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
|
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</head>
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<div class="wy-grid-for-nav">
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<div class="wy-side-nav-search" >
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<a href="../../index.html" class="icon icon-home">
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SelfiSys
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</a>
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<form id="rtd-search-form" class="wy-form" action="../../search.html" method="get">
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</form>
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
|
||||
<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
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|
||||
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|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../REFERENCES.html">References</a></li>
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||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.selection_functions</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Selection functions to simulate galaxy populations.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
<span class="kn">from</span> <span class="nn">gc</span> <span class="kn">import</span> <span class="n">collect</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">import</span> <span class="nn">h5py</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection">[docs]</a>
|
||||
<span class="k">class</span> <span class="nc">LognormalSelection</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""Class to generate radial selection functions."""</span>
|
||||
|
||||
<span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span>
|
||||
<span class="bp">self</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">selection_params</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">survey_mask_path</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">local_select_path</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Initialise the LognormalSelection object.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Size of the simulation box (in Mpc/h). If not provided, it</span>
|
||||
<span class="sd"> must be set before calling init_selection and using</span>
|
||||
<span class="sd"> grid-dependent methods.</span>
|
||||
<span class="sd"> selection_params : tuple of arrays</span>
|
||||
<span class="sd"> Parameters for the selection functions (ss, mm, rr).</span>
|
||||
<span class="sd"> Required for calling init_selection.</span>
|
||||
<span class="sd"> survey_mask_path : str or None</span>
|
||||
<span class="sd"> Path to the survey mask file. Required for calling</span>
|
||||
<span class="sd"> init_selection.</span>
|
||||
<span class="sd"> local_select_path : str</span>
|
||||
<span class="sd"> Path where the selection function will be saved. Required</span>
|
||||
<span class="sd"> for calling init_selection.</span>
|
||||
<span class="sd"> size : int, optional</span>
|
||||
<span class="sd"> Number of grid points along each axis. If not provided, it</span>
|
||||
<span class="sd"> must be set before using grid-dependent methods.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">L</span> <span class="o">=</span> <span class="n">L</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">selection_params</span> <span class="o">=</span> <span class="n">selection_params</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">survey_mask_path</span> <span class="o">=</span> <span class="n">survey_mask_path</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">local_select_path</span> <span class="o">=</span> <span class="n">local_select_path</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">size</span> <span class="o">=</span> <span class="n">size</span>
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.r_grid">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">r_grid</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Compute the grid of radial distances in the simulation box.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ndarray</span>
|
||||
<span class="sd"> 3D array of radial distances from the origin.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
<span class="sd"> AttributeError</span>
|
||||
<span class="sd"> If the 'size' attribute is not defined.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">size</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">raise</span> <span class="ne">AttributeError</span><span class="p">(</span>
|
||||
<span class="s2">"The attribute 'size' must be defined to compute the radial grid."</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">L</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">raise</span> <span class="ne">AttributeError</span><span class="p">(</span><span class="s2">"The attribute 'L' must be defined to compute the radial grid."</span><span class="p">)</span>
|
||||
|
||||
<span class="n">range1d</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">L</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">size</span><span class="p">,</span> <span class="n">endpoint</span><span class="o">=</span><span class="kc">False</span><span class="p">)</span>
|
||||
<span class="n">xx</span><span class="p">,</span> <span class="n">yy</span><span class="p">,</span> <span class="n">zz</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">meshgrid</span><span class="p">(</span><span class="n">range1d</span><span class="p">,</span> <span class="n">range1d</span><span class="p">,</span> <span class="n">range1d</span><span class="p">)</span>
|
||||
<span class="n">x0</span> <span class="o">=</span> <span class="n">y0</span> <span class="o">=</span> <span class="n">z0</span> <span class="o">=</span> <span class="mf">0.0</span>
|
||||
<span class="n">r</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">((</span><span class="n">xx</span> <span class="o">-</span> <span class="n">x0</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="p">(</span><span class="n">yy</span> <span class="o">-</span> <span class="n">y0</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">+</span> <span class="p">(</span><span class="n">zz</span> <span class="o">-</span> <span class="n">z0</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span><span class="p">)</span> <span class="o">+</span> <span class="mf">1e-10</span>
|
||||
<span class="k">return</span> <span class="n">r</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.one_lognormal">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal">[docs]</a>
|
||||
<span class="nd">@staticmethod</span>
|
||||
<span class="k">def</span> <span class="nf">one_lognormal</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">std</span><span class="p">,</span> <span class="n">mean</span><span class="p">,</span> <span class="n">rescale</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Rescaled log-normal distribution.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> x : ndarray</span>
|
||||
<span class="sd"> Input array.</span>
|
||||
<span class="sd"> std : float</span>
|
||||
<span class="sd"> Standard deviation of the distribution.</span>
|
||||
<span class="sd"> mean : float</span>
|
||||
<span class="sd"> Mean of the distribution.</span>
|
||||
<span class="sd"> rescale : float, optional</span>
|
||||
<span class="sd"> Rescaling factor. If None, the distribution is normalised</span>
|
||||
<span class="sd"> such that its maximum value is 1.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ndarray</span>
|
||||
<span class="sd"> Log-normal distribution evaluated at x.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">mu</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">mean</span><span class="o">**</span><span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">std</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="n">mean</span><span class="o">**</span><span class="mi">2</span><span class="p">))</span>
|
||||
<span class="n">sig2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="n">std</span><span class="o">**</span><span class="mi">2</span> <span class="o">/</span> <span class="n">mean</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
|
||||
<span class="n">lognorm</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">sig2</span><span class="p">)</span> <span class="o">*</span> <span class="n">x</span><span class="p">))</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span>
|
||||
<span class="o">-</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="o">-</span> <span class="n">mu</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">sig2</span><span class="p">))</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">rescale</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="n">lognorm</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">lognorm</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="n">lognorm</span> <span class="o">*</span> <span class="n">rescale</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.multiple_lognormal">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">multiple_lognormal</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="n">mask</span><span class="p">,</span> <span class="n">ss</span><span class="p">,</span> <span class="n">ll</span><span class="p">,</span> <span class="n">rr</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Compute multiple log-normal distributions.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> x : ndarray</span>
|
||||
<span class="sd"> Input array.</span>
|
||||
<span class="sd"> mask : ndarray or None</span>
|
||||
<span class="sd"> Survey mask C(n).</span>
|
||||
<span class="sd"> ss : array_like</span>
|
||||
<span class="sd"> Standard deviations for each distribution.</span>
|
||||
<span class="sd"> ll : array_like</span>
|
||||
<span class="sd"> Means for each distribution.</span>
|
||||
<span class="sd"> rr : array_like</span>
|
||||
<span class="sd"> Rescaling factors for each distribution.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> list of ndarray</span>
|
||||
<span class="sd"> List of log-normal distributions.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">mask</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="n">mask</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ones_like</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
|
||||
<span class="k">return</span> <span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">one_lognormal</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">s</span><span class="p">,</span> <span class="n">l</span><span class="p">,</span> <span class="n">r</span><span class="p">)</span> <span class="o">*</span> <span class="n">mask</span> <span class="k">for</span> <span class="n">s</span><span class="p">,</span> <span class="n">l</span><span class="p">,</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">ss</span><span class="p">,</span> <span class="n">ll</span><span class="p">,</span> <span class="n">rr</span><span class="p">)]</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.one_lognormal_z">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z">[docs]</a>
|
||||
<span class="nd">@staticmethod</span>
|
||||
<span class="k">def</span> <span class="nf">one_lognormal_z</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">sig2</span><span class="p">,</span> <span class="n">mu</span><span class="p">,</span> <span class="n">rescale</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Compute a log-normal distribution in redshift.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> x : ndarray</span>
|
||||
<span class="sd"> Input array.</span>
|
||||
<span class="sd"> sig2 : float</span>
|
||||
<span class="sd"> Variance of the distribution.</span>
|
||||
<span class="sd"> mu : float</span>
|
||||
<span class="sd"> Mean of the distribution.</span>
|
||||
<span class="sd"> rescale : float, optional</span>
|
||||
<span class="sd"> Rescaling factor.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ndarray</span>
|
||||
<span class="sd"> Log-normal distribution evaluated at x.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">lognorm</span> <span class="o">=</span> <span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">sig2</span><span class="p">)</span> <span class="o">*</span> <span class="n">x</span><span class="p">))</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span>
|
||||
<span class="o">-</span><span class="p">((</span><span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="o">-</span> <span class="n">mu</span><span class="p">)</span> <span class="o">**</span> <span class="mi">2</span> <span class="o">/</span> <span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">sig2</span><span class="p">))</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">return</span> <span class="n">lognorm</span> <span class="o">*</span> <span class="n">rescale</span> <span class="k">if</span> <span class="n">rescale</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="k">else</span> <span class="n">lognorm</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.multiple_lognormal_z">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">multiple_lognormal_z</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">x</span><span class="p">,</span> <span class="n">mask</span><span class="p">,</span> <span class="n">ss</span><span class="p">,</span> <span class="n">mm</span><span class="p">,</span> <span class="n">rr</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute multiple rescaled lognormal distributions as functions</span>
|
||||
<span class="sd"> of redshift.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> x : ndarray</span>
|
||||
<span class="sd"> Input array (redshifts).</span>
|
||||
<span class="sd"> mask : ndarray or None</span>
|
||||
<span class="sd"> Survey mask C(n).</span>
|
||||
<span class="sd"> ss : array_like</span>
|
||||
<span class="sd"> Standard deviations of the lognormal distributions.</span>
|
||||
<span class="sd"> mm : array_like</span>
|
||||
<span class="sd"> Means of the lognormal distributions.</span>
|
||||
<span class="sd"> rr : array_like</span>
|
||||
<span class="sd"> Rescaling factors for each distribution.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> list of ndarray</span>
|
||||
<span class="sd"> List of log-normal distributions.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">mask</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="n">mask</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ones_like</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
|
||||
<span class="n">res</span> <span class="o">=</span> <span class="p">[]</span>
|
||||
<span class="n">maxima</span> <span class="o">=</span> <span class="p">[]</span>
|
||||
<span class="k">for</span> <span class="n">s</span><span class="p">,</span> <span class="n">m</span><span class="p">,</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">ss</span><span class="p">,</span> <span class="n">mm</span><span class="p">,</span> <span class="n">rr</span><span class="p">):</span>
|
||||
<span class="n">mu</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">m</span><span class="o">**</span><span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">s</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="n">m</span><span class="o">**</span><span class="mi">2</span><span class="p">))</span>
|
||||
<span class="n">sig2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="n">s</span><span class="o">**</span><span class="mi">2</span> <span class="o">/</span> <span class="n">m</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
|
||||
<span class="n">maxima</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">sig2</span> <span class="o">/</span> <span class="mi">2</span> <span class="o">-</span> <span class="n">mu</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">*</span> <span class="n">sig2</span><span class="p">)))</span>
|
||||
<span class="n">res</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">one_lognormal_z</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">sig2</span><span class="p">,</span> <span class="n">mu</span><span class="p">,</span> <span class="n">rescale</span><span class="o">=</span><span class="n">r</span><span class="p">)</span> <span class="o">*</span> <span class="n">mask</span><span class="p">)</span>
|
||||
<span class="nb">max</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">maxima</span><span class="p">)</span>
|
||||
<span class="n">res</span> <span class="o">=</span> <span class="p">[</span><span class="n">r</span> <span class="o">/</span> <span class="nb">max</span> <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="n">res</span><span class="p">]</span>
|
||||
<span class="k">return</span> <span class="n">res</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.lognormals_z_to_x">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">lognormals_z_to_x</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">xx</span><span class="p">,</span> <span class="n">mask</span><span class="p">,</span> <span class="n">params</span><span class="p">,</span> <span class="n">spline</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Convert log-normal distributions from redshift to distance.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> xx : array-like</span>
|
||||
<span class="sd"> Comoving distances at which to evaluate the distributions.</span>
|
||||
<span class="sd"> mask : ndarray or None</span>
|
||||
<span class="sd"> Survey mask C(n).</span>
|
||||
<span class="sd"> params : tuple of arrays</span>
|
||||
<span class="sd"> Parameters for the distributions (ss, mm, rr).</span>
|
||||
<span class="sd"> spline : UnivariateSpline</span>
|
||||
<span class="sd"> Linear interpolator for the distance-redshift relation.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> tuple</span>
|
||||
<span class="sd"> Tuple containing redshifts and list of distributions.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">ss</span><span class="p">,</span> <span class="n">mm</span><span class="p">,</span> <span class="n">rr</span> <span class="o">=</span> <span class="n">params</span>
|
||||
<span class="n">zs</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">maximum</span><span class="p">(</span><span class="mf">1e-4</span><span class="p">,</span> <span class="n">spline</span><span class="p">(</span><span class="n">xx</span><span class="p">))</span>
|
||||
<span class="n">res</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">multiple_lognormal_z</span><span class="p">(</span><span class="n">zs</span><span class="p">,</span> <span class="n">mask</span><span class="p">,</span> <span class="n">ss</span><span class="p">,</span> <span class="n">mm</span><span class="p">,</span> <span class="n">rr</span><span class="p">)</span>
|
||||
<span class="k">return</span> <span class="n">zs</span><span class="p">,</span> <span class="n">res</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="LognormalSelection.init_selection">
|
||||
<a class="viewcode-back" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">init_selection</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">reset</span><span class="o">=</span><span class="kc">False</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Initialise the radial selection functions.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> reset : bool, optional</span>
|
||||
<span class="sd"> Whether to reset the selection function.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="nb">any</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">survey_mask_path</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">local_select_path</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">]):</span>
|
||||
<span class="k">raise</span> <span class="ne">AttributeError</span><span class="p">(</span>
|
||||
<span class="s2">"Some attributes are missing to initialise the selection function."</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">local_select_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">reset</span><span class="p">:</span>
|
||||
<span class="kn">from</span> <span class="nn">scipy.interpolate</span> <span class="kn">import</span> <span class="n">UnivariateSpline</span>
|
||||
<span class="kn">from</span> <span class="nn">classy</span> <span class="kn">import</span> <span class="n">Class</span>
|
||||
<span class="kn">from</span> <span class="nn">astropy.cosmology</span> <span class="kn">import</span> <span class="n">FlatLambdaCDM</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.tools</span> <span class="kn">import</span> <span class="n">cosmo_vector_to_class_dict</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.global_parameters</span> <span class="kn">import</span> <span class="n">omegas_gt</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.plot_utils</span> <span class="kn">import</span> <span class="n">plot_selection_functions</span>
|
||||
|
||||
<span class="c1"># Redshift-distance relation</span>
|
||||
<span class="n">redshifts_upper_bound</span> <span class="o">=</span> <span class="mf">3.0</span>
|
||||
<span class="n">zz</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">redshifts_upper_bound</span><span class="p">,</span> <span class="mi">10_000</span><span class="p">)</span>
|
||||
<span class="n">cosmo</span> <span class="o">=</span> <span class="n">FlatLambdaCDM</span><span class="p">(</span><span class="n">H0</span><span class="o">=</span><span class="mi">100</span> <span class="o">*</span> <span class="n">omegas_gt</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span> <span class="n">Ob0</span><span class="o">=</span><span class="n">omegas_gt</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span> <span class="n">Om0</span><span class="o">=</span><span class="n">omegas_gt</span><span class="p">[</span><span class="mi">2</span><span class="p">])</span>
|
||||
<span class="n">d</span> <span class="o">=</span> <span class="n">cosmo</span><span class="o">.</span><span class="n">comoving_distance</span><span class="p">(</span><span class="n">zz</span><span class="p">)</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="mf">1e3</span> <span class="c1"># -> Gpc/h</span>
|
||||
<span class="n">spline</span> <span class="o">=</span> <span class="n">UnivariateSpline</span><span class="p">(</span><span class="n">d</span><span class="p">,</span> <span class="n">zz</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">s</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Plot the selection functions</span>
|
||||
<span class="n">L</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">L</span> <span class="o">/</span> <span class="mf">1e3</span>
|
||||
<span class="n">Lcorner</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="o">*</span> <span class="n">L</span>
|
||||
<span class="n">zcorner</span> <span class="o">=</span> <span class="n">zz</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">argmin</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">d</span> <span class="o">-</span> <span class="n">Lcorner</span><span class="p">))]</span>
|
||||
|
||||
<span class="c1"># Get linear growth factor from CLASS</span>
|
||||
<span class="n">cosmo_dict</span> <span class="o">=</span> <span class="n">cosmo_vector_to_class_dict</span><span class="p">(</span><span class="n">omegas_gt</span><span class="p">)</span>
|
||||
<span class="n">cosmo_class</span> <span class="o">=</span> <span class="n">Class</span><span class="p">()</span>
|
||||
<span class="n">cosmo_class</span><span class="o">.</span><span class="n">set</span><span class="p">(</span><span class="n">cosmo_dict</span><span class="p">)</span>
|
||||
<span class="n">cosmo_class</span><span class="o">.</span><span class="n">compute</span><span class="p">()</span>
|
||||
<span class="n">Dz</span> <span class="o">=</span> <span class="n">cosmo_class</span><span class="o">.</span><span class="n">get_background</span><span class="p">()[</span><span class="s2">"gr.fac. D"</span><span class="p">]</span>
|
||||
<span class="n">redshifts</span> <span class="o">=</span> <span class="n">cosmo_class</span><span class="o">.</span><span class="n">get_background</span><span class="p">()[</span><span class="s2">"z"</span><span class="p">]</span>
|
||||
<span class="n">cosmo_class</span><span class="o">.</span><span class="n">struct_cleanup</span><span class="p">()</span>
|
||||
<span class="n">cosmo_class</span><span class="o">.</span><span class="n">empty</span><span class="p">()</span>
|
||||
|
||||
<span class="c1"># Define the axis for the plot</span>
|
||||
<span class="n">xx</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">1e-5</span><span class="p">,</span> <span class="n">Lcorner</span><span class="p">,</span> <span class="mi">1000</span><span class="p">)</span>
|
||||
<span class="n">zz</span><span class="p">,</span> <span class="n">res</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">lognormals_z_to_x</span><span class="p">(</span>
|
||||
<span class="n">xx</span><span class="p">,</span>
|
||||
<span class="kc">None</span><span class="p">,</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">selection_params</span><span class="p">,</span>
|
||||
<span class="n">spline</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Call auxiliary plotting routine</span>
|
||||
<span class="n">plot_selection_functions</span><span class="p">(</span>
|
||||
<span class="n">xx</span><span class="p">,</span>
|
||||
<span class="n">res</span><span class="p">,</span>
|
||||
<span class="kc">None</span><span class="p">,</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">selection_params</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="o">*</span> <span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">zz</span><span class="o">=</span><span class="n">zz</span><span class="p">,</span>
|
||||
<span class="n">zcorner</span><span class="o">=</span><span class="n">zcorner</span><span class="p">,</span>
|
||||
<span class="n">path</span><span class="o">=</span><span class="bp">self</span><span class="o">.</span><span class="n">local_select_path</span><span class="p">[:</span><span class="o">-</span><span class="mi">3</span><span class="p">]</span> <span class="o">+</span> <span class="s2">".png"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Compute the selection function and save it to disk</span>
|
||||
<span class="n">survey_mask</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">survey_mask_path</span><span class="p">)</span> <span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">survey_mask_path</span> <span class="k">else</span> <span class="kc">None</span>
|
||||
<span class="n">r</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">r_grid</span><span class="p">()</span> <span class="o">/</span> <span class="mf">1e3</span> <span class="c1"># Convert to Gpc/h</span>
|
||||
<span class="n">_</span><span class="p">,</span> <span class="n">select_fct</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">lognormals_z_to_x</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="n">survey_mask</span><span class="p">,</span> <span class="bp">self</span><span class="o">.</span><span class="n">selection_params</span><span class="p">,</span> <span class="n">spline</span><span class="p">)</span>
|
||||
<span class="k">with</span> <span class="n">h5py</span><span class="o">.</span><span class="n">File</span><span class="p">(</span><span class="bp">self</span><span class="o">.</span><span class="n">local_select_path</span><span class="p">,</span> <span class="s2">"w"</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
<span class="n">f</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"select_fct"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">select_fct</span><span class="p">)</span>
|
||||
|
||||
<span class="k">del</span> <span class="n">survey_mask</span><span class="p">,</span> <span class="n">r</span><span class="p">,</span> <span class="n">d</span><span class="p">,</span> <span class="n">zz</span><span class="p">,</span> <span class="n">spline</span><span class="p">,</span> <span class="n">select_fct</span>
|
||||
<span class="n">collect</span><span class="p">()</span></div>
|
||||
</div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
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|
||||
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367
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Normal file
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference internal" href="../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
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</nav>
|
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<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../index.html">SelfiSys</a>
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</nav>
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<div class="rst-content style-external-links">
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<li><a href="../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.selfi_interface</li>
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<li class="wy-breadcrumbs-aside">
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</li>
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</ul>
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<hr/>
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|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.selfi_interface</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Provides simple wrappers around pyselfi.utils functions for the SelfiSys</span>
|
||||
<span class="sd">pipeline.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="PrintMessage">
|
||||
<a class="viewcode-back" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">PrintMessage</span><span class="p">(</span><span class="n">required_verbosity</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span> <span class="n">message</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">verbosity</span><span class="p">:</span> <span class="nb">int</span><span class="p">)</span> <span class="o">-></span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Print a message to standard output using pyselfi.utils.PrintMessage.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> required_verbosity : int</span>
|
||||
<span class="sd"> The verbosity level required to display the message.</span>
|
||||
<span class="sd"> message : str</span>
|
||||
<span class="sd"> The actual message to display.</span>
|
||||
<span class="sd"> verbosity : int</span>
|
||||
<span class="sd"> The current verbosity level (0=quiet, 1=normal, 2=debug).</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">pyselfi.utils</span> <span class="kn">import</span> <span class="n">PrintMessage</span> <span class="k">as</span> <span class="n">PSMessage</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">verbosity</span> <span class="o">>=</span> <span class="n">required_verbosity</span><span class="p">:</span>
|
||||
<span class="n">PSMessage</span><span class="p">(</span><span class="mi">3</span><span class="p">,</span> <span class="n">message</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="indent">
|
||||
<a class="viewcode-back" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">indent</span><span class="p">()</span> <span class="o">-></span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""Indent the standard output using pyselfi.utils."""</span>
|
||||
<span class="kn">from</span> <span class="nn">pyselfi.utils</span> <span class="kn">import</span> <span class="n">INDENT</span>
|
||||
|
||||
<span class="n">INDENT</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="unindent">
|
||||
<a class="viewcode-back" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">unindent</span><span class="p">()</span> <span class="o">-></span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""Unindent the standard output using pyselfi.utils."""</span>
|
||||
<span class="kn">from</span> <span class="nn">pyselfi.utils</span> <span class="kn">import</span> <span class="n">UNINDENT</span>
|
||||
|
||||
<span class="n">UNINDENT</span><span class="p">()</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
|
||||
</div>
|
||||
|
||||
Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
|
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<a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
|
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provided by <a href="https://readthedocs.org">Read the Docs</a>.
|
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</footer>
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|
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</div>
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</section>
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<script>
|
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jQuery(function () {
|
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SphinxRtdTheme.Navigation.enable(true);
|
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});
|
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</script>
|
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|
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</body>
|
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</html>
|
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645
docs/_modules/selfisys/setup_model.html
Normal file
645
docs/_modules/selfisys/setup_model.html
Normal file
|
|
@ -0,0 +1,645 @@
|
|||
|
||||
|
||||
<!DOCTYPE html>
|
||||
<html class="writer-html5" lang="en" data-content_root="../../">
|
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<head>
|
||||
<meta charset="utf-8" />
|
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
|
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<title>selfisys.setup_model — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=80d5e7a1" />
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<script src="../../_static/jquery.js?v=5d32c60e"></script>
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<script src="../../_static/doctools.js?v=9bcbadda"></script>
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<script src="../../_static/js/theme.js"></script>
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<link rel="index" title="Index" href="../../genindex.html" />
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<link rel="search" title="Search" href="../../search.html" />
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</head>
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<body class="wy-body-for-nav">
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<div class="wy-grid-for-nav">
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<nav data-toggle="wy-nav-shift" class="wy-nav-side">
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<div class="wy-side-scroll">
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<div class="wy-side-nav-search" >
|
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference internal" href="../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
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<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#python-code">Python code</a></li>
|
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<li class="toctree-l3"><a class="reference internal" href="../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
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||||
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||||
<li class="toctree-l2"><a class="reference internal" href="../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
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||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../REFERENCES.html">References</a></li>
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</ul>
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<li><a href="../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.setup_model</li>
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<li class="wy-breadcrumbs-aside">
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<hr/>
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
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<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.setup_model</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Set up parameters related to the grid and the fiducial power spectrum.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">os.path</span>
|
||||
<span class="kn">import</span> <span class="nn">gc</span>
|
||||
<span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Optional</span><span class="p">,</span> <span class="n">NamedTuple</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">from</span> <span class="nn">h5py</span> <span class="kn">import</span> <span class="n">File</span>
|
||||
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.power</span> <span class="kn">import</span> <span class="n">PowerSpectrum</span><span class="p">,</span> <span class="n">FourierGrid</span><span class="p">,</span> <span class="n">get_Pk</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.logger</span> <span class="kn">import</span> <span class="n">getCustomLogger</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.tools</span> <span class="kn">import</span> <span class="n">get_k_max</span>
|
||||
|
||||
<span class="n">logger</span> <span class="o">=</span> <span class="n">getCustomLogger</span><span class="p">(</span><span class="vm">__name__</span><span class="p">)</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="ModelSetup">
|
||||
<a class="viewcode-back" href="../../selfisys.setup_model.html#selfisys.setup_model.ModelSetup">[docs]</a>
|
||||
<span class="k">class</span> <span class="nc">ModelSetup</span><span class="p">(</span><span class="n">NamedTuple</span><span class="p">):</span>
|
||||
<span class="n">size</span><span class="p">:</span> <span class="nb">int</span>
|
||||
<span class="n">L</span><span class="p">:</span> <span class="nb">float</span>
|
||||
<span class="n">P</span><span class="p">:</span> <span class="nb">int</span>
|
||||
<span class="n">S</span><span class="p">:</span> <span class="nb">int</span>
|
||||
<span class="n">G_sim_path</span><span class="p">:</span> <span class="nb">str</span>
|
||||
<span class="n">G_ss_path</span><span class="p">:</span> <span class="nb">str</span>
|
||||
<span class="n">Pbins_bnd</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span>
|
||||
<span class="n">Pbins</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span>
|
||||
<span class="n">k_s</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span>
|
||||
<span class="n">P_ss_obj_path</span><span class="p">:</span> <span class="nb">str</span>
|
||||
<span class="n">P_0</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span>
|
||||
<span class="n">planck_Pk</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="setup_model">
|
||||
<a class="viewcode-back" href="../../selfisys.setup_model.html#selfisys.setup_model.setup_model">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">setup_model</span><span class="p">(</span>
|
||||
<span class="n">workdir</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">params_planck</span><span class="p">:</span> <span class="nb">dict</span><span class="p">,</span>
|
||||
<span class="n">params_P0</span><span class="p">:</span> <span class="nb">dict</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">256</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">3600.0</span><span class="p">,</span>
|
||||
<span class="n">S</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">100</span><span class="p">,</span>
|
||||
<span class="n">N_exact</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">8</span><span class="p">,</span>
|
||||
<span class="n">Pinit</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">50</span><span class="p">,</span>
|
||||
<span class="n">trim_threshold</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">100</span><span class="p">,</span>
|
||||
<span class="n">minval</span><span class="p">:</span> <span class="n">Optional</span><span class="p">[</span><span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">maxval</span><span class="p">:</span> <span class="n">Optional</span><span class="p">[</span><span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">-></span> <span class="n">ModelSetup</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Set up the model by computing or loading necessary grids and</span>
|
||||
<span class="sd"> parameters.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> workdir : str</span>
|
||||
<span class="sd"> Directory where the results will be stored.</span>
|
||||
<span class="sd"> params_planck : dict</span>
|
||||
<span class="sd"> Parameters for the Planck 2018 cosmology.</span>
|
||||
<span class="sd"> params_P0 : dict</span>
|
||||
<span class="sd"> Parameters for the normalisation power spectrum.</span>
|
||||
<span class="sd"> size : int</span>
|
||||
<span class="sd"> Number of elements in each direction of the box.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Comoving length of the box in Mpc/h.</span>
|
||||
<span class="sd"> S : int</span>
|
||||
<span class="sd"> Number of support wavenumbers for the input power spectra.</span>
|
||||
<span class="sd"> N_exact : int</span>
|
||||
<span class="sd"> Number of support wavenumbers matching the Fourier grid.</span>
|
||||
<span class="sd"> Pinit : int</span>
|
||||
<span class="sd"> Maximum number of bins for the summaries.</span>
|
||||
<span class="sd"> trim_threshold : int</span>
|
||||
<span class="sd"> Minimum number of modes required per bin.</span>
|
||||
<span class="sd"> minval : float, optional</span>
|
||||
<span class="sd"> Minimum k value for the summaries.</span>
|
||||
<span class="sd"> maxval : float, optional</span>
|
||||
<span class="sd"> Maximum k value for the summaries.</span>
|
||||
<span class="sd"> force : bool</span>
|
||||
<span class="sd"> If True, forces recomputation of the inputs.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ModelSetup</span>
|
||||
<span class="sd"> A named tuple containing:</span>
|
||||
<span class="sd"> - size (int): Number of elements in each direction of the box.</span>
|
||||
<span class="sd"> - L (float): Comoving length of the box in Mpc/h.</span>
|
||||
<span class="sd"> - P (int): Number of bins for the summaries.</span>
|
||||
<span class="sd"> - S (int): Number of support wavenumbers for input powerspectra.</span>
|
||||
<span class="sd"> - G_sim_path (str): Path to the full Fourier grid file.</span>
|
||||
<span class="sd"> - G_ss_path (str): Path to the Fourier grid for summaries file.</span>
|
||||
<span class="sd"> - Pbins_bnd (np.ndarray): Boundaries of summary bins.</span>
|
||||
<span class="sd"> - Pbins (np.ndarray): Centres of the bins for the summaries.</span>
|
||||
<span class="sd"> - k_s (np.ndarray): Support wavenumbers for input power spectra.</span>
|
||||
<span class="sd"> - P_ss_obj_path (str): Path to the summary power spectrum file.</span>
|
||||
<span class="sd"> - P_0 (np.ndarray): Normalisation power spectrum values.</span>
|
||||
<span class="sd"> - planck_Pk (np.ndarray): Planck 2018 power spectrum values.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="c1"># Check input parameters</span>
|
||||
<span class="k">if</span> <span class="n">N_exact</span> <span class="o"><</span> <span class="mi">0</span> <span class="ow">or</span> <span class="n">N_exact</span> <span class="o">></span> <span class="n">S</span><span class="p">:</span>
|
||||
<span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">"Parameter 'N_exact' must be between 0 and 'S'."</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Define file paths</span>
|
||||
<span class="n">G_sim_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"G_sim.h5"</span><span class="p">)</span>
|
||||
<span class="n">k_s_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"k_s.npy"</span><span class="p">)</span>
|
||||
<span class="n">G_ss_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"G_ss.h5"</span><span class="p">)</span>
|
||||
<span class="n">P_ss_obj_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"P_ss_obj.h5"</span><span class="p">)</span>
|
||||
<span class="n">P_0_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"P_0.npy"</span><span class="p">)</span>
|
||||
<span class="n">theta_planck_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"theta_planck.npy"</span><span class="p">)</span>
|
||||
<span class="n">Pbins_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"Pbins.npy"</span><span class="p">)</span>
|
||||
<span class="n">Pbins_bnd_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"Pbins_bnd.npy"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Compute or load the full Fourier grid</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">G_sim_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s2">"Computing Fourier grid..."</span><span class="p">)</span>
|
||||
<span class="n">G_sim</span> <span class="o">=</span> <span class="n">FourierGrid</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">size</span><span class="p">)</span>
|
||||
<span class="n">G_sim</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">G_sim_path</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s2">"Computing Fourier grid done."</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s2">"Loading Fourier grid."</span><span class="p">)</span>
|
||||
<span class="n">G_sim</span> <span class="o">=</span> <span class="n">FourierGrid</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">G_sim_path</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Determine minimum and maximum k values</span>
|
||||
<span class="k">if</span> <span class="n">minval</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="n">minval</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span><span class="p">[</span><span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">])</span>
|
||||
<span class="k">if</span> <span class="n">maxval</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="n">maxval</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">*</span> <span class="n">size</span> <span class="o">/</span> <span class="n">L</span> <span class="c1"># 1D Nyquist frequency</span>
|
||||
|
||||
<span class="c1"># Compute or load support wavenumbers for the input power spectrum</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">k_s_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="s2">"Computing input power spectrum support wavenumbers..."</span><span class="p">)</span>
|
||||
<span class="n">k_s</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="n">S</span><span class="p">)</span>
|
||||
<span class="n">sorted_knorms</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span><span class="o">.</span><span class="n">flatten</span><span class="p">())</span>
|
||||
<span class="n">unique_indices</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">round</span><span class="p">(</span><span class="n">sorted_knorms</span><span class="p">,</span> <span class="mi">5</span><span class="p">),</span> <span class="n">return_index</span><span class="o">=</span><span class="kc">True</span><span class="p">)[</span><span class="mi">1</span><span class="p">]</span>
|
||||
<span class="n">sorted_knorms_corrected</span> <span class="o">=</span> <span class="n">sorted_knorms</span><span class="p">[</span><span class="n">unique_indices</span><span class="p">]</span>
|
||||
<span class="n">k_s</span><span class="p">[:</span><span class="n">N_exact</span><span class="p">]</span> <span class="o">=</span> <span class="n">sorted_knorms_corrected</span><span class="p">[</span><span class="mi">1</span> <span class="p">:</span> <span class="n">N_exact</span> <span class="o">+</span> <span class="mi">1</span><span class="p">]</span>
|
||||
<span class="n">k_s_max</span> <span class="o">=</span> <span class="n">get_k_max</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">size</span><span class="p">)</span>
|
||||
<span class="n">k_s</span><span class="p">[</span><span class="n">N_exact</span><span class="p">:]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">logspace</span><span class="p">(</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="n">sorted_knorms_corrected</span><span class="p">[</span><span class="n">N_exact</span><span class="p">]),</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="n">k_s_max</span><span class="p">),</span>
|
||||
<span class="n">S</span> <span class="o">-</span> <span class="n">N_exact</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span>
|
||||
<span class="p">)[</span><span class="mi">1</span><span class="p">:]</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">k_s_path</span><span class="p">,</span> <span class="n">k_s</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="s2">"Computing input power spectrum support wavenumbers done."</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="s2">"Loading input power spectrum support wavenumbers."</span><span class="p">)</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">k_s</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">k_s_path</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="p">(</span><span class="ne">IOError</span><span class="p">,</span> <span class="ne">FileNotFoundError</span><span class="p">)</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Failed to load k_s from </span><span class="si">{</span><span class="n">k_s_path</span><span class="si">}</span><span class="s2">: </span><span class="si">{</span><span class="n">e</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
|
||||
<span class="c1"># Initialise Pbins</span>
|
||||
<span class="n">Pbins_left_bnds_init</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">logspace</span><span class="p">(</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="n">minval</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">log10</span><span class="p">(</span><span class="n">maxval</span><span class="p">),</span> <span class="n">Pinit</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">dtype</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">float32</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">Pbins_left_bnds_init</span> <span class="o">=</span> <span class="n">Pbins_left_bnds_init</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
|
||||
|
||||
<span class="c1"># Compute or load Fourier grid for the summaries</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">G_ss_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">G_ss</span> <span class="o">=</span> <span class="n">FourierGrid</span><span class="p">(</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="p">,</span>
|
||||
<span class="n">k_modes</span><span class="o">=</span><span class="n">Pbins_left_bnds_init</span><span class="p">,</span>
|
||||
<span class="n">kmax</span><span class="o">=</span><span class="n">maxval</span><span class="p">,</span>
|
||||
<span class="n">trim_bins</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
|
||||
<span class="n">trim_threshold</span><span class="o">=</span><span class="n">trim_threshold</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">G_ss</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">G_ss_path</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">G_ss</span> <span class="o">=</span> <span class="n">FourierGrid</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">G_ss_path</span><span class="p">)</span>
|
||||
<span class="n">P</span> <span class="o">=</span> <span class="n">G_ss</span><span class="o">.</span><span class="n">NUM_MODES</span>
|
||||
|
||||
<span class="c1"># Compute or load Pbins and Pbins_bnd</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">Pbins_path</span><span class="p">)</span> <span class="ow">or</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">Pbins_bnd_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">k_ss_max_offset</span> <span class="o">=</span> <span class="n">Pbins_left_bnds_init</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">-</span> <span class="n">Pbins_left_bnds_init</span><span class="p">[</span><span class="o">-</span><span class="mi">2</span><span class="p">]</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="sa">f</span><span class="s2">"k_ss_max_offset: </span><span class="si">{</span><span class="n">k_ss_max_offset</span><span class="si">:</span><span class="s2">.5f</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="n">Pbins_bnd</span> <span class="o">=</span> <span class="n">G_ss</span><span class="o">.</span><span class="n">k_modes</span>
|
||||
<span class="n">Pbins_bnd</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="n">Pbins_bnd</span><span class="p">,</span> <span class="p">[</span><span class="n">Pbins_bnd</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span> <span class="o">+</span> <span class="n">k_ss_max_offset</span><span class="p">]])</span>
|
||||
<span class="n">Pbins</span> <span class="o">=</span> <span class="p">(</span><span class="n">Pbins_bnd</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="o">+</span> <span class="n">Pbins_bnd</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">])</span> <span class="o">/</span> <span class="mi">2</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">Pbins_path</span><span class="p">,</span> <span class="n">Pbins</span><span class="p">)</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">Pbins_bnd_path</span><span class="p">,</span> <span class="n">Pbins_bnd</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">Pbins</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">Pbins_path</span><span class="p">)</span>
|
||||
<span class="n">Pbins_bnd</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">Pbins_bnd_path</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="p">(</span><span class="ne">IOError</span><span class="p">,</span> <span class="ne">FileNotFoundError</span><span class="p">)</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Failed to load Pbins or Pbins_bnd: </span><span class="si">{</span><span class="n">e</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
|
||||
<span class="c1"># Compute or load BBKS spectrum for normalisation</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">P_0_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">P_0</span> <span class="o">=</span> <span class="n">get_Pk</span><span class="p">(</span><span class="n">k_s</span><span class="p">,</span> <span class="n">params_P0</span><span class="p">)</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">P_0_path</span><span class="p">,</span> <span class="n">P_0</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">P_0</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">P_0_path</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="p">(</span><span class="ne">IOError</span><span class="p">,</span> <span class="ne">FileNotFoundError</span><span class="p">)</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Failed to load P_0 from </span><span class="si">{</span><span class="n">P_0_path</span><span class="si">}</span><span class="s2">: </span><span class="si">{</span><span class="n">e</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">P_ss_obj_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">P_0_ss</span> <span class="o">=</span> <span class="n">get_Pk</span><span class="p">(</span><span class="n">G_ss</span><span class="o">.</span><span class="n">k_modes</span><span class="p">,</span> <span class="n">params_P0</span><span class="p">)</span>
|
||||
<span class="n">P_ss_obj</span> <span class="o">=</span> <span class="n">PowerSpectrum</span><span class="o">.</span><span class="n">from_FourierGrid</span><span class="p">(</span><span class="n">G_ss</span><span class="p">,</span> <span class="n">powerspectrum</span><span class="o">=</span><span class="n">P_0_ss</span><span class="p">,</span> <span class="n">cosmo</span><span class="o">=</span><span class="n">params_P0</span><span class="p">)</span>
|
||||
<span class="n">P_ss_obj</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">P_ss_obj_path</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">P_ss_obj</span> <span class="o">=</span> <span class="n">PowerSpectrum</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">P_ss_obj_path</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Compute or load Planck power spectrum</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">theta_planck_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">planck_Pk</span> <span class="o">=</span> <span class="n">get_Pk</span><span class="p">(</span><span class="n">k_s</span><span class="p">,</span> <span class="n">params_planck</span><span class="p">)</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">theta_planck_path</span><span class="p">,</span> <span class="n">planck_Pk</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">planck_Pk</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">theta_planck_path</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="p">(</span><span class="ne">IOError</span><span class="p">,</span> <span class="ne">FileNotFoundError</span><span class="p">)</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Failed to load theta_planck from </span><span class="si">{</span><span class="n">theta_planck_path</span><span class="si">}</span><span class="s2">: </span><span class="si">{</span><span class="n">e</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
|
||||
<span class="c1"># Clean up</span>
|
||||
<span class="k">del</span> <span class="n">G_sim</span><span class="p">,</span> <span class="n">G_ss</span><span class="p">,</span> <span class="n">P_ss_obj</span><span class="p">,</span> <span class="n">Pbins_left_bnds_init</span>
|
||||
<span class="n">gc</span><span class="o">.</span><span class="n">collect</span><span class="p">()</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">ModelSetup</span><span class="p">(</span>
|
||||
<span class="n">size</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">P</span><span class="p">,</span>
|
||||
<span class="n">S</span><span class="p">,</span>
|
||||
<span class="n">G_sim_path</span><span class="p">,</span>
|
||||
<span class="n">G_ss_path</span><span class="p">,</span>
|
||||
<span class="n">Pbins_bnd</span><span class="p">,</span>
|
||||
<span class="n">Pbins</span><span class="p">,</span>
|
||||
<span class="n">k_s</span><span class="p">,</span>
|
||||
<span class="n">P_ss_obj_path</span><span class="p">,</span>
|
||||
<span class="n">P_0</span><span class="p">,</span>
|
||||
<span class="n">planck_Pk</span><span class="p">,</span>
|
||||
<span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="compute_alpha_cv">
|
||||
<a class="viewcode-back" href="../../selfisys.setup_model.html#selfisys.setup_model.compute_alpha_cv">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">compute_alpha_cv</span><span class="p">(</span>
|
||||
<span class="n">workdir</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">k_s</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">:</span> <span class="nb">float</span><span class="p">,</span>
|
||||
<span class="n">window_fct_path</span><span class="p">:</span> <span class="n">Optional</span><span class="p">[</span><span class="nb">str</span><span class="p">]</span> <span class="o">=</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">force</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">-></span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute the cosmic variance parameter alpha_cv.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> workdir : str</span>
|
||||
<span class="sd"> Directory where the results will be stored.</span>
|
||||
<span class="sd"> k_s : np.ndarray</span>
|
||||
<span class="sd"> Support wavenumbers.</span>
|
||||
<span class="sd"> size : int</span>
|
||||
<span class="sd"> Number of elements in each direction of the box.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Comoving length of the box in Mpc/h.</span>
|
||||
<span class="sd"> window_fct_path : str, optional</span>
|
||||
<span class="sd"> Path to the window function file.</span>
|
||||
<span class="sd"> force : bool</span>
|
||||
<span class="sd"> If True, forces recomputation of the inputs.</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">scipy.optimize</span> <span class="kn">import</span> <span class="n">curve_fit</span>
|
||||
|
||||
<span class="n">alpha_cv_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"alpha_cv.npy"</span><span class="p">)</span>
|
||||
<span class="n">alpha_cv_eff_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"alpha_cv_eff.npy"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">alpha_cv_path</span><span class="p">)</span> <span class="ow">or</span> <span class="n">force</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="s2">"Computing cosmic variance alpha_cv..."</span><span class="p">)</span>
|
||||
<span class="n">k_s_bnd</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">([</span><span class="n">k_s</span><span class="p">,</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">inf</span><span class="p">]])</span>
|
||||
|
||||
<span class="n">G_sim</span> <span class="o">=</span> <span class="n">FourierGrid</span><span class="o">.</span><span class="n">read</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">workdir</span><span class="p">,</span> <span class="s2">"G_sim.h5"</span><span class="p">))</span><span class="o">.</span><span class="n">k_modes</span><span class="o">.</span><span class="n">flatten</span><span class="p">()</span>
|
||||
<span class="n">knorms</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">G_sim</span><span class="p">)</span>
|
||||
|
||||
<span class="n">Nks</span><span class="p">,</span> <span class="n">_</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">histogram</span><span class="p">(</span><span class="n">knorms</span><span class="p">,</span> <span class="n">bins</span><span class="o">=</span><span class="n">k_s_bnd</span><span class="p">)</span>
|
||||
|
||||
<span class="k">del</span> <span class="n">knorms</span><span class="p">,</span> <span class="n">G_sim</span>
|
||||
|
||||
<span class="n">nyquist_frequency</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">*</span> <span class="n">size</span> <span class="o">/</span> <span class="n">L</span>
|
||||
<span class="n">idx_nyquist</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">searchsorted</span><span class="p">(</span><span class="n">k_s</span><span class="p">,</span> <span class="n">nyquist_frequency</span><span class="p">)</span>
|
||||
|
||||
<span class="k">def</span> <span class="nf">cubic_func</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">a</span><span class="p">):</span>
|
||||
<span class="k">return</span> <span class="n">a</span> <span class="o">*</span> <span class="n">x</span><span class="o">**</span><span class="mi">3</span>
|
||||
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">popt</span><span class="p">,</span> <span class="n">_</span> <span class="o">=</span> <span class="n">curve_fit</span><span class="p">(</span><span class="n">cubic_func</span><span class="p">,</span> <span class="n">k_s</span><span class="p">[:</span><span class="n">idx_nyquist</span><span class="p">],</span> <span class="n">Nks</span><span class="p">[:</span><span class="n">idx_nyquist</span><span class="p">])</span>
|
||||
<span class="k">except</span> <span class="ne">RuntimeError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Curve fitting failed: </span><span class="si">{</span><span class="n">e</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="k">raise</span>
|
||||
|
||||
<span class="n">alpha_cv</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="n">popt</span><span class="p">[</span><span class="mi">0</span><span class="p">])</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">alpha_cv_path</span><span class="p">,</span> <span class="n">alpha_cv</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Computing cosmic variance alpha_cv done. alpha_cv = </span><span class="si">{</span><span class="n">alpha_cv</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">window_fct_path</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="c1"># Compute alpha_cv with approximate correction for the effective volume</span>
|
||||
<span class="n">nnz</span> <span class="o">=</span> <span class="mi">0</span>
|
||||
<span class="k">with</span> <span class="n">File</span><span class="p">(</span><span class="n">window_fct_path</span><span class="p">,</span> <span class="s2">"r"</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
<span class="k">for</span> <span class="n">ipop</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">3</span><span class="p">):</span>
|
||||
<span class="n">mask</span> <span class="o">=</span> <span class="n">f</span><span class="p">[</span><span class="s2">"select_fct"</span><span class="p">][:][</span><span class="n">ipop</span><span class="p">]</span>
|
||||
<span class="n">nnz</span> <span class="o">+=</span> <span class="n">np</span><span class="o">.</span><span class="n">sum</span><span class="p">(</span><span class="n">mask</span><span class="p">)</span>
|
||||
<span class="n">nnz_size</span> <span class="o">=</span> <span class="n">nnz</span> <span class="o">**</span> <span class="p">(</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">3.0</span><span class="p">)</span> <span class="c1"># Side length of a cube containing nnz voxels</span>
|
||||
<span class="n">eff_L</span> <span class="o">=</span> <span class="n">nnz_size</span> <span class="o">*</span> <span class="n">L</span> <span class="o">/</span> <span class="n">size</span>
|
||||
|
||||
<span class="n">alpha_cv_eff</span> <span class="o">=</span> <span class="n">alpha_cv</span> <span class="o">*</span> <span class="p">(</span><span class="n">L</span> <span class="o">/</span> <span class="n">eff_L</span><span class="p">)</span> <span class="o">**</span> <span class="mf">1.5</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Effective length: </span><span class="si">{</span><span class="n">eff_L</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mf">1e-3</span><span class="si">}</span><span class="s2"> Gpc/h"</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Effective volume: </span><span class="si">{</span><span class="p">(</span><span class="n">eff_L</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mf">1e-3</span><span class="p">)</span><span class="w"> </span><span class="o">**</span><span class="w"> </span><span class="mi">3</span><span class="si">}</span><span class="s2"> (Gpc/h)^3"</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">info</span><span class="p">(</span><span class="sa">f</span><span class="s2">"alpha_cv_eff = </span><span class="si">{</span><span class="n">alpha_cv_eff</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
<span class="n">np</span><span class="o">.</span><span class="n">save</span><span class="p">(</span><span class="n">alpha_cv_eff_path</span><span class="p">,</span> <span class="n">alpha_cv_eff</span><span class="p">)</span>
|
||||
|
||||
<span class="n">gc</span><span class="o">.</span><span class="n">collect</span><span class="p">()</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
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|
||||
|
||||
<hr/>
|
||||
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||||
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|
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342
docs/_modules/selfisys/utils/examples_utils.html
Normal file
342
docs/_modules/selfisys/utils/examples_utils.html
Normal file
|
|
@ -0,0 +1,342 @@
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SelfiSys
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
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||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
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<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
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<ul>
|
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<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
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<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
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<p class="caption" role="heading"><span class="caption-text">References</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.examples_utils</li>
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
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<div itemprop="articleBody">
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||||
<h1>Source code for selfisys.utils.examples_utils</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">This module provides utility functions for the examples.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="clear_large_plot">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">clear_large_plot</span><span class="p">(</span><span class="n">fig</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Clear a figure to free up memory.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> fig : matplotlib.figure.Figure</span>
|
||||
<span class="sd"> The figure to clear.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">IPython.display</span> <span class="kn">import</span> <span class="n">clear_output</span>
|
||||
|
||||
<span class="k">del</span> <span class="n">fig</span>
|
||||
<span class="n">clear_output</span><span class="p">()</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
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</div>
|
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<footer>
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<hr/>
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<div role="contentinfo">
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<p>© Copyright 2025, Tristan Hoellinger.</p>
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</div>
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|
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Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
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<a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
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provided by <a href="https://readthedocs.org">Read the Docs</a>.
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jQuery(function () {
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SphinxRtdTheme.Navigation.enable(true);
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</html>
|
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572
docs/_modules/selfisys/utils/logger.html
Normal file
572
docs/_modules/selfisys/utils/logger.html
Normal file
|
|
@ -0,0 +1,572 @@
|
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|
||||
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<!DOCTYPE html>
|
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<html class="writer-html5" lang="en" data-content_root="../../../">
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<head>
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
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<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
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</nav>
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||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../../index.html">SelfiSys</a>
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</nav>
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<div class="wy-nav-content">
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<div class="rst-content style-external-links">
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<div role="navigation" aria-label="Page navigation">
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<ul class="wy-breadcrumbs">
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<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.logger</li>
|
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<li class="wy-breadcrumbs-aside">
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||||
</li>
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</ul>
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<hr/>
|
||||
</div>
|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.logger</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Logger routines for the SelfiSys package.</span>
|
||||
|
||||
<span class="sd">The printing routines and colours are adapted from the Simbelmynë</span>
|
||||
<span class="sd">comological solver (https://simbelmyne.readthedocs.io/en/latest).</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">sys</span>
|
||||
<span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">cast</span>
|
||||
<span class="kn">import</span> <span class="nn">logging</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys</span> <span class="kn">import</span> <span class="n">DEFAULT_VERBOSE_LEVEL</span>
|
||||
|
||||
<span class="c1"># Global variables for fonts</span>
|
||||
<span class="n">FONT_BOLDRED</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[1;31m"</span>
|
||||
<span class="n">FONT_BOLDGREEN</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[1;32m"</span>
|
||||
<span class="n">FONT_BOLDYELLOW</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[1;33m"</span>
|
||||
<span class="n">FONT_BOLDCYAN</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[1;36m"</span>
|
||||
<span class="n">FONT_BOLDGREY</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[1;37m"</span>
|
||||
<span class="n">FONT_LIGHTPURPLE</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[38;5;147m"</span>
|
||||
|
||||
<span class="n">FONT_NORMAL</span> <span class="o">=</span> <span class="s2">"</span><span class="se">\033</span><span class="s2">[00m"</span>
|
||||
|
||||
<span class="c1"># Global variables for verbosity</span>
|
||||
<span class="n">ERROR_VERBOSITY</span> <span class="o">=</span> <span class="mi">0</span>
|
||||
<span class="n">INFO_VERBOSITY</span> <span class="o">=</span> <span class="mi">1</span>
|
||||
<span class="n">WARNING_VERBOSITY</span> <span class="o">=</span> <span class="mi">2</span>
|
||||
<span class="n">DIAGNOSTIC_VERBOSITY</span> <span class="o">=</span> <span class="mi">3</span>
|
||||
<span class="n">DEBUG_VERBOSITY</span> <span class="o">=</span> <span class="mi">4</span>
|
||||
<span class="n">DIAGNOSTIC_LEVEL</span> <span class="o">=</span> <span class="mi">15</span>
|
||||
<span class="n">logging</span><span class="o">.</span><span class="n">addLevelName</span><span class="p">(</span><span class="n">DIAGNOSTIC_LEVEL</span><span class="p">,</span> <span class="s2">"DIAGNOSTIC"</span><span class="p">)</span>
|
||||
|
||||
<span class="n">G__ind__</span> <span class="o">=</span> <span class="mi">0</span> <span class="c1"># Global variable for logger indentation</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="INDENT">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">INDENT</span><span class="p">():</span>
|
||||
<span class="w"> </span><span class="sd">"""Indents the current level of outputs."""</span>
|
||||
<span class="k">global</span> <span class="n">G__ind__</span>
|
||||
<span class="n">G__ind__</span> <span class="o">+=</span> <span class="mi">1</span>
|
||||
<span class="k">return</span> <span class="n">G__ind__</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="UNINDENT">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">UNINDENT</span><span class="p">():</span>
|
||||
<span class="w"> </span><span class="sd">"""Unindents the current level of outputs."""</span>
|
||||
<span class="k">global</span> <span class="n">G__ind__</span>
|
||||
<span class="n">G__ind__</span> <span class="o">-=</span> <span class="mi">1</span>
|
||||
<span class="k">return</span> <span class="n">G__ind__</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="PrintLeftType">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">PrintLeftType</span><span class="p">(</span><span class="n">message_type</span><span class="p">,</span> <span class="n">FONT_COLOR</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Prints the type of output to screen.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> message_type (string) : type of message</span>
|
||||
<span class="sd"> FONT_COLOR (string) : font color for this type of message</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">time</span> <span class="kn">import</span> <span class="n">localtime</span><span class="p">,</span> <span class="n">strftime</span>
|
||||
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span>
|
||||
<span class="s2">"["</span>
|
||||
<span class="o">+</span> <span class="n">strftime</span><span class="p">(</span><span class="s2">"%H:%M:%S"</span><span class="p">,</span> <span class="n">localtime</span><span class="p">())</span>
|
||||
<span class="o">+</span> <span class="s2">"|"</span>
|
||||
<span class="o">+</span> <span class="n">FONT_COLOR</span>
|
||||
<span class="o">+</span> <span class="n">message_type</span>
|
||||
<span class="o">+</span> <span class="n">FONT_NORMAL</span>
|
||||
<span class="o">+</span> <span class="s2">"]"</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s2">"=="</span> <span class="o">*</span> <span class="n">G__ind__</span><span class="p">)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s2">"|"</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="PrintInfo">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">PrintInfo</span><span class="p">(</span><span class="n">message</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Prints an information to screen.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> message (string) : message</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">DEFAULT_VERBOSE_LEVEL</span> <span class="o">>=</span> <span class="n">INFO_VERBOSITY</span><span class="p">:</span>
|
||||
<span class="n">PrintLeftType</span><span class="p">(</span><span class="s2">"INFO "</span><span class="p">,</span> <span class="n">FONT_BOLDCYAN</span><span class="p">)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s2">"</span><span class="si">{}</span><span class="se">\n</span><span class="s2">"</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">message</span><span class="p">))</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">flush</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="PrintDiagnostic">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">PrintDiagnostic</span><span class="p">(</span><span class="n">verbosity</span><span class="p">,</span> <span class="n">message</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Prints a diagnostic to screen.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> verbosity (int) : verbosity of the message</span>
|
||||
<span class="sd"> message (string) : message</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">DEFAULT_VERBOSE_LEVEL</span> <span class="o">>=</span> <span class="n">verbosity</span><span class="p">:</span>
|
||||
<span class="n">PrintLeftType</span><span class="p">(</span><span class="s2">"DIAGNOSTIC"</span><span class="p">,</span> <span class="n">FONT_BOLDGREY</span><span class="p">)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="s2">"</span><span class="si">{}</span><span class="se">\n</span><span class="s2">"</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">message</span><span class="p">))</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="PrintWarning">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">PrintWarning</span><span class="p">(</span><span class="n">message</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Prints a warning to screen.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> message (string) : message</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">DEFAULT_VERBOSE_LEVEL</span> <span class="o">>=</span> <span class="n">WARNING_VERBOSITY</span><span class="p">:</span>
|
||||
<span class="n">PrintLeftType</span><span class="p">(</span><span class="s2">"WARNING "</span><span class="p">,</span> <span class="n">FONT_BOLDYELLOW</span><span class="p">)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">FONT_BOLDYELLOW</span> <span class="o">+</span> <span class="n">message</span> <span class="o">+</span> <span class="n">FONT_NORMAL</span> <span class="o">+</span> <span class="s2">"</span><span class="se">\n</span><span class="s2">"</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="PrintError">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">PrintError</span><span class="p">(</span><span class="n">message</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Prints an error to screen.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> message (string) : message</span>
|
||||
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">DEFAULT_VERBOSE_LEVEL</span> <span class="o">>=</span> <span class="n">ERROR_VERBOSITY</span><span class="p">:</span>
|
||||
<span class="n">PrintLeftType</span><span class="p">(</span><span class="s2">"ERROR "</span><span class="p">,</span> <span class="n">FONT_BOLDRED</span><span class="p">)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">FONT_BOLDRED</span> <span class="o">+</span> <span class="n">message</span> <span class="o">+</span> <span class="n">FONT_NORMAL</span> <span class="o">+</span> <span class="s2">"</span><span class="se">\n</span><span class="s2">"</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="CustomLoggerHandler">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler">[docs]</a>
|
||||
<span class="k">class</span> <span class="nc">CustomLoggerHandler</span><span class="p">(</span><span class="n">logging</span><span class="o">.</span><span class="n">Handler</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Custom logging handler to redirect Python logger messages to custom</span>
|
||||
<span class="sd"> print functions, with support for verbosity levels in debug</span>
|
||||
<span class="sd"> messages.</span>
|
||||
<span class="sd"> """</span>
|
||||
|
||||
<div class="viewcode-block" id="CustomLoggerHandler.emit">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">emit</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">record</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Emit a log record.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">log_message</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">record</span><span class="p">)</span>
|
||||
<span class="n">log_level</span> <span class="o">=</span> <span class="n">record</span><span class="o">.</span><span class="n">levelno</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">log_level</span> <span class="o">>=</span> <span class="n">logging</span><span class="o">.</span><span class="n">ERROR</span><span class="p">:</span>
|
||||
<span class="n">PrintError</span><span class="p">(</span><span class="n">log_message</span><span class="p">)</span>
|
||||
<span class="k">elif</span> <span class="n">log_level</span> <span class="o">>=</span> <span class="n">logging</span><span class="o">.</span><span class="n">WARNING</span><span class="p">:</span>
|
||||
<span class="n">PrintWarning</span><span class="p">(</span><span class="n">log_message</span><span class="p">)</span>
|
||||
<span class="k">elif</span> <span class="n">log_level</span> <span class="o">>=</span> <span class="n">logging</span><span class="o">.</span><span class="n">INFO</span><span class="p">:</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="n">log_message</span><span class="p">)</span>
|
||||
<span class="k">elif</span> <span class="n">log_level</span> <span class="o">==</span> <span class="n">DIAGNOSTIC_LEVEL</span><span class="p">:</span>
|
||||
<span class="c1"># Retrieve verbosity level from the record</span>
|
||||
<span class="n">verbosity</span> <span class="o">=</span> <span class="nb">getattr</span><span class="p">(</span><span class="n">record</span><span class="p">,</span> <span class="s2">"verbosity"</span><span class="p">,</span> <span class="n">DIAGNOSTIC_VERBOSITY</span><span class="p">)</span>
|
||||
<span class="n">PrintDiagnostic</span><span class="p">(</span><span class="n">verbosity</span><span class="o">=</span><span class="n">verbosity</span><span class="p">,</span> <span class="n">message</span><span class="o">=</span><span class="n">log_message</span><span class="p">)</span>
|
||||
<span class="k">elif</span> <span class="n">log_level</span> <span class="o">>=</span> <span class="n">logging</span><span class="o">.</span><span class="n">DEBUG</span><span class="p">:</span>
|
||||
<span class="n">PrintDiagnostic</span><span class="p">(</span><span class="n">verbosity</span><span class="o">=</span><span class="n">DEBUG_VERBOSITY</span><span class="p">,</span> <span class="n">message</span><span class="o">=</span><span class="n">log_message</span><span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="c1"># Fallback for other levels</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="n">log_message</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">handleError</span><span class="p">(</span><span class="n">record</span><span class="p">)</span></div>
|
||||
</div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="CustomLogger">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger">[docs]</a>
|
||||
<span class="k">class</span> <span class="nc">CustomLogger</span><span class="p">(</span><span class="n">logging</span><span class="o">.</span><span class="n">Logger</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Custom logger class supporting custom verbosity levels in diagnostic</span>
|
||||
<span class="sd"> messages.</span>
|
||||
<span class="sd"> """</span>
|
||||
|
||||
<div class="viewcode-block" id="CustomLogger.diagnostic">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">diagnostic</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">msg</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">,</span> <span class="n">verbosity</span><span class="o">=</span><span class="n">DIAGNOSTIC_VERBOSITY</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span> <span class="o">-></span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Log a message with DIAGNOSTIC level.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> msg : str</span>
|
||||
<span class="sd"> The message to log.</span>
|
||||
<span class="sd"> verbosity : int, optional</span>
|
||||
<span class="sd"> The verbosity level required to log this message.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">isEnabledFor</span><span class="p">(</span><span class="n">DIAGNOSTIC_LEVEL</span><span class="p">):</span>
|
||||
<span class="c1"># Pass verbosity as part of the extra argument</span>
|
||||
<span class="n">extra</span> <span class="o">=</span> <span class="n">kwargs</span><span class="o">.</span><span class="n">get</span><span class="p">(</span><span class="s2">"extra"</span><span class="p">,</span> <span class="p">{})</span>
|
||||
<span class="n">extra</span><span class="p">[</span><span class="s2">"verbosity"</span><span class="p">]</span> <span class="o">=</span> <span class="n">verbosity</span>
|
||||
<span class="n">kwargs</span><span class="p">[</span><span class="s2">"extra"</span><span class="p">]</span> <span class="o">=</span> <span class="n">extra</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">DIAGNOSTIC_LEVEL</span><span class="p">,</span> <span class="n">msg</span><span class="p">,</span> <span class="o">*</span><span class="n">args</span><span class="p">,</span> <span class="o">**</span><span class="n">kwargs</span><span class="p">)</span></div>
|
||||
</div>
|
||||
|
||||
|
||||
|
||||
<span class="n">logging</span><span class="o">.</span><span class="n">setLoggerClass</span><span class="p">(</span><span class="n">CustomLogger</span><span class="p">)</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="getCustomLogger">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">getCustomLogger</span><span class="p">(</span><span class="n">name</span><span class="p">:</span> <span class="nb">str</span><span class="p">)</span> <span class="o">-></span> <span class="n">CustomLogger</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Get as CustomLogger instance to use the custom printing routines.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> name : str</span>
|
||||
<span class="sd"> The name of the logger.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> logger : logging.Logger</span>
|
||||
<span class="sd"> The custom logger instance.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">logging</span><span class="o">.</span><span class="n">setLoggerClass</span><span class="p">(</span><span class="n">CustomLogger</span><span class="p">)</span>
|
||||
<span class="n">logger</span> <span class="o">=</span> <span class="n">cast</span><span class="p">(</span><span class="n">CustomLogger</span><span class="p">,</span> <span class="n">logging</span><span class="o">.</span><span class="n">getLogger</span><span class="p">(</span><span class="n">name</span><span class="p">))</span> <span class="c1"># cast for type checkers and PyLance</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">setLevel</span><span class="p">(</span><span class="n">logging</span><span class="o">.</span><span class="n">DEBUG</span><span class="p">)</span> <span class="c1"># Set the desired base logging level</span>
|
||||
|
||||
<span class="n">handler</span> <span class="o">=</span> <span class="n">CustomLoggerHandler</span><span class="p">()</span>
|
||||
<span class="n">formatter</span> <span class="o">=</span> <span class="n">logging</span><span class="o">.</span><span class="n">Formatter</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">FONT_LIGHTPURPLE</span><span class="si">}</span><span class="s2">(%(name)s)</span><span class="si">{</span><span class="n">FONT_NORMAL</span><span class="si">}</span><span class="s2"> %(message)s"</span><span class="p">)</span>
|
||||
<span class="n">handler</span><span class="o">.</span><span class="n">setFormatter</span><span class="p">(</span><span class="n">formatter</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Attach the handler to the logger if not already present</span>
|
||||
<span class="k">if</span> <span class="ow">not</span> <span class="n">logger</span><span class="o">.</span><span class="n">handlers</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">addHandler</span><span class="p">(</span><span class="n">handler</span><span class="p">)</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">logger</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
|
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</div>
|
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|
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Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
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</footer>
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<script>
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jQuery(function () {
|
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SphinxRtdTheme.Navigation.enable(true);
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</html>
|
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442
docs/_modules/selfisys/utils/low_level.html
Normal file
442
docs/_modules/selfisys/utils/low_level.html
Normal file
|
|
@ -0,0 +1,442 @@
|
|||
|
||||
|
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<!DOCTYPE html>
|
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<html class="writer-html5" lang="en" data-content_root="../../../">
|
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<head>
|
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
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<title>selfisys.utils.low_level — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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<link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=80d5e7a1" />
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<link rel="stylesheet" type="text/css" href="../../../_static/css/theme.css?v=e59714d7" />
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<script src="../../../_static/doctools.js?v=9bcbadda"></script>
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<link rel="search" title="Search" href="../../../search.html" />
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</head>
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<body class="wy-body-for-nav">
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<div class="wy-grid-for-nav">
|
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<nav data-toggle="wy-nav-shift" class="wy-nav-side">
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<div class="wy-side-scroll">
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<div class="wy-side-nav-search" >
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<a href="../../../index.html" class="icon icon-home">
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SelfiSys
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</a>
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<div role="search">
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<form id="rtd-search-form" class="wy-form" action="../../../search.html" method="get">
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<input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
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<input type="hidden" name="check_keywords" value="yes" />
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</div>
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
|
||||
<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../../index.html">SelfiSys</a>
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</nav>
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|
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<div class="wy-nav-content">
|
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<div class="rst-content style-external-links">
|
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<div role="navigation" aria-label="Page navigation">
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||||
<ul class="wy-breadcrumbs">
|
||||
<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
|
||||
<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
|
||||
<li class="breadcrumb-item active">selfisys.utils.low_level</li>
|
||||
<li class="wy-breadcrumbs-aside">
|
||||
</li>
|
||||
</ul>
|
||||
<hr/>
|
||||
</div>
|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.low_level</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Tools to deal with low-level operations such as redirecting stdout from</span>
|
||||
<span class="sd">C code.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">from</span> <span class="nn">contextlib</span> <span class="kn">import</span> <span class="n">contextmanager</span>
|
||||
<span class="kn">import</span> <span class="nn">platform</span>
|
||||
<span class="kn">import</span> <span class="nn">ctypes</span>
|
||||
<span class="kn">import</span> <span class="nn">io</span>
|
||||
<span class="kn">import</span> <span class="nn">os</span><span class="o">,</span> <span class="nn">sys</span>
|
||||
<span class="kn">import</span> <span class="nn">tempfile</span>
|
||||
|
||||
<span class="n">libc</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">CDLL</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">platform</span><span class="o">.</span><span class="n">system</span><span class="p">()</span> <span class="o">==</span> <span class="s2">"Darwin"</span><span class="p">:</span> <span class="c1"># macOS</span>
|
||||
<span class="n">stdout_symbol</span> <span class="o">=</span> <span class="s2">"__stdoutp"</span>
|
||||
<span class="n">stderr_symbol</span> <span class="o">=</span> <span class="s2">"__stderrp"</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">stdout_symbol</span> <span class="o">=</span> <span class="s2">"stdout"</span>
|
||||
<span class="n">stderr_symbol</span> <span class="o">=</span> <span class="s2">"stderr"</span>
|
||||
<span class="n">c_stdout</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="o">.</span><span class="n">in_dll</span><span class="p">(</span><span class="n">libc</span><span class="p">,</span> <span class="n">stdout_symbol</span><span class="p">)</span>
|
||||
<span class="n">c_stderr</span> <span class="o">=</span> <span class="n">ctypes</span><span class="o">.</span><span class="n">c_void_p</span><span class="o">.</span><span class="n">in_dll</span><span class="p">(</span><span class="n">libc</span><span class="p">,</span> <span class="n">stderr_symbol</span><span class="p">)</span>
|
||||
|
||||
|
||||
<span class="c1"># Taken from:</span>
|
||||
<span class="c1"># https://eli.thegreenplace.net/2015/redirecting-all-kinds-of-stdout-in-python/</span>
|
||||
<div class="viewcode-block" id="stdout_redirector">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector">[docs]</a>
|
||||
<span class="nd">@contextmanager</span>
|
||||
<span class="k">def</span> <span class="nf">stdout_redirector</span><span class="p">(</span><span class="n">stream</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""A context manager that redirects stdout to the given stream. For</span>
|
||||
<span class="sd"> instance, this can be used to redirect C code stdout to None (to</span>
|
||||
<span class="sd"> avoid cluttering the log, e.g., when using tqdm).</span>
|
||||
|
||||
<span class="sd"> Args:</span>
|
||||
<span class="sd"> stream (file-like object): The stream to which stdout should be</span>
|
||||
<span class="sd"> redirected.</span>
|
||||
<span class="sd"> Example:</span>
|
||||
<span class="sd"> >>> with stdout_redirector(stream):</span>
|
||||
<span class="sd"> >>> print("Hello world!") # Will be printed to stream</span>
|
||||
<span class="sd"> >>> # instead of stdout.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="c1"># The original fd stdout points to. Usually 1 on POSIX systems.</span>
|
||||
<span class="n">original_stdout_fd</span> <span class="o">=</span> <span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">fileno</span><span class="p">()</span>
|
||||
|
||||
<span class="k">def</span> <span class="nf">_redirect_stdout</span><span class="p">(</span><span class="n">to_fd</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Redirect stdout to the given file descriptor."""</span>
|
||||
<span class="c1"># Flush the C-level buffer stdout</span>
|
||||
<span class="n">libc</span><span class="o">.</span><span class="n">fflush</span><span class="p">(</span><span class="n">c_stdout</span><span class="p">)</span>
|
||||
<span class="c1"># Flush and close sys.stdout - also closes the file descriptor (fd)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="c1"># Make original_stdout_fd point to the same file as to_fd</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">dup2</span><span class="p">(</span><span class="n">to_fd</span><span class="p">,</span> <span class="n">original_stdout_fd</span><span class="p">)</span>
|
||||
<span class="c1"># Create a new sys.stdout that points to the redirected fd</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stdout</span> <span class="o">=</span> <span class="n">io</span><span class="o">.</span><span class="n">TextIOWrapper</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">fdopen</span><span class="p">(</span><span class="n">original_stdout_fd</span><span class="p">,</span> <span class="s2">"wb"</span><span class="p">))</span>
|
||||
|
||||
<span class="c1"># Save a copy of the original stdout fd in saved_stdout_fd</span>
|
||||
<span class="n">saved_stdout_fd</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">dup</span><span class="p">(</span><span class="n">original_stdout_fd</span><span class="p">)</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="c1"># Create a temporary file and redirect stdout to it</span>
|
||||
<span class="n">tfile</span> <span class="o">=</span> <span class="n">tempfile</span><span class="o">.</span><span class="n">TemporaryFile</span><span class="p">(</span><span class="n">mode</span><span class="o">=</span><span class="s2">"w+b"</span><span class="p">)</span>
|
||||
<span class="n">_redirect_stdout</span><span class="p">(</span><span class="n">tfile</span><span class="o">.</span><span class="n">fileno</span><span class="p">())</span>
|
||||
<span class="c1"># Yield to caller, then redirect stdout back to the saved fd</span>
|
||||
<span class="k">yield</span>
|
||||
<span class="n">_redirect_stdout</span><span class="p">(</span><span class="n">saved_stdout_fd</span><span class="p">)</span>
|
||||
<span class="c1"># Copy contents of temporary file to the given stream</span>
|
||||
<span class="n">tfile</span><span class="o">.</span><span class="n">flush</span><span class="p">()</span>
|
||||
<span class="n">tfile</span><span class="o">.</span><span class="n">seek</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">io</span><span class="o">.</span><span class="n">SEEK_SET</span><span class="p">)</span>
|
||||
<span class="n">stream</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">tfile</span><span class="o">.</span><span class="n">read</span><span class="p">())</span>
|
||||
<span class="k">finally</span><span class="p">:</span>
|
||||
<span class="n">tfile</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">close</span><span class="p">(</span><span class="n">saved_stdout_fd</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<span class="c1"># Adapted from:</span>
|
||||
<span class="c1"># https://eli.thegreenplace.net/2015/redirecting-all-kinds-of-stdout-in-python/</span>
|
||||
<div class="viewcode-block" id="stderr_redirector">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector">[docs]</a>
|
||||
<span class="nd">@contextmanager</span>
|
||||
<span class="k">def</span> <span class="nf">stderr_redirector</span><span class="p">(</span><span class="n">stream</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""A context manager that redirects stderr to the given stream.</span>
|
||||
<span class="sd"> For instance, this can be used to redirect C code stderr to None (to</span>
|
||||
<span class="sd"> avoid cluttering the log, e.g., when using tqdm).</span>
|
||||
|
||||
<span class="sd"> Use with caution.</span>
|
||||
|
||||
<span class="sd"> Args:</span>
|
||||
<span class="sd"> stream (file-like object): The stream to which stdout should be</span>
|
||||
<span class="sd"> redirected.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="c1"># The original fd stdout points to. Usually 1 on POSIX systems.</span>
|
||||
<span class="n">original_stderr_fd</span> <span class="o">=</span> <span class="n">sys</span><span class="o">.</span><span class="n">stderr</span><span class="o">.</span><span class="n">fileno</span><span class="p">()</span>
|
||||
|
||||
<span class="k">def</span> <span class="nf">_redirect_stderr</span><span class="p">(</span><span class="n">to_fd</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Redirect stderr to the given file descriptor."""</span>
|
||||
<span class="c1"># Flush the C-level buffer stderr</span>
|
||||
<span class="n">libc</span><span class="o">.</span><span class="n">fflush</span><span class="p">(</span><span class="n">c_stderr</span><span class="p">)</span>
|
||||
<span class="c1"># Flush and close sys.stderr - also closes the file descriptor (fd)</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stderr</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="c1"># Make original_stderr_fd point to the same file as to_fd</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">dup2</span><span class="p">(</span><span class="n">to_fd</span><span class="p">,</span> <span class="n">original_stderr_fd</span><span class="p">)</span>
|
||||
<span class="c1"># Create a new sys.stderr that points to the redirected fd</span>
|
||||
<span class="n">sys</span><span class="o">.</span><span class="n">stderr</span> <span class="o">=</span> <span class="n">io</span><span class="o">.</span><span class="n">TextIOWrapper</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">fdopen</span><span class="p">(</span><span class="n">original_stderr_fd</span><span class="p">,</span> <span class="s2">"wb"</span><span class="p">))</span>
|
||||
|
||||
<span class="c1"># Save a copy of the original stdout fd in saved_stdout_fd</span>
|
||||
<span class="n">saved_stderr_fd</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">dup</span><span class="p">(</span><span class="n">original_stderr_fd</span><span class="p">)</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="c1"># Create a temporary file and redirect stdout to it</span>
|
||||
<span class="n">tfile</span> <span class="o">=</span> <span class="n">tempfile</span><span class="o">.</span><span class="n">TemporaryFile</span><span class="p">(</span><span class="n">mode</span><span class="o">=</span><span class="s2">"w+b"</span><span class="p">)</span>
|
||||
<span class="n">_redirect_stderr</span><span class="p">(</span><span class="n">tfile</span><span class="o">.</span><span class="n">fileno</span><span class="p">())</span>
|
||||
<span class="c1"># Yield to caller, then redirect stdout back to the saved fd</span>
|
||||
<span class="k">yield</span>
|
||||
<span class="n">_redirect_stderr</span><span class="p">(</span><span class="n">saved_stderr_fd</span><span class="p">)</span>
|
||||
<span class="c1"># Copy contents of temporary file to the given stream</span>
|
||||
<span class="n">tfile</span><span class="o">.</span><span class="n">flush</span><span class="p">()</span>
|
||||
<span class="n">tfile</span><span class="o">.</span><span class="n">seek</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="n">io</span><span class="o">.</span><span class="n">SEEK_SET</span><span class="p">)</span>
|
||||
<span class="n">stream</span><span class="o">.</span><span class="n">write</span><span class="p">(</span><span class="n">tfile</span><span class="o">.</span><span class="n">read</span><span class="p">())</span>
|
||||
<span class="k">finally</span><span class="p">:</span>
|
||||
<span class="n">tfile</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">close</span><span class="p">(</span><span class="n">saved_stderr_fd</span><span class="p">)</span></div>
|
||||
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</pre></div>
|
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481
docs/_modules/selfisys/utils/parser.html
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481
docs/_modules/selfisys/utils/parser.html
Normal file
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<html class="writer-html5" lang="en" data-content_root="../../../">
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<title>selfisys.utils.parser — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
|
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<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
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<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
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</nav>
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|
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<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../../index.html">SelfiSys</a>
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</nav>
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<div class="wy-nav-content">
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<div class="rst-content style-external-links">
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<div role="navigation" aria-label="Page navigation">
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<ul class="wy-breadcrumbs">
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<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.parser</li>
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<li class="wy-breadcrumbs-aside">
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</li>
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<hr/>
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</div>
|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.parser</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Utility functions for parsing command-line arguments.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
<span class="kn">from</span> <span class="nn">argparse</span> <span class="kn">import</span> <span class="n">ArgumentParser</span><span class="p">,</span> <span class="n">ArgumentTypeError</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="joinstrs">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">joinstrs</span><span class="p">(</span><span class="n">list_of_strs</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Join a list of strings into a single string.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> list_of_strs : list of str</span>
|
||||
<span class="sd"> List of strings to join.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> str</span>
|
||||
<span class="sd"> Concatenated string.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">return</span> <span class="s2">""</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="nb">str</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">list_of_strs</span> <span class="k">if</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">])</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="joinstrs_only">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">joinstrs_only</span><span class="p">(</span><span class="n">list_of_strs</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Join a list of strings into a single string, ignoring all</span>
|
||||
<span class="sd"> non-string elements such as None values.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> list_of_strs : list of str</span>
|
||||
<span class="sd"> List of strings to join.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> str</span>
|
||||
<span class="sd"> Concatenated string.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">return</span> <span class="s2">""</span><span class="o">.</span><span class="n">join</span><span class="p">([</span><span class="nb">str</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">list_of_strs</span> <span class="k">if</span> <span class="nb">type</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="o">==</span> <span class="nb">str</span><span class="p">])</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="check_files_exist">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">check_files_exist</span><span class="p">(</span><span class="n">files</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Check if all files in the list exist.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> files : list of str</span>
|
||||
<span class="sd"> List of file paths to check.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> bool</span>
|
||||
<span class="sd"> True if all files exist, False otherwise.</span>
|
||||
<span class="sd"> """</span>
|
||||
|
||||
<span class="k">return</span> <span class="nb">all</span><span class="p">(</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">f</span><span class="p">)</span> <span class="k">for</span> <span class="n">f</span> <span class="ow">in</span> <span class="n">files</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="none_or_bool_or_str">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">none_or_bool_or_str</span><span class="p">(</span><span class="n">value</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Convert a string to None, bool, or str.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> value : str</span>
|
||||
<span class="sd"> String to convert.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None, bool, or str</span>
|
||||
<span class="sd"> Converted value.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"None"</span> <span class="ow">or</span> <span class="n">value</span> <span class="o">==</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">None</span>
|
||||
<span class="k">elif</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"True"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">True</span>
|
||||
<span class="k">elif</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"False"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">False</span>
|
||||
<span class="k">return</span> <span class="n">value</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="intNone">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">intNone</span><span class="p">(</span><span class="n">value</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Convert a string to None or int.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> value : str</span>
|
||||
<span class="sd"> String to convert.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None or int</span>
|
||||
<span class="sd"> Converted value.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"None"</span> <span class="ow">or</span> <span class="n">value</span> <span class="o">==</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">None</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="nb">int</span><span class="p">(</span><span class="n">value</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="safe_npload">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">safe_npload</span><span class="p">(</span><span class="n">path</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Load a numpy array from a file.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> path : str</span>
|
||||
<span class="sd"> Path to the file to load.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None or np.ndarray</span>
|
||||
<span class="sd"> Loaded array or None if the file does not exist.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
|
||||
<span class="n">val</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">load</span><span class="p">(</span><span class="n">path</span><span class="p">,</span> <span class="n">allow_pickle</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">val</span> <span class="ow">is</span> <span class="kc">None</span> <span class="ow">or</span> <span class="n">val</span> <span class="o">==</span> <span class="s2">"None"</span> <span class="ow">or</span> <span class="n">val</span> <span class="o">==</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">None</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="n">val</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="bool_sh">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">bool_sh</span><span class="p">(</span><span class="n">value</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""Convert a string to a boolean.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> value : str</span>
|
||||
<span class="sd"> String to convert.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> bool</span>
|
||||
<span class="sd"> Converted value.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"True"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">True</span>
|
||||
<span class="k">elif</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"False"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">False</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">raise</span> <span class="n">ArgumentTypeError</span><span class="p">(</span><span class="s2">"Boolean value expected."</span><span class="p">)</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
|
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</div>
|
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|
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|
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525
docs/_modules/selfisys/utils/path_utils.html
Normal file
525
docs/_modules/selfisys/utils/path_utils.html
Normal file
|
|
@ -0,0 +1,525 @@
|
|||
|
||||
|
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<!DOCTYPE html>
|
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<html class="writer-html5" lang="en" data-content_root="../../../">
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<head>
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
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<title>selfisys.utils.path_utils — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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<nav data-toggle="wy-nav-shift" class="wy-nav-side">
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SelfiSys
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</a>
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<form id="rtd-search-form" class="wy-form" action="../../../search.html" method="get">
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
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<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
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<h1>Source code for selfisys.utils.path_utils</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Helper functions to handle paths and file names.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
|
||||
|
||||
<span class="k">def</span> <span class="nf">_get_prefix</span><span class="p">(</span><span class="n">prefix_mocks</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">suffix</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span> <span class="n">sim_id</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">d</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">p</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span> <span class="o">-></span> <span class="nb">str</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Get file prefix.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> prefix_mocks : str | None</span>
|
||||
<span class="sd"> Prefix for the mock data files. If None, defaults to base</span>
|
||||
<span class="sd"> suffix.</span>
|
||||
<span class="sd"> suffix : str</span>
|
||||
<span class="sd"> Base suffix for the file name (e.g., "mocks" or "g").</span>
|
||||
<span class="sd"> sim_id : int, optional</span>
|
||||
<span class="sd"> Simulation ID. Used if d and p are not provided.</span>
|
||||
<span class="sd"> d : int, optional</span>
|
||||
<span class="sd"> Direction index.</span>
|
||||
<span class="sd"> p : int, optional</span>
|
||||
<span class="sd"> Simulation index. If both d and p are provided, they take</span>
|
||||
<span class="sd"> precedence over sim_id.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> str</span>
|
||||
<span class="sd"> Formatted file name string.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">prefix</span> <span class="o">=</span> <span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">prefix_mocks</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">suffix</span><span class="si">}</span><span class="s2">"</span> <span class="k">if</span> <span class="n">prefix_mocks</span> <span class="k">else</span> <span class="n">suffix</span>
|
||||
<span class="k">if</span> <span class="n">d</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span> <span class="ow">and</span> <span class="n">p</span> <span class="ow">is</span> <span class="ow">not</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">prefix</span><span class="si">}</span><span class="s2">_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">p</span><span class="si">}</span><span class="s2">.h5"</span>
|
||||
<span class="k">return</span> <span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">prefix</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="get_file_names">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">get_file_names</span><span class="p">(</span>
|
||||
<span class="n">fsimdir</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">sim_id</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">sim_params</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">TimeSteps</span><span class="p">:</span> <span class="nb">list</span><span class="p">[</span><span class="nb">int</span><span class="p">],</span>
|
||||
<span class="n">prefix_mocks</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">gravity_on</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">True</span><span class="p">,</span>
|
||||
<span class="n">return_g</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Generate file paths for a given simulation ID and parameters.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> fsimdir : str</span>
|
||||
<span class="sd"> Path to the simulation directory.</span>
|
||||
<span class="sd"> sim_id : int</span>
|
||||
<span class="sd"> Simulation ID.</span>
|
||||
<span class="sd"> sim_params : str</span>
|
||||
<span class="sd"> Simulation parameters.</span>
|
||||
<span class="sd"> TimeSteps : list of int</span>
|
||||
<span class="sd"> List of time steps.</span>
|
||||
<span class="sd"> prefix_mocks : str | None</span>
|
||||
<span class="sd"> Prefix for mock data files. If None, defaults to "mocks".</span>
|
||||
<span class="sd"> gravity_on : bool, optional</span>
|
||||
<span class="sd"> Whether gravity is active. Default is True.</span>
|
||||
<span class="sd"> return_g : bool, optional</span>
|
||||
<span class="sd"> If True, return the file name for the observed galaxy field.</span>
|
||||
<span class="sd"> Default is False.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> dict</span>
|
||||
<span class="sd"> Dictionary containing simulation inputs / outputs file paths.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">datadir</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">fsimdir</span><span class="p">,</span> <span class="s2">"data"</span><span class="p">)</span>
|
||||
<span class="n">names</span> <span class="o">=</span> <span class="p">{</span>
|
||||
<span class="s2">"fname_cosmo"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"input_cosmo_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.json"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_power_spectrum"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"input_power_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_outputinitialdensity"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"initial_density_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_mocks"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="n">_get_prefix</span><span class="p">(</span><span class="n">prefix_mocks</span><span class="p">,</span> <span class="s2">"mocks"</span><span class="p">,</span> <span class="n">sim_id</span><span class="p">)),</span>
|
||||
<span class="s2">"fname_g"</span><span class="p">:</span> <span class="p">(</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="n">_get_prefix</span><span class="p">(</span><span class="n">prefix_mocks</span><span class="p">,</span> <span class="s2">"g"</span><span class="p">,</span> <span class="n">sim_id</span><span class="p">))</span> <span class="k">if</span> <span class="n">return_g</span> <span class="k">else</span> <span class="kc">None</span>
|
||||
<span class="p">),</span>
|
||||
<span class="s2">"fname_simparfile"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fname_whitenoise"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"seedname_whitenoise"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fnames_outputLPTdensity"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fnames_outputrealspacedensity"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fnames_outputdensity"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fname_simlogs"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="p">}</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">gravity_on</span><span class="p">:</span>
|
||||
<span class="n">names</span><span class="o">.</span><span class="n">update</span><span class="p">(</span>
|
||||
<span class="p">{</span>
|
||||
<span class="s2">"fname_simparfile"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"sim_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_whitenoise"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span>
|
||||
<span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"initial_density_white_noise_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span>
|
||||
<span class="p">),</span>
|
||||
<span class="s2">"seedname_whitenoise"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"initial_density_wn_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">_seed"</span><span class="p">),</span>
|
||||
<span class="s2">"fnames_outputLPTdensity"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_density_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_simlogs"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"logs_sim_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.txt"</span><span class="p">),</span>
|
||||
<span class="p">}</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">sim_params</span><span class="o">.</span><span class="n">startswith</span><span class="p">((</span><span class="s2">"split"</span><span class="p">,</span> <span class="s2">"custom"</span><span class="p">)):</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputdensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_density_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">TimeSteps</span><span class="p">[::</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
|
||||
<span class="p">]</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputrealspacedensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_realdensity_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">TimeSteps</span><span class="p">[::</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
|
||||
<span class="p">]</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputdensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_density_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)]</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputrealspacedensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">datadir</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_realdensity_</span><span class="si">{</span><span class="n">sim_id</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)</span>
|
||||
<span class="p">]</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">names</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="file_names_evaluate">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">file_names_evaluate</span><span class="p">(</span>
|
||||
<span class="n">simdir</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">sd</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">d</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">i</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">sim_params</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">TimeSteps</span><span class="p">:</span> <span class="nb">list</span><span class="p">[</span><span class="nb">int</span><span class="p">],</span>
|
||||
<span class="n">prefix_mocks</span><span class="p">:</span> <span class="nb">str</span><span class="p">,</span>
|
||||
<span class="n">abc</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">False</span><span class="p">,</span>
|
||||
<span class="n">gravity_on</span><span class="p">:</span> <span class="nb">bool</span> <span class="o">=</span> <span class="kc">True</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">-></span> <span class="nb">dict</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Generate file paths for the given simulation id and parameters.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> simdir : str</span>
|
||||
<span class="sd"> Path to the simulation directory.</span>
|
||||
<span class="sd"> sd : str</span>
|
||||
<span class="sd"> Path to the simulation directory for the given direction.</span>
|
||||
<span class="sd"> d : int</span>
|
||||
<span class="sd"> Direction index (-1 for mock data, 0 for the expansion point, or</span>
|
||||
<span class="sd"> 1 to S).</span>
|
||||
<span class="sd"> i : int</span>
|
||||
<span class="sd"> Simulation index.</span>
|
||||
<span class="sd"> sim_params : str</span>
|
||||
<span class="sd"> Simulation parameters.</span>
|
||||
<span class="sd"> TimeSteps : list of int</span>
|
||||
<span class="sd"> List of time steps.</span>
|
||||
<span class="sd"> prefix_mocks : str | None</span>
|
||||
<span class="sd"> Prefix for mock data files. If None, defaults to "mocks".</span>
|
||||
<span class="sd"> abc : bool, optional</span>
|
||||
<span class="sd"> If True, appends the ABC index to the white noise path.</span>
|
||||
<span class="sd"> gravity_on : bool, optional</span>
|
||||
<span class="sd"> Whether gravity is active. Default is True.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> dict</span>
|
||||
<span class="sd"> Dictionary containing simulation inputs / outputs file paths.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">names</span> <span class="o">=</span> <span class="p">{</span>
|
||||
<span class="s2">"fname_power_spectrum"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"input_power_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_outputinitialdensity"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"initial_density_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_mocks"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="n">_get_prefix</span><span class="p">(</span><span class="n">prefix_mocks</span><span class="p">,</span> <span class="s2">"mocks"</span><span class="p">,</span> <span class="n">d</span><span class="o">=</span><span class="n">d</span><span class="p">,</span> <span class="n">p</span><span class="o">=</span><span class="n">i</span><span class="p">)),</span>
|
||||
<span class="s2">"fname_simlogs"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"logs_sim_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.txt"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_simparfile"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fname_whitenoise"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"seedname_whitenoise"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fnames_outputLPTdensity"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fnames_outputrealspacedensity"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fnames_outputdensity"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="s2">"fname_g"</span><span class="p">:</span> <span class="kc">None</span><span class="p">,</span>
|
||||
<span class="p">}</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">gravity_on</span><span class="p">:</span>
|
||||
<span class="n">dir_wn</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">simdir</span><span class="p">,</span> <span class="s2">".."</span><span class="p">,</span> <span class="s2">"wn"</span><span class="p">)</span> <span class="k">if</span> <span class="ow">not</span> <span class="n">abc</span> <span class="k">else</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">simdir</span><span class="p">,</span> <span class="s2">"wn"</span><span class="p">,</span> <span class="n">abc</span><span class="p">)</span>
|
||||
<span class="n">names</span><span class="o">.</span><span class="n">update</span><span class="p">(</span>
|
||||
<span class="p">{</span>
|
||||
<span class="s2">"fname_simparfile"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"sim_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">"</span><span class="p">),</span>
|
||||
<span class="s2">"fname_whitenoise"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">dir_wn</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"initial_density_white_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="s2">"seedname_whitenoise"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">dir_wn</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"initial_density_white_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">"</span><span class="p">),</span>
|
||||
<span class="s2">"fnames_outputLPTdensity"</span><span class="p">:</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_density_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">),</span>
|
||||
<span class="p">}</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">sim_params</span><span class="o">.</span><span class="n">startswith</span><span class="p">((</span><span class="s2">"split"</span><span class="p">,</span> <span class="s2">"custom"</span><span class="p">)):</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputrealspacedensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_realdensity_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">j</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)</span> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="n">TimeSteps</span><span class="p">[::</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
|
||||
<span class="p">]</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputdensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_density_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">_</span><span class="si">{</span><span class="n">j</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)</span> <span class="k">for</span> <span class="n">j</span> <span class="ow">in</span> <span class="n">TimeSteps</span><span class="p">[::</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span>
|
||||
<span class="p">]</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputrealspacedensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_realdensity_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)</span>
|
||||
<span class="p">]</span>
|
||||
<span class="n">names</span><span class="p">[</span><span class="s2">"fnames_outputdensity"</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">sd</span><span class="p">,</span> <span class="sa">f</span><span class="s2">"output_density_d</span><span class="si">{</span><span class="n">d</span><span class="si">}</span><span class="s2">_p</span><span class="si">{</span><span class="n">i</span><span class="si">}</span><span class="s2">.h5"</span><span class="p">)]</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">names</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
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||||
</div>
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|
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</html>
|
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942
docs/_modules/selfisys/utils/plot_examples.html
Normal file
942
docs/_modules/selfisys/utils/plot_examples.html
Normal file
|
|
@ -0,0 +1,942 @@
|
|||
|
||||
|
||||
<!DOCTYPE html>
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<html class="writer-html5" lang="en" data-content_root="../../../">
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<head>
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
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<title>selfisys.utils.plot_examples — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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SelfiSys
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</a>
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
|
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
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<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
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<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
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<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
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|
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|
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<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
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|
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<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<div class="rst-content style-external-links">
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<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.plot_examples</li>
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<li class="wy-breadcrumbs-aside">
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</li>
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|
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<hr/>
|
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</div>
|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.plot_examples</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Visualisation utilities for the exploratory examples in SelfiSys.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.plot_params</span> <span class="kn">import</span> <span class="o">*</span>
|
||||
|
||||
<span class="c1"># Configure global plotting settings</span>
|
||||
<span class="n">setup_plotting</span><span class="p">()</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="plot_power_spectrum">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">plot_power_spectrum</span><span class="p">(</span>
|
||||
<span class="n">G_sim</span><span class="p">,</span> <span class="n">true_P</span><span class="p">,</span> <span class="n">k_s</span><span class="p">,</span> <span class="n">planck_Pk</span><span class="p">,</span> <span class="n">Pbins</span><span class="p">,</span> <span class="n">Pbins_bnd</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">wd</span><span class="p">,</span> <span class="n">title</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">display</span><span class="o">=</span><span class="kc">True</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Plot a power spectrum over Fourier modes, its linear interpolation</span>
|
||||
<span class="sd"> over specified support points, and a given binning for comparison.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> G_sim : pysbmy.power.FourierGrid</span>
|
||||
<span class="sd"> Fourier grid object containing the `k_modes` attribute.</span>
|
||||
<span class="sd"> true_P : pysbmy.power.PowerSpectrum</span>
|
||||
<span class="sd"> Power spectrum object containing the `powerspectrum` attribute.</span>
|
||||
<span class="sd"> k_s : array-like</span>
|
||||
<span class="sd"> Support points in k-space.</span>
|
||||
<span class="sd"> planck_Pk : array-like</span>
|
||||
<span class="sd"> Power spectrum values at the support points.</span>
|
||||
<span class="sd"> Pbins : array-like</span>
|
||||
<span class="sd"> Centres of the Φ bins in k-space.</span>
|
||||
<span class="sd"> Pbins_bnd : array-like</span>
|
||||
<span class="sd"> Boundaries of the Φ bins in k-space.</span>
|
||||
<span class="sd"> size : float</span>
|
||||
<span class="sd"> Box size in number of grid cells.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Box length in Mpc/h.</span>
|
||||
<span class="sd"> wd : str</span>
|
||||
<span class="sd"> Working directory path for saving the figure.</span>
|
||||
<span class="sd"> title : str, optional</span>
|
||||
<span class="sd"> Title for the figure. Default is None.</span>
|
||||
<span class="sd"> display : bool, optional</span>
|
||||
<span class="sd"> Whether to display the figure. Default is True.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.logger</span> <span class="kn">import</span> <span class="n">PrintInfo</span>
|
||||
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">15</span><span class="p">,</span> <span class="mi">5</span><span class="p">))</span>
|
||||
|
||||
<span class="c1"># Plot power spectrum data</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span><span class="p">,</span> <span class="n">true_P</span><span class="o">.</span><span class="n">powerspectrum</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$P(k)$ (over all modes)"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">k_s</span><span class="p">,</span> <span class="n">planck_Pk</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$P(k)$ (binned–linear interpolation)"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Configure axes</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"$k\,[h/\mathrm</span><span class="si">{Mpc}</span><span class="s2">]$"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"$[{\rm Mpc}/h]^3$"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xscale</span><span class="p">(</span><span class="s2">"log"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">yscale</span><span class="p">(</span><span class="s2">"log"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">clip</span><span class="p">(</span><span class="n">k_s</span><span class="o">.</span><span class="n">min</span><span class="p">()</span> <span class="o">-</span> <span class="mf">2e-4</span><span class="p">,</span> <span class="mf">1e-4</span><span class="p">,</span> <span class="kc">None</span><span class="p">),</span> <span class="n">k_s</span><span class="o">.</span><span class="n">max</span><span class="p">())</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="mf">1e1</span><span class="p">,</span> <span class="mf">1e5</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">grid</span><span class="p">(</span><span class="n">which</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="s2">"y"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Plot vertical lines for support points and binning</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">vlines</span><span class="p">(</span><span class="n">k_s</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">ymin</span><span class="o">=</span><span class="mf">1e1</span><span class="p">,</span> <span class="n">ymax</span><span class="o">=</span><span class="mf">1e5</span><span class="p">,</span> <span class="n">colors</span><span class="o">=</span><span class="s2">"green"</span><span class="p">,</span> <span class="n">linestyles</span><span class="o">=</span><span class="s2">"dotted"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.6</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">k_s</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"green"</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"dotted"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\boldsymbol{\uptheta}$ support points"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">vlines</span><span class="p">(</span>
|
||||
<span class="n">Pbins</span><span class="p">,</span>
|
||||
<span class="n">ymin</span><span class="o">=</span><span class="mf">1e1</span><span class="p">,</span>
|
||||
<span class="n">ymax</span><span class="o">=</span><span class="mf">5e2</span><span class="p">,</span>
|
||||
<span class="n">colors</span><span class="o">=</span><span class="s2">"red"</span><span class="p">,</span>
|
||||
<span class="n">linestyles</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\boldsymbol{\Phi}$ bin centres"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">vlines</span><span class="p">(</span>
|
||||
<span class="n">Pbins_bnd</span><span class="p">,</span>
|
||||
<span class="n">ymin</span><span class="o">=</span><span class="mf">1e1</span><span class="p">,</span>
|
||||
<span class="n">ymax</span><span class="o">=</span><span class="mf">1e2</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span>
|
||||
<span class="n">colors</span><span class="o">=</span><span class="s2">"blue"</span><span class="p">,</span>
|
||||
<span class="n">linestyles</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\boldsymbol{\Phi}$ bin boundaries"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Plot the Nyquist frequency</span>
|
||||
<span class="n">nyquist_freq</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">*</span> <span class="n">size</span> <span class="o">/</span> <span class="n">L</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">nyquist_freq</span><span class="p">,</span> <span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">6.0</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s2">"Nyquist"</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Add legend, optional title, and save the figure</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">(</span><span class="n">loc</span><span class="o">=</span><span class="s2">"upper center"</span><span class="p">,</span> <span class="n">bbox_to_anchor</span><span class="o">=</span><span class="p">(</span><span class="mf">0.5</span><span class="p">,</span> <span class="o">-</span><span class="mf">0.2</span><span class="p">),</span> <span class="n">ncol</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">title</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span><span class="n">title</span><span class="p">)</span>
|
||||
<span class="n">output_dir</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">wd</span><span class="p">,</span> <span class="s2">"Figures"</span><span class="p">)</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">makedirs</span><span class="p">(</span><span class="n">output_dir</span><span class="p">,</span> <span class="n">exist_ok</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
<span class="n">output_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">output_dir</span><span class="p">,</span> <span class="s2">"summary.pdf"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">output_path</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">)</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Figure saved to: </span><span class="si">{</span><span class="n">output_path</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">display</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">show</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">close</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="relative_error_analysis">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">relative_error_analysis</span><span class="p">(</span>
|
||||
<span class="n">G_sim</span><span class="p">,</span> <span class="n">true_P</span><span class="p">,</span> <span class="n">k_s</span><span class="p">,</span> <span class="n">planck_Pk</span><span class="p">,</span> <span class="n">Pbins</span><span class="p">,</span> <span class="n">Pbins_bnd</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">wd</span><span class="p">,</span> <span class="n">display</span><span class="o">=</span><span class="kc">True</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute and plot the relative error between the interpolated and</span>
|
||||
<span class="sd"> true power spectra.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> G_sim : pysbmy.power.FourierGrid</span>
|
||||
<span class="sd"> Fourier grid object containing the `k_modes` attribute.</span>
|
||||
<span class="sd"> true_P : pysbmy.power.PowerSpectrum</span>
|
||||
<span class="sd"> Power spectrum object containing the `powerspectrum` attribute.</span>
|
||||
<span class="sd"> k_s : array-like</span>
|
||||
<span class="sd"> Support points in k-space.</span>
|
||||
<span class="sd"> planck_Pk : array-like</span>
|
||||
<span class="sd"> Power spectrum values at the support points.</span>
|
||||
<span class="sd"> Pbins : array-like</span>
|
||||
<span class="sd"> Centres of the Φ bins in k-space.</span>
|
||||
<span class="sd"> Pbins_bnd : array-like</span>
|
||||
<span class="sd"> Boundaries of the Φ bins in k-space.</span>
|
||||
<span class="sd"> size : float</span>
|
||||
<span class="sd"> Box size in number of grid cells.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Box length in Mpc/h.</span>
|
||||
<span class="sd"> wd : str</span>
|
||||
<span class="sd"> Working directory path for saving the figure.</span>
|
||||
<span class="sd"> display : bool, optional</span>
|
||||
<span class="sd"> Whether to display the figure. Default is True.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
<span class="kn">from</span> <span class="nn">scipy.interpolate</span> <span class="kn">import</span> <span class="n">InterpolatedUnivariateSpline</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.logger</span> <span class="kn">import</span> <span class="n">PrintInfo</span>
|
||||
|
||||
<span class="c1"># Interpolate the power spectrum</span>
|
||||
<span class="n">spline</span> <span class="o">=</span> <span class="n">InterpolatedUnivariateSpline</span><span class="p">(</span><span class="n">k_s</span><span class="p">,</span> <span class="n">planck_Pk</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">5</span><span class="p">)</span>
|
||||
<span class="n">rec_Pk</span> <span class="o">=</span> <span class="n">spline</span><span class="p">(</span><span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span><span class="p">[</span><span class="mi">1</span><span class="p">:])</span>
|
||||
<span class="n">true_spectrum</span> <span class="o">=</span> <span class="n">true_P</span><span class="o">.</span><span class="n">powerspectrum</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span>
|
||||
<span class="n">xx</span> <span class="o">=</span> <span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span>
|
||||
|
||||
<span class="c1"># Compute relative errors</span>
|
||||
<span class="n">rel_err</span> <span class="o">=</span> <span class="p">(</span><span class="n">rec_Pk</span> <span class="o">-</span> <span class="n">true_spectrum</span><span class="p">)</span> <span class="o">/</span> <span class="n">true_spectrum</span>
|
||||
<span class="n">indices_all</span> <span class="o">=</span> <span class="nb">slice</span><span class="p">(</span><span class="kc">None</span><span class="p">)</span>
|
||||
<span class="n">indices_nyquist</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">where</span><span class="p">((</span><span class="n">xx</span> <span class="o">>=</span> <span class="n">k_s</span><span class="o">.</span><span class="n">min</span><span class="p">())</span> <span class="o">&</span> <span class="p">(</span><span class="n">xx</span> <span class="o"><=</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">*</span> <span class="n">size</span> <span class="o">/</span> <span class="n">L</span><span class="p">))[</span><span class="mi">0</span><span class="p">]</span>
|
||||
<span class="n">indices_k2e1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">where</span><span class="p">(</span><span class="n">xx</span> <span class="o"><=</span> <span class="mf">2e-1</span><span class="p">)[</span><span class="mi">0</span><span class="p">]</span>
|
||||
|
||||
<span class="n">max_relerr</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">rel_err</span><span class="p">[</span><span class="n">indices_all</span><span class="p">]))</span>
|
||||
<span class="n">max_relerr_nyquist</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">rel_err</span><span class="p">[</span><span class="n">indices_nyquist</span><span class="p">]))</span>
|
||||
<span class="n">max_relerr_2e1</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">rel_err</span><span class="p">[</span><span class="n">indices_k2e1</span><span class="p">]))</span>
|
||||
|
||||
<span class="c1"># Create the figure</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">15</span><span class="p">,</span> <span class="mi">5</span><span class="p">))</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span>
|
||||
<span class="n">xx</span><span class="p">,</span>
|
||||
<span class="n">rel_err</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\left(P_\textrm</span><span class="si">{interp}</span><span class="s2">-P_{\mathrm</span><span class="si">{true}</span><span class="s2">}\right)/P_{\mathrm</span><span class="si">{true}</span><span class="s2">}$"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"$k\,[h/\mathrm</span><span class="si">{Mpc}</span><span class="s2">]$"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s2">"Relative error"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xscale</span><span class="p">(</span><span class="s2">"log"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlim</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">clip</span><span class="p">(</span><span class="n">k_s</span><span class="o">.</span><span class="n">min</span><span class="p">()</span> <span class="o">-</span> <span class="mf">2e-4</span><span class="p">,</span> <span class="mf">1e-4</span><span class="p">,</span> <span class="kc">None</span><span class="p">),</span> <span class="n">k_s</span><span class="o">.</span><span class="n">max</span><span class="p">())</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylim</span><span class="p">(</span><span class="o">-</span><span class="mf">0.1</span><span class="p">,</span> <span class="mf">0.1</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">grid</span><span class="p">(</span><span class="n">which</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="s2">"y"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Vertical lines for binning and support points</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">x</span><span class="o">=</span><span class="n">Pbins</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"red"</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\boldsymbol\Phi$ bin centres"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="n">Pbins</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s2">"red"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">Pbins</span><span class="p">[</span><span class="mi">1</span><span class="p">:</span><span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="n">k</span><span class="p">,</span> <span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">6.0</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"red"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">k_s</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="n">k</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"green"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"dotted"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.6</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">x</span><span class="o">=</span><span class="n">k_s</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"green"</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"dotted"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mf">0.6</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\boldsymbol\uptheta$ support points"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">x</span><span class="o">=</span><span class="n">Pbins_bnd</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span>
|
||||
<span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">3.0</span><span class="p">,</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"blue"</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">r</span><span class="s2">"$\boldsymbol\Phi$ bin boundaries"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="n">Pbins_bnd</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">3.0</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"blue"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">k</span> <span class="ow">in</span> <span class="n">Pbins_bnd</span><span class="p">[</span><span class="mi">1</span><span class="p">:</span><span class="o">-</span><span class="mi">1</span><span class="p">]:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">x</span><span class="o">=</span><span class="n">k</span><span class="p">,</span> <span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">12.0</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"blue"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"dashed"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Nyquist and fundamental frequencies</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">x</span><span class="o">=</span><span class="mi">2</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">/</span> <span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">6.0</span><span class="p">,</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="s2">"Fundamental mode"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">x</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">pi</span> <span class="o">*</span> <span class="n">size</span> <span class="o">/</span> <span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">ymax</span><span class="o">=</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">6.0</span><span class="p">,</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="s2">"Nyquist"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Add title, legend, and save the figure</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">(</span><span class="n">loc</span><span class="o">=</span><span class="s2">"upper center"</span><span class="p">,</span> <span class="n">bbox_to_anchor</span><span class="o">=</span><span class="p">(</span><span class="mf">0.5</span><span class="p">,</span> <span class="o">-</span><span class="mf">0.2</span><span class="p">),</span> <span class="n">ncol</span><span class="o">=</span><span class="mi">3</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">title</span><span class="p">(</span>
|
||||
<span class="s2">"Relative error between interpolated and true Planck 2018 power spectrum</span><span class="se">\n</span><span class="s2">"</span>
|
||||
<span class="sa">f</span><span class="s2">"over the </span><span class="si">{</span><span class="n">G_sim</span><span class="o">.</span><span class="n">k_modes</span><span class="o">.</span><span class="n">size</span><span class="si">}</span><span class="s2"> modes of the Fourier grid (max: </span><span class="si">{</span><span class="n">max_relerr</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mi">100</span><span class="si">:</span><span class="s2">.3f</span><span class="si">}</span><span class="se">\\</span><span class="s2">%)"</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">output_dir</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">wd</span><span class="p">,</span> <span class="s2">"Figures"</span><span class="p">)</span>
|
||||
<span class="n">os</span><span class="o">.</span><span class="n">makedirs</span><span class="p">(</span><span class="n">output_dir</span><span class="p">,</span> <span class="n">exist_ok</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
<span class="n">output_path</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">join</span><span class="p">(</span><span class="n">output_dir</span><span class="p">,</span> <span class="s2">"summary_relerr.pdf"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="n">output_path</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">)</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Figure saved to: </span><span class="si">{</span><span class="n">output_path</span><span class="si">}</span><span class="s2">"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Print summary of relative errors</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Max relative error over all support points: </span><span class="si">{</span><span class="n">max_relerr</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mi">100</span><span class="si">:</span><span class="s2">.3f</span><span class="si">}</span><span class="s2">%"</span><span class="p">)</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Max relative error up to 1D Nyquist frequency: </span><span class="si">{</span><span class="n">max_relerr_nyquist</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mi">100</span><span class="si">:</span><span class="s2">.3f</span><span class="si">}</span><span class="s2">%"</span><span class="p">)</span>
|
||||
<span class="n">PrintInfo</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Max relative error up to k = 2e-1: </span><span class="si">{</span><span class="n">max_relerr_2e1</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mi">100</span><span class="si">:</span><span class="s2">.3f</span><span class="si">}</span><span class="s2">%"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">display</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">show</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">close</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="plot_comoving_distance_redshift">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">plot_comoving_distance_redshift</span><span class="p">(</span>
|
||||
<span class="n">zz</span><span class="p">,</span> <span class="n">cosmo</span><span class="p">,</span> <span class="n">means_com</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">Lcorner</span><span class="p">,</span> <span class="n">wd</span><span class="p">,</span> <span class="n">colours_list</span><span class="o">=</span><span class="n">COLOUR_LIST</span><span class="p">,</span> <span class="n">display</span><span class="o">=</span><span class="kc">True</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Plot comoving distance as a function of redshift, highlighting key</span>
|
||||
<span class="sd"> scales.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> zz : array-like</span>
|
||||
<span class="sd"> Redshift range for the plot.</span>
|
||||
<span class="sd"> cosmo : astropy.cosmology object</span>
|
||||
<span class="sd"> Cosmology instance for calculating comoving distances.</span>
|
||||
<span class="sd"> means_com : array-like</span>
|
||||
<span class="sd"> Mean comoving distances of selection functions.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Box side length in Gpc/h.</span>
|
||||
<span class="sd"> Lcorner : float</span>
|
||||
<span class="sd"> Diagonal of the box (sqrt(3) * L) in Gpc/h.</span>
|
||||
<span class="sd"> wd : str</span>
|
||||
<span class="sd"> Working directory for saving figures.</span>
|
||||
<span class="sd"> colours_list : list</span>
|
||||
<span class="sd"> List of colours for selection function annotations.</span>
|
||||
<span class="sd"> display : bool, optional</span>
|
||||
<span class="sd"> Whether to display the figure. Default is True.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">d</span> <span class="o">=</span> <span class="n">cosmo</span><span class="o">.</span><span class="n">comoving_distance</span><span class="p">(</span><span class="n">zz</span><span class="p">)</span> <span class="o">/</span> <span class="mf">1e3</span> <span class="c1"># Convert to Gpc/h</span>
|
||||
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">12</span><span class="p">,</span> <span class="mf">5.2</span><span class="p">))</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">zz</span><span class="p">,</span> <span class="n">d</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s2">"Comoving distance"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span>
|
||||
<span class="n">L</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="sa">rf</span><span class="s2">"$L = </span><span class="si">{</span><span class="n">L</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">\textrm</span><span class="se">{{</span><span class="s2"> Gpc</span><span class="se">}}</span><span class="s2">/h$"</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span>
|
||||
<span class="n">Lcorner</span><span class="p">,</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">rf</span><span class="s2">"$L_\textrm</span><span class="se">{{</span><span class="s2">corner</span><span class="se">}}</span><span class="s2"> = </span><span class="si">{</span><span class="n">Lcorner</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">\textrm</span><span class="se">{{</span><span class="s2"> Gpc</span><span class="se">}}</span><span class="s2">/h$"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Annotate key redshifts</span>
|
||||
<span class="n">d_np</span> <span class="o">=</span> <span class="n">d</span><span class="o">.</span><span class="n">value</span>
|
||||
<span class="n">z_L</span> <span class="o">=</span> <span class="n">zz</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">argmin</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">d_np</span> <span class="o">-</span> <span class="n">L</span><span class="p">))]</span>
|
||||
<span class="n">z_corner</span> <span class="o">=</span> <span class="n">zz</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">argmin</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">d_np</span> <span class="o">-</span> <span class="n">Lcorner</span><span class="p">))]</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">z_L</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">z_corner</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">text</span><span class="p">(</span><span class="n">z_L</span><span class="p">,</span> <span class="mf">1.07</span> <span class="o">*</span> <span class="n">d_np</span><span class="o">.</span><span class="n">max</span><span class="p">(),</span> <span class="sa">rf</span><span class="s2">"$z(L) = </span><span class="si">{</span><span class="n">z_L</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">$"</span><span class="p">,</span> <span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_TINY</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">text</span><span class="p">(</span>
|
||||
<span class="n">z_corner</span><span class="p">,</span>
|
||||
<span class="mf">1.07</span> <span class="o">*</span> <span class="n">d_np</span><span class="o">.</span><span class="n">max</span><span class="p">(),</span>
|
||||
<span class="sa">rf</span><span class="s2">"$z(\sqrt</span><span class="se">{{</span><span class="s2">3</span><span class="se">}}</span><span class="s2">\,L) = </span><span class="si">{</span><span class="n">z_corner</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">$"</span><span class="p">,</span>
|
||||
<span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_TINY</span> <span class="o">-</span> <span class="mi">2</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Annotate the selection functions' means</span>
|
||||
<span class="n">z_means</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">([</span><span class="n">zz</span><span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">argmin</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">d_np</span> <span class="o">-</span> <span class="n">m</span><span class="p">))]</span> <span class="k">for</span> <span class="n">m</span> <span class="ow">in</span> <span class="n">means_com</span><span class="p">])</span>
|
||||
<span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">z_mean</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">z_means</span><span class="p">):</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">z_mean</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">text</span><span class="p">(</span>
|
||||
<span class="n">z_mean</span> <span class="o">-</span> <span class="mf">0.07</span><span class="p">,</span>
|
||||
<span class="n">L</span> <span class="o">+</span> <span class="mf">0.2</span><span class="p">,</span>
|
||||
<span class="sa">rf</span><span class="s2">"$z(\mu_</span><span class="se">{{</span><span class="si">{</span><span class="n">i</span><span class="o">+</span><span class="mi">1</span><span class="si">}</span><span class="se">}}</span><span class="s2"> = </span><span class="si">{</span><span class="n">means_com</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">) = </span><span class="si">{</span><span class="n">z_mean</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">$"</span><span class="p">,</span>
|
||||
<span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_TINY</span> <span class="o">-</span> <span class="mi">2</span><span class="p">,</span>
|
||||
<span class="n">rotation</span><span class="o">=</span><span class="mi">90</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Add labels, legend, and save the figure</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="s2">"Redshift $z$"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"Comoving distance [Gpc$/h$]"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">grid</span><span class="p">(</span><span class="n">which</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.3</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"gray"</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">tight_layout</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">wd</span><span class="si">}</span><span class="s2">selection_functions_z.pdf"</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">,</span> <span class="n">dpi</span><span class="o">=</span><span class="mi">300</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">wd</span><span class="si">}</span><span class="s2">selection_functions_z.png"</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">,</span> <span class="n">dpi</span><span class="o">=</span><span class="mi">300</span><span class="p">,</span> <span class="n">transparent</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">display</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">show</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">close</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="redshift_distance_conversion">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">redshift_distance_conversion</span><span class="p">(</span>
|
||||
<span class="n">zz</span><span class="p">,</span> <span class="n">cosmo</span><span class="p">,</span> <span class="n">means_com</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">Lcorner</span><span class="p">,</span> <span class="n">xx</span><span class="p">,</span> <span class="n">wd</span><span class="p">,</span> <span class="n">colours_list</span><span class="o">=</span><span class="n">COLOUR_LIST</span><span class="p">,</span> <span class="n">display</span><span class="o">=</span><span class="kc">True</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Plot the conversion between comoving distance and redshift; return</span>
|
||||
<span class="sd"> the redshifts corresponding to the selection functions' means.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> zz : array-like</span>
|
||||
<span class="sd"> Redshift range for the plot.</span>
|
||||
<span class="sd"> cosmo : astropy.cosmology object</span>
|
||||
<span class="sd"> Cosmology instance for calculating comoving distances.</span>
|
||||
<span class="sd"> means_com : array-like</span>
|
||||
<span class="sd"> Mean comoving distances of selection functions.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Box side length in Gpc/h.</span>
|
||||
<span class="sd"> Lcorner : float</span>
|
||||
<span class="sd"> Diagonal of the box (sqrt(3) * L) in Gpc/h.</span>
|
||||
<span class="sd"> xx : array-like</span>
|
||||
<span class="sd"> Comoving distances at which to compute redshift.</span>
|
||||
<span class="sd"> wd : str</span>
|
||||
<span class="sd"> Working directory for saving figures.</span>
|
||||
<span class="sd"> colours_list : list</span>
|
||||
<span class="sd"> List of colours for selection function annotations.</span>
|
||||
<span class="sd"> display : bool, optional</span>
|
||||
<span class="sd"> Whether to display the figure. Default is True.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> spline : scipy.interpolate.UnivariateSpline</span>
|
||||
<span class="sd"> Linear interpolator to convert comoving distances to redshifts.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">scipy.interpolate</span> <span class="kn">import</span> <span class="n">UnivariateSpline</span>
|
||||
|
||||
<span class="c1"># Convert comoving distances to redshifts using a linear interpolation</span>
|
||||
<span class="n">d_np</span> <span class="o">=</span> <span class="p">(</span><span class="n">cosmo</span><span class="o">.</span><span class="n">comoving_distance</span><span class="p">(</span><span class="n">zz</span><span class="p">)</span> <span class="o">/</span> <span class="mf">1e3</span><span class="p">)</span><span class="o">.</span><span class="n">value</span> <span class="c1"># Gpc/h</span>
|
||||
<span class="n">spline</span> <span class="o">=</span> <span class="n">UnivariateSpline</span><span class="p">(</span><span class="n">d_np</span><span class="p">,</span> <span class="n">zz</span><span class="p">,</span> <span class="n">k</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">s</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
|
||||
<span class="n">z_x</span> <span class="o">=</span> <span class="n">spline</span><span class="p">(</span><span class="n">xx</span><span class="p">)</span>
|
||||
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">12</span><span class="p">,</span> <span class="mi">5</span><span class="p">))</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">xx</span><span class="p">,</span> <span class="n">z_x</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Annotate key scales</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">L</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="sa">rf</span><span class="s2">"$L = </span><span class="si">{</span><span class="n">L</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">\textrm</span><span class="se">{{</span><span class="s2"> Gpc</span><span class="se">}}</span><span class="s2">/h$"</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">spline</span><span class="p">(</span><span class="n">L</span><span class="p">),</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">Lcorner</span><span class="p">,</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span>
|
||||
<span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">rf</span><span class="s2">"$L_\textrm</span><span class="se">{{</span><span class="s2">corner</span><span class="se">}}</span><span class="s2"> = </span><span class="si">{</span><span class="n">Lcorner</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">\textrm</span><span class="se">{{</span><span class="s2"> Gpc</span><span class="se">}}</span><span class="s2">/h$"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">spline</span><span class="p">(</span><span class="n">Lcorner</span><span class="p">),</span> <span class="n">color</span><span class="o">=</span><span class="s2">"orange"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">text</span><span class="p">(</span><span class="n">L</span> <span class="o">+</span> <span class="mf">0.08</span><span class="p">,</span> <span class="n">spline</span><span class="p">(</span><span class="n">L</span><span class="p">)</span> <span class="o">-</span> <span class="mf">0.14</span><span class="p">,</span> <span class="sa">rf</span><span class="s2">"$z(L) = </span><span class="si">{</span><span class="n">spline</span><span class="p">(</span><span class="n">L</span><span class="p">)</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">$"</span><span class="p">,</span> <span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_TINY</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">text</span><span class="p">(</span>
|
||||
<span class="n">Lcorner</span> <span class="o">-</span> <span class="mf">1.2</span><span class="p">,</span>
|
||||
<span class="n">spline</span><span class="p">(</span><span class="n">Lcorner</span><span class="p">)</span> <span class="o">-</span> <span class="mf">0.17</span><span class="p">,</span>
|
||||
<span class="sa">rf</span><span class="s2">"$z(\sqrt</span><span class="se">{{</span><span class="s2">3</span><span class="se">}}</span><span class="s2">\,L) = </span><span class="si">{</span><span class="n">spline</span><span class="p">(</span><span class="n">Lcorner</span><span class="p">)</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">$"</span><span class="p">,</span>
|
||||
<span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_TINY</span> <span class="o">-</span> <span class="mi">2</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Annotate the selection functions' means</span>
|
||||
<span class="n">z_means</span> <span class="o">=</span> <span class="n">spline</span><span class="p">(</span><span class="n">means_com</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">z_mean</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">z_means</span><span class="p">):</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">means_com</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axhline</span><span class="p">(</span><span class="n">z_mean</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">text</span><span class="p">(</span>
|
||||
<span class="n">L</span> <span class="o">+</span> <span class="mf">0.08</span><span class="p">,</span>
|
||||
<span class="n">z_mean</span> <span class="o">-</span> <span class="mf">0.14</span><span class="p">,</span>
|
||||
<span class="sa">rf</span><span class="s2">"$z(\mu_</span><span class="se">{{</span><span class="si">{</span><span class="n">i</span><span class="o">+</span><span class="mi">1</span><span class="si">}</span><span class="se">}}</span><span class="s2"> = </span><span class="si">{</span><span class="n">means_com</span><span class="p">[</span><span class="n">i</span><span class="p">]</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">) = </span><span class="si">{</span><span class="n">z_mean</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">$"</span><span class="p">,</span>
|
||||
<span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_TINY</span> <span class="o">-</span> <span class="mi">2</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Add labels, legend, and save the figure</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"Comoving distance [Gpc$/h$]"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="s2">"Redshift $z$"</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">grid</span><span class="p">(</span><span class="n">which</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.3</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"gray"</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">tight_layout</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">wd</span><span class="si">}</span><span class="s2">redshift_distance_conversion.pdf"</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">,</span> <span class="n">dpi</span><span class="o">=</span><span class="mi">300</span><span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">display</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">show</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">spline</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="plot_selection_functions_def_in_z">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">plot_selection_functions_def_in_z</span><span class="p">(</span>
|
||||
<span class="n">xx_of_zs</span><span class="p">,</span>
|
||||
<span class="n">res</span><span class="p">,</span>
|
||||
<span class="n">res_mis</span><span class="p">,</span>
|
||||
<span class="n">z_means</span><span class="p">,</span>
|
||||
<span class="n">cosmo</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">stds_z</span><span class="p">,</span>
|
||||
<span class="n">wd</span><span class="p">,</span>
|
||||
<span class="n">display</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Plot radial lognormal (in redshift) selection functions against</span>
|
||||
<span class="sd"> comoving distances.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> xx_of_zs : array-like</span>
|
||||
<span class="sd"> Comoving distances mapped from redshift.</span>
|
||||
<span class="sd"> res : list of array-like</span>
|
||||
<span class="sd"> Selection functions for the well-specified model.</span>
|
||||
<span class="sd"> res_mis : list of array-like</span>
|
||||
<span class="sd"> Selection functions for the mis-specified model.</span>
|
||||
<span class="sd"> z_means : array-like</span>
|
||||
<span class="sd"> Mean redshifts of every galaxy population.</span>
|
||||
<span class="sd"> cosmo : object</span>
|
||||
<span class="sd"> Cosmology object.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Box side length in comoving distance units.</span>
|
||||
<span class="sd"> stds_z : array-like</span>
|
||||
<span class="sd"> Standard deviations of redshift distributions.</span>
|
||||
<span class="sd"> wd : str</span>
|
||||
<span class="sd"> Working directory for saving figures.</span>
|
||||
<span class="sd"> display : bool, optional</span>
|
||||
<span class="sd"> Whether to display the figure. Default is True.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">matplotlib.ticker</span> <span class="kn">import</span> <span class="n">FormatStrFormatter</span>
|
||||
|
||||
<span class="n">colours_list</span> <span class="o">=</span> <span class="n">COLOUR_LIST</span><span class="p">[:</span> <span class="nb">len</span><span class="p">(</span><span class="n">res</span><span class="p">)]</span>
|
||||
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">figure</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">10</span><span class="p">,</span> <span class="mi">5</span><span class="p">))</span>
|
||||
|
||||
<span class="c1"># Plot well-specified selection functions</span>
|
||||
<span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">r</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">res</span><span class="p">):</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">xx_of_zs</span><span class="p">,</span> <span class="n">r</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">xx_of_zs</span><span class="p">,</span> <span class="n">res</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s2">"Model A"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Plot mis-specified selection functions</span>
|
||||
<span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">r_mis</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">res_mis</span><span class="p">):</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">xx_of_zs</span><span class="p">,</span> <span class="n">r_mis</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">])</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">plot</span><span class="p">(</span><span class="n">xx_of_zs</span><span class="p">,</span> <span class="n">res_mis</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"--"</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">label</span><span class="o">=</span><span class="s2">"Model B"</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Define x-ticks and labels</span>
|
||||
<span class="n">xticks</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="o">*</span> <span class="n">L</span><span class="p">]</span>
|
||||
<span class="n">xtick_labels</span> <span class="o">=</span> <span class="p">[</span><span class="sa">r</span><span class="s2">"$0$"</span><span class="p">,</span> <span class="sa">r</span><span class="s2">"$\sqrt 3\,L \simeq </span><span class="si">{:.2f}</span><span class="s2">$"</span><span class="o">.</span><span class="n">format</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="o">*</span> <span class="n">L</span><span class="p">)]</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"black"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span> <span class="n">zorder</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Annotate populations</span>
|
||||
<span class="k">for</span> <span class="n">i</span><span class="p">,</span> <span class="n">mean</span> <span class="ow">in</span> <span class="nb">enumerate</span><span class="p">(</span><span class="n">z_means</span><span class="p">):</span>
|
||||
<span class="n">std</span> <span class="o">=</span> <span class="n">stds_z</span><span class="p">[</span><span class="n">i</span><span class="p">]</span>
|
||||
<span class="n">mu</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">mean</span><span class="o">**</span><span class="mi">2</span> <span class="o">/</span> <span class="n">np</span><span class="o">.</span><span class="n">sqrt</span><span class="p">(</span><span class="n">mean</span><span class="o">**</span><span class="mi">2</span> <span class="o">+</span> <span class="n">std</span><span class="o">**</span><span class="mi">2</span><span class="p">))</span>
|
||||
<span class="n">sig2</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="mi">1</span> <span class="o">+</span> <span class="n">std</span><span class="o">**</span><span class="mi">2</span> <span class="o">/</span> <span class="n">mean</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
|
||||
<span class="n">mode</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">exp</span><span class="p">(</span><span class="n">mu</span> <span class="o">-</span> <span class="n">sig2</span><span class="p">)</span>
|
||||
|
||||
<span class="n">dmode</span> <span class="o">=</span> <span class="n">cosmo</span><span class="o">.</span><span class="n">comoving_distance</span><span class="p">(</span><span class="n">mode</span><span class="p">)</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="mf">1e3</span>
|
||||
<span class="n">dmean</span> <span class="o">=</span> <span class="n">cosmo</span><span class="o">.</span><span class="n">comoving_distance</span><span class="p">(</span><span class="n">mean</span><span class="p">)</span><span class="o">.</span><span class="n">value</span> <span class="o">/</span> <span class="mf">1e3</span>
|
||||
|
||||
<span class="n">xticks</span><span class="o">.</span><span class="n">extend</span><span class="p">([</span><span class="n">dmean</span><span class="p">])</span>
|
||||
<span class="n">xtick_labels</span><span class="o">.</span><span class="n">extend</span><span class="p">([</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">dmean</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">"</span><span class="p">])</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">dmean</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-."</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span><span class="n">dmode</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">],</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">axvline</span><span class="p">(</span>
|
||||
<span class="n">mode</span><span class="p">,</span>
|
||||
<span class="n">color</span><span class="o">=</span><span class="n">colours_list</span><span class="p">[</span><span class="n">i</span><span class="p">],</span>
|
||||
<span class="n">alpha</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span>
|
||||
<span class="n">linewidth</span><span class="o">=</span><span class="mi">1</span><span class="p">,</span>
|
||||
<span class="n">label</span><span class="o">=</span><span class="sa">f</span><span class="s2">"Population </span><span class="si">{</span><span class="n">i</span><span class="o">+</span><span class="mi">1</span><span class="si">}</span><span class="s2">"</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="c1"># Configure axes, labels, ticks, legend</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"$r\,[{\rm Gpc}/h]$"</span><span class="p">,</span> <span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_LARGE</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"$R_i(r)$"</span><span class="p">,</span> <span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_LARGE</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">xticks</span><span class="p">(</span><span class="n">xticks</span><span class="p">,</span> <span class="n">xtick_labels</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">"x"</span><span class="p">,</span> <span class="n">which</span><span class="o">=</span><span class="s2">"major"</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="mi">8</span><span class="p">,</span> <span class="n">labelsize</span><span class="o">=</span><span class="n">GLOBAL_FS_SMALL</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">tick_params</span><span class="p">(</span><span class="n">axis</span><span class="o">=</span><span class="s2">"y"</span><span class="p">,</span> <span class="n">which</span><span class="o">=</span><span class="s2">"major"</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="mi">8</span><span class="p">,</span> <span class="n">labelsize</span><span class="o">=</span><span class="n">GLOBAL_FS_SMALL</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">grid</span><span class="p">(</span><span class="n">which</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">axis</span><span class="o">=</span><span class="s2">"both"</span><span class="p">,</span> <span class="n">linestyle</span><span class="o">=</span><span class="s2">"-"</span><span class="p">,</span> <span class="n">linewidth</span><span class="o">=</span><span class="mf">0.4</span><span class="p">,</span> <span class="n">color</span><span class="o">=</span><span class="s2">"gray"</span><span class="p">,</span> <span class="n">alpha</span><span class="o">=</span><span class="mf">0.5</span><span class="p">)</span>
|
||||
|
||||
<span class="n">maxs</span> <span class="o">=</span> <span class="p">[</span><span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">r</span><span class="p">)</span> <span class="k">for</span> <span class="n">r</span> <span class="ow">in</span> <span class="n">res</span><span class="p">]</span>
|
||||
<span class="n">yticks</span> <span class="o">=</span> <span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">+</span> <span class="n">maxs</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">yticks</span><span class="p">(</span><span class="n">yticks</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">gca</span><span class="p">()</span><span class="o">.</span><span class="n">yaxis</span><span class="o">.</span><span class="n">set_major_formatter</span><span class="p">(</span><span class="n">FormatStrFormatter</span><span class="p">(</span><span class="s2">"</span><span class="si">%.2f</span><span class="s2">"</span><span class="p">))</span>
|
||||
|
||||
<span class="n">legend</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">legend</span><span class="p">(</span><span class="n">frameon</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">loc</span><span class="o">=</span><span class="s2">"upper right"</span><span class="p">,</span> <span class="n">fontsize</span><span class="o">=</span><span class="n">GLOBAL_FS_LARGE</span><span class="p">)</span>
|
||||
<span class="n">legend</span><span class="o">.</span><span class="n">get_frame</span><span class="p">()</span><span class="o">.</span><span class="n">set_edgecolor</span><span class="p">(</span><span class="s2">"white"</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">lh</span> <span class="ow">in</span> <span class="n">legend</span><span class="o">.</span><span class="n">legend_handles</span><span class="p">:</span>
|
||||
<span class="n">lh</span><span class="o">.</span><span class="n">set_alpha</span><span class="p">(</span><span class="mi">1</span><span class="p">)</span>
|
||||
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">tight_layout</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">wd</span><span class="si">}</span><span class="s2">selection_functions_com.pdf"</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">,</span> <span class="n">dpi</span><span class="o">=</span><span class="mi">300</span><span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">display</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">show</span><span class="p">()</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">close</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="plot_galaxy_field_slice">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">plot_galaxy_field_slice</span><span class="p">(</span><span class="n">g</span><span class="p">,</span> <span class="n">size</span><span class="p">,</span> <span class="n">L</span><span class="p">,</span> <span class="n">wd</span><span class="p">,</span> <span class="n">id_obs</span><span class="p">,</span> <span class="n">limits</span><span class="o">=</span><span class="s2">"minmax"</span><span class="p">,</span> <span class="n">display</span><span class="o">=</span><span class="kc">True</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Plot a 2D slice of the observed field.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> g : ndarray</span>
|
||||
<span class="sd"> 2D array representing the observed field slice.</span>
|
||||
<span class="sd"> size : int</span>
|
||||
<span class="sd"> Number of grid points along each axis.</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Size of the simulation box (in Mpc/h).</span>
|
||||
<span class="sd"> wd : str</span>
|
||||
<span class="sd"> Working directory for saving output files.</span>
|
||||
<span class="sd"> id_obs : int or str</span>
|
||||
<span class="sd"> Identifier for the observation, used in file naming.</span>
|
||||
<span class="sd"> limits : str, optional</span>
|
||||
<span class="sd"> Colormap scaling method. Options: 'minmax', 'truncate', 'max'.</span>
|
||||
<span class="sd"> display : bool, optional</span>
|
||||
<span class="sd"> Whether to display the figure. Default is True.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">mpl_toolkits.axes_grid1</span> <span class="kn">import</span> <span class="n">make_axes_locatable</span>
|
||||
<span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">colors</span>
|
||||
|
||||
<span class="c1"># Define colormap and set scaling limits</span>
|
||||
<span class="n">GalaxyMap</span> <span class="o">=</span> <span class="n">create_colormap</span><span class="p">(</span><span class="s2">"GalaxyMap"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">limits</span> <span class="o">==</span> <span class="s2">"max"</span><span class="p">:</span>
|
||||
<span class="n">maxcol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">abs</span><span class="p">(</span><span class="n">g</span><span class="p">))</span>
|
||||
<span class="n">mincol</span> <span class="o">=</span> <span class="o">-</span><span class="n">maxcol</span>
|
||||
<span class="n">cmap</span> <span class="o">=</span> <span class="n">GalaxyMap</span>
|
||||
<span class="k">elif</span> <span class="n">limits</span> <span class="o">==</span> <span class="s2">"truncate"</span><span class="p">:</span>
|
||||
<span class="n">maxcol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">([</span><span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="o">-</span><span class="n">g</span><span class="p">),</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">g</span><span class="p">)])</span>
|
||||
<span class="n">mincol</span> <span class="o">=</span> <span class="o">-</span><span class="n">maxcol</span>
|
||||
<span class="n">cmap</span> <span class="o">=</span> <span class="s2">"PiYG"</span>
|
||||
<span class="k">elif</span> <span class="n">limits</span> <span class="o">==</span> <span class="s2">"minmax"</span><span class="p">:</span>
|
||||
<span class="n">maxcol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">max</span><span class="p">(</span><span class="n">g</span><span class="p">)</span>
|
||||
<span class="n">mincol</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">min</span><span class="p">(</span><span class="n">g</span><span class="p">)</span>
|
||||
<span class="n">cmap</span> <span class="o">=</span> <span class="n">GalaxyMap</span>
|
||||
|
||||
<span class="n">divnorm</span> <span class="o">=</span> <span class="n">colors</span><span class="o">.</span><span class="n">TwoSlopeNorm</span><span class="p">(</span><span class="n">vmin</span><span class="o">=</span><span class="n">mincol</span><span class="p">,</span> <span class="n">vcenter</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">vmax</span><span class="o">=</span><span class="n">maxcol</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Plot</span>
|
||||
<span class="n">fig</span><span class="p">,</span> <span class="n">ax</span> <span class="o">=</span> <span class="n">plt</span><span class="o">.</span><span class="n">subplots</span><span class="p">(</span><span class="n">figsize</span><span class="o">=</span><span class="p">(</span><span class="mi">6</span><span class="p">,</span> <span class="mi">6</span><span class="p">))</span>
|
||||
<span class="n">im</span> <span class="o">=</span> <span class="n">ax</span><span class="o">.</span><span class="n">imshow</span><span class="p">(</span><span class="n">g</span><span class="p">,</span> <span class="n">norm</span><span class="o">=</span><span class="n">divnorm</span><span class="p">,</span> <span class="n">cmap</span><span class="o">=</span><span class="n">cmap</span><span class="p">)</span>
|
||||
<span class="n">ax</span><span class="o">.</span><span class="n">invert_yaxis</span><span class="p">()</span> <span class="c1"># Place origin at bottom-left</span>
|
||||
<span class="n">ax</span><span class="o">.</span><span class="n">spines</span><span class="p">[[</span><span class="s2">"top"</span><span class="p">,</span> <span class="s2">"right"</span><span class="p">,</span> <span class="s2">"left"</span><span class="p">,</span> <span class="s2">"bottom"</span><span class="p">]]</span><span class="o">.</span><span class="n">set_visible</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
|
||||
<span class="n">divider</span> <span class="o">=</span> <span class="n">make_axes_locatable</span><span class="p">(</span><span class="n">ax</span><span class="p">)</span>
|
||||
<span class="n">cax</span> <span class="o">=</span> <span class="n">divider</span><span class="o">.</span><span class="n">append_axes</span><span class="p">(</span><span class="s2">"right"</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="s2">"5%"</span><span class="p">,</span> <span class="n">pad</span><span class="o">=</span><span class="mf">0.1</span><span class="p">)</span>
|
||||
<span class="n">cbar</span> <span class="o">=</span> <span class="n">fig</span><span class="o">.</span><span class="n">colorbar</span><span class="p">(</span><span class="n">im</span><span class="p">,</span> <span class="n">cax</span><span class="o">=</span><span class="n">cax</span><span class="p">)</span>
|
||||
<span class="n">cbar</span><span class="o">.</span><span class="n">outline</span><span class="o">.</span><span class="n">set_visible</span><span class="p">(</span><span class="kc">False</span><span class="p">)</span>
|
||||
<span class="n">ticks</span> <span class="o">=</span> <span class="p">[</span><span class="n">mincol</span><span class="p">,</span> <span class="n">mincol</span> <span class="o">/</span> <span class="mi">2</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="n">maxcol</span> <span class="o">/</span> <span class="mi">3</span><span class="p">,</span> <span class="mi">2</span> <span class="o">*</span> <span class="n">maxcol</span> <span class="o">/</span> <span class="mi">3</span><span class="p">,</span> <span class="n">maxcol</span><span class="p">]</span>
|
||||
<span class="n">cbar</span><span class="o">.</span><span class="n">set_ticks</span><span class="p">(</span><span class="n">ticks</span><span class="p">)</span>
|
||||
<span class="n">cbar</span><span class="o">.</span><span class="n">set_ticklabels</span><span class="p">([</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">x</span><span class="si">:</span><span class="s2">.2f</span><span class="si">}</span><span class="s2">"</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">ticks</span><span class="p">],</span> <span class="n">size</span><span class="o">=</span><span class="n">GLOBAL_FS_SMALL</span><span class="p">)</span>
|
||||
<span class="n">cbar</span><span class="o">.</span><span class="n">set_label</span><span class="p">(</span><span class="sa">r</span><span class="s2">"$\delta_\textrm</span><span class="si">{g}</span><span class="s2">$"</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="n">GLOBAL_FS</span><span class="p">)</span>
|
||||
<span class="n">ax</span><span class="o">.</span><span class="n">set_xticks</span><span class="p">(</span>
|
||||
<span class="p">[</span><span class="n">size</span> <span class="o">*</span> <span class="n">i</span> <span class="o">/</span> <span class="mf">4.0</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">)],</span> <span class="p">[</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">L</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mf">1e-3</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="n">i</span><span class="w"> </span><span class="o">/</span><span class="w"> </span><span class="mi">4</span><span class="si">:</span><span class="s2">.1f</span><span class="si">}</span><span class="s2">"</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">)]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">ax</span><span class="o">.</span><span class="n">set_yticks</span><span class="p">(</span>
|
||||
<span class="p">[</span><span class="n">size</span> <span class="o">*</span> <span class="n">i</span> <span class="o">/</span> <span class="mf">4.0</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">)],</span> <span class="p">[</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">L</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="mf">1e-3</span><span class="w"> </span><span class="o">*</span><span class="w"> </span><span class="n">i</span><span class="w"> </span><span class="o">/</span><span class="w"> </span><span class="mi">4</span><span class="si">:</span><span class="s2">.1f</span><span class="si">}</span><span class="s2">"</span> <span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">5</span><span class="p">)]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">ax</span><span class="o">.</span><span class="n">set_xlabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"Gpc/$h$"</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="n">GLOBAL_FS</span><span class="p">)</span>
|
||||
<span class="n">ax</span><span class="o">.</span><span class="n">set_ylabel</span><span class="p">(</span><span class="sa">r</span><span class="s2">"Gpc/$h$"</span><span class="p">,</span> <span class="n">size</span><span class="o">=</span><span class="n">GLOBAL_FS</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Save or display</span>
|
||||
<span class="k">if</span> <span class="n">display</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">show</span><span class="p">()</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">wd</span><span class="si">}</span><span class="s2">Figures/g_</span><span class="si">{</span><span class="n">id_obs</span><span class="si">}</span><span class="s2">.png"</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">,</span> <span class="n">dpi</span><span class="o">=</span><span class="mi">300</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">savefig</span><span class="p">(</span><span class="sa">f</span><span class="s2">"</span><span class="si">{</span><span class="n">wd</span><span class="si">}</span><span class="s2">Figures/g_</span><span class="si">{</span><span class="n">id_obs</span><span class="si">}</span><span class="s2">.pdf"</span><span class="p">,</span> <span class="n">bbox_inches</span><span class="o">=</span><span class="s2">"tight"</span><span class="p">,</span> <span class="n">dpi</span><span class="o">=</span><span class="mi">300</span><span class="p">)</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">close</span><span class="p">()</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
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662
docs/_modules/selfisys/utils/plot_params.html
Normal file
662
docs/_modules/selfisys/utils/plot_params.html
Normal file
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
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<ul>
|
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<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
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||||
</nav>
|
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<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../../index.html">SelfiSys</a>
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</nav>
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<div class="rst-content style-external-links">
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<div role="navigation" aria-label="Page navigation">
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<ul class="wy-breadcrumbs">
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<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.plot_params</li>
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<li class="wy-breadcrumbs-aside">
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||||
</li>
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||||
</ul>
|
||||
<hr/>
|
||||
</div>
|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.plot_params</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Plotting utilities and custom colormaps for the SelfiSys package.</span>
|
||||
|
||||
<span class="sd">This module provides custom Matplotlib settings, formatter classes, and</span>
|
||||
<span class="sd">colormaps used for visualising results in the SelfiSys project.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
|
||||
<span class="c1"># Global font sizes</span>
|
||||
<span class="n">GLOBAL_FS</span> <span class="o">=</span> <span class="mi">20</span>
|
||||
<span class="n">GLOBAL_FS_LARGE</span> <span class="o">=</span> <span class="mi">22</span>
|
||||
<span class="n">GLOBAL_FS_XLARGE</span> <span class="o">=</span> <span class="mi">24</span>
|
||||
<span class="n">GLOBAL_FS_SMALL</span> <span class="o">=</span> <span class="mi">18</span>
|
||||
<span class="n">GLOBAL_FS_TINY</span> <span class="o">=</span> <span class="mi">16</span>
|
||||
<span class="n">COLOUR_LIST</span> <span class="o">=</span> <span class="p">[</span><span class="s2">"C4"</span><span class="p">,</span> <span class="s2">"C5"</span><span class="p">,</span> <span class="s2">"C6"</span><span class="p">,</span> <span class="s2">"C7"</span><span class="p">]</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="reset_plotting">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">reset_plotting</span><span class="p">():</span>
|
||||
<span class="kn">import</span> <span class="nn">matplotlib</span> <span class="k">as</span> <span class="nn">mpl</span>
|
||||
|
||||
<span class="n">mpl</span><span class="o">.</span><span class="n">rcParams</span><span class="o">.</span><span class="n">update</span><span class="p">(</span><span class="n">mpl</span><span class="o">.</span><span class="n">rcParamsDefault</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="setup_plotting">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">setup_plotting</span><span class="p">():</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Configure Matplotlib plotting settings for consistent appearance.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">matplotlib.pyplot</span> <span class="k">as</span> <span class="nn">plt</span>
|
||||
<span class="kn">import</span> <span class="nn">importlib.resources</span>
|
||||
|
||||
<span class="k">with</span> <span class="n">importlib</span><span class="o">.</span><span class="n">resources</span><span class="o">.</span><span class="n">open_text</span><span class="p">(</span><span class="s2">"selfisys"</span><span class="p">,</span> <span class="s2">"preamble.tex"</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
<span class="n">preamble</span> <span class="o">=</span> <span class="n">f</span><span class="o">.</span><span class="n">read</span><span class="p">()</span>
|
||||
|
||||
<span class="c1"># Dictionary with rcParams settings</span>
|
||||
<span class="n">rcparams</span> <span class="o">=</span> <span class="p">{</span>
|
||||
<span class="s2">"font.family"</span><span class="p">:</span> <span class="s2">"serif"</span><span class="p">,</span>
|
||||
<span class="s2">"font.size"</span><span class="p">:</span> <span class="n">GLOBAL_FS</span><span class="p">,</span> <span class="c1"># Base font size</span>
|
||||
<span class="s2">"axes.titlesize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_XLARGE</span><span class="p">,</span>
|
||||
<span class="s2">"axes.labelsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_LARGE</span><span class="p">,</span>
|
||||
<span class="s2">"axes.linewidth"</span><span class="p">:</span> <span class="mf">1.0</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.labelsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_SMALL</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.labelsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_SMALL</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.major.width"</span><span class="p">:</span> <span class="mf">1.2</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.major.width"</span><span class="p">:</span> <span class="mf">1.2</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.minor.width"</span><span class="p">:</span> <span class="mf">1.0</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.minor.width"</span><span class="p">:</span> <span class="mf">1.0</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.direction"</span><span class="p">:</span> <span class="s2">"in"</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.direction"</span><span class="p">:</span> <span class="s2">"in"</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.major.pad"</span><span class="p">:</span> <span class="mi">5</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.minor.pad"</span><span class="p">:</span> <span class="mi">5</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.major.pad"</span><span class="p">:</span> <span class="mi">5</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.minor.pad"</span><span class="p">:</span> <span class="mi">5</span><span class="p">,</span>
|
||||
<span class="s2">"legend.fontsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_SMALL</span><span class="p">,</span>
|
||||
<span class="s2">"legend.title_fontsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_LARGE</span><span class="p">,</span>
|
||||
<span class="s2">"figure.titlesize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_XLARGE</span><span class="p">,</span>
|
||||
<span class="s2">"figure.dpi"</span><span class="p">:</span> <span class="mi">300</span><span class="p">,</span>
|
||||
<span class="s2">"grid.color"</span><span class="p">:</span> <span class="s2">"gray"</span><span class="p">,</span>
|
||||
<span class="s2">"grid.linestyle"</span><span class="p">:</span> <span class="s2">"dotted"</span><span class="p">,</span>
|
||||
<span class="s2">"grid.linewidth"</span><span class="p">:</span> <span class="mf">0.6</span><span class="p">,</span>
|
||||
<span class="s2">"lines.linewidth"</span><span class="p">:</span> <span class="mi">2</span><span class="p">,</span>
|
||||
<span class="s2">"lines.markersize"</span><span class="p">:</span> <span class="mi">8</span><span class="p">,</span>
|
||||
<span class="s2">"text.usetex"</span><span class="p">:</span> <span class="kc">True</span><span class="p">,</span>
|
||||
<span class="s2">"text.latex.preamble"</span><span class="p">:</span> <span class="n">preamble</span><span class="p">,</span>
|
||||
<span class="p">}</span>
|
||||
|
||||
<span class="c1"># Update rcParams</span>
|
||||
<span class="n">plt</span><span class="o">.</span><span class="n">rcParams</span><span class="o">.</span><span class="n">update</span><span class="p">(</span><span class="n">rcparams</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="dynamic_text_scaling">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">dynamic_text_scaling</span><span class="p">(</span><span class="n">fig_height</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Dynamically scale text sizes based on the vertical height of the</span>
|
||||
<span class="sd"> figure.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> fig_height : float</span>
|
||||
<span class="sd"> Height of the figure in inches.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> dict</span>
|
||||
<span class="sd"> Dictionary of scaled font sizes for consistent appearance.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">scaling_factor</span> <span class="o">=</span> <span class="n">fig_height</span> <span class="o">/</span> <span class="mf">6.0</span> <span class="c1"># Reference height is 6 inches</span>
|
||||
<span class="k">return</span> <span class="p">{</span>
|
||||
<span class="s2">"font.size"</span><span class="p">:</span> <span class="n">GLOBAL_FS</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"axes.titlesize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_XLARGE</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"axes.labelsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_LARGE</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"xtick.labelsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_SMALL</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"ytick.labelsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_SMALL</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"legend.fontsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_SMALL</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"legend.title_fontsize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_LARGE</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="s2">"figure.titlesize"</span><span class="p">:</span> <span class="n">GLOBAL_FS_XLARGE</span> <span class="o">*</span> <span class="n">scaling_factor</span><span class="p">,</span>
|
||||
<span class="p">}</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="ScalarFormatterForceFormat_11">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11">[docs]</a>
|
||||
<span class="k">class</span> <span class="nc">ScalarFormatterForceFormat_11</span><span class="p">:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Custom scalar formatter to enforce a specific number format with an</span>
|
||||
<span class="sd"> offset.</span>
|
||||
|
||||
<span class="sd"> This formatter displays tick labels with one decimal place and</span>
|
||||
<span class="sd"> includes the offset notation for powers of ten.</span>
|
||||
<span class="sd"> """</span>
|
||||
|
||||
<span class="k">def</span> <span class="fm">__init__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">useOffset</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">useMathText</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">useLocale</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
|
||||
<span class="kn">from</span> <span class="nn">matplotlib.ticker</span> <span class="kn">import</span> <span class="n">ScalarFormatter</span>
|
||||
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">formatter</span> <span class="o">=</span> <span class="n">ScalarFormatter</span><span class="p">(</span>
|
||||
<span class="n">useOffset</span><span class="o">=</span><span class="n">useOffset</span><span class="p">,</span> <span class="n">useMathText</span><span class="o">=</span><span class="n">useMathText</span><span class="p">,</span> <span class="n">useLocale</span><span class="o">=</span><span class="n">useLocale</span>
|
||||
<span class="p">)</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="n">set_powerlimits</span><span class="p">((</span><span class="mi">0</span><span class="p">,</span> <span class="mi">0</span><span class="p">))</span>
|
||||
|
||||
<span class="k">def</span> <span class="fm">__call__</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">val</span><span class="p">,</span> <span class="n">pos</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
|
||||
<span class="k">return</span> <span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="fm">__call__</span><span class="p">(</span><span class="n">val</span><span class="p">,</span> <span class="n">pos</span><span class="p">)</span>
|
||||
|
||||
<div class="viewcode-block" id="ScalarFormatterForceFormat_11.set_scientific">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">set_scientific</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">b</span><span class="p">):</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="n">set_scientific</span><span class="p">(</span><span class="n">b</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="ScalarFormatterForceFormat_11.set_useOffset">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">set_useOffset</span><span class="p">(</span><span class="bp">self</span><span class="p">,</span> <span class="n">b</span><span class="p">):</span>
|
||||
<span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="n">set_useOffset</span><span class="p">(</span><span class="n">b</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="ScalarFormatterForceFormat_11.get_offset">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">get_offset</span><span class="p">(</span><span class="bp">self</span><span class="p">):</span>
|
||||
<span class="n">offset</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="n">get_offset</span><span class="p">()</span>
|
||||
<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="n">orderOfMagnitude</span> <span class="o">!=</span> <span class="mi">0</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="sa">r</span><span class="s2">"$\times 10^{</span><span class="si">%+d</span><span class="s2">}$"</span> <span class="o">%</span> <span class="bp">self</span><span class="o">.</span><span class="n">formatter</span><span class="o">.</span><span class="n">orderOfMagnitude</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="sa">r</span><span class="s2">"$\times 10^{+0}$"</span></div>
|
||||
</div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="get_contours">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">get_contours</span><span class="p">(</span><span class="n">Z</span><span class="p">,</span> <span class="n">nBins</span><span class="p">,</span> <span class="n">confLevels</span><span class="o">=</span><span class="p">(</span><span class="mf">0.3173</span><span class="p">,</span> <span class="mf">0.0455</span><span class="p">,</span> <span class="mf">0.0027</span><span class="p">)):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute contour levels for given confidence levels.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> Z : ndarray</span>
|
||||
<span class="sd"> 2D histogram or density estimate.</span>
|
||||
<span class="sd"> nBins : int</span>
|
||||
<span class="sd"> Number of bins along one axis.</span>
|
||||
<span class="sd"> confLevels : tuple of float</span>
|
||||
<span class="sd"> Confidence levels for which to compute contour levels.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> chainLevels : ndarray</span>
|
||||
<span class="sd"> Contour levels corresponding to the provided confidence levels.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
|
||||
<span class="n">Z</span> <span class="o">=</span> <span class="n">Z</span> <span class="o">/</span> <span class="n">Z</span><span class="o">.</span><span class="n">sum</span><span class="p">()</span>
|
||||
<span class="n">nContourLevels</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">confLevels</span><span class="p">)</span>
|
||||
<span class="n">chainLevels</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">ones</span><span class="p">(</span><span class="n">nContourLevels</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span>
|
||||
<span class="n">histOrdered</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">Z</span><span class="o">.</span><span class="n">flat</span><span class="p">)</span>
|
||||
<span class="n">histCumulative</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">cumsum</span><span class="p">(</span><span class="n">histOrdered</span><span class="p">)</span>
|
||||
<span class="n">nBinsFlat</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="n">nBins</span><span class="o">**</span><span class="mi">2</span><span class="p">,</span> <span class="n">nBins</span><span class="o">**</span><span class="mi">2</span><span class="p">)</span>
|
||||
|
||||
<span class="k">for</span> <span class="n">l</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">nContourLevels</span><span class="p">):</span>
|
||||
<span class="n">temp</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">interp</span><span class="p">(</span><span class="n">confLevels</span><span class="p">[</span><span class="n">l</span><span class="p">],</span> <span class="n">histCumulative</span><span class="p">,</span> <span class="n">nBinsFlat</span><span class="p">)</span>
|
||||
<span class="n">chainLevels</span><span class="p">[</span><span class="n">nContourLevels</span> <span class="o">-</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">l</span><span class="p">]</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">interp</span><span class="p">(</span><span class="n">temp</span><span class="p">,</span> <span class="n">nBinsFlat</span><span class="p">,</span> <span class="n">histOrdered</span><span class="p">)</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">chainLevels</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="create_colormap">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">create_colormap</span><span class="p">(</span><span class="n">name</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Create a custom colormap based on the specified name.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> name : str</span>
|
||||
<span class="sd"> The name of the colormap to create.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ListedColormap</span>
|
||||
<span class="sd"> The requested custom colormap.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
<span class="sd"> ValueError</span>
|
||||
<span class="sd"> If the specified colormap name is not recognised.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">from</span> <span class="nn">matplotlib</span> <span class="kn">import</span> <span class="n">cm</span><span class="p">,</span> <span class="n">colors</span><span class="p">,</span> <span class="n">colormaps</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">"GalaxyMap"</span><span class="p">:</span>
|
||||
<span class="c1"># Colormap for slices through galaxy density fields</span>
|
||||
<span class="n">Ndots</span> <span class="o">=</span> <span class="mi">2</span><span class="o">**</span><span class="mi">13</span>
|
||||
<span class="n">stretch_top</span> <span class="o">=</span> <span class="mf">0.5</span>
|
||||
<span class="n">truncate_bottom</span> <span class="o">=</span> <span class="mf">0.0</span>
|
||||
<span class="n">stretch_bottom</span> <span class="o">=</span> <span class="mf">1.0</span>
|
||||
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"RdPu"</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span>
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">colors</span><span class="o">.</span><span class="n">LinearSegmentedColormap</span><span class="o">.</span><span class="n">from_list</span><span class="p">(</span><span class="s2">""</span><span class="p">,</span> <span class="p">[</span><span class="s2">"white"</span><span class="p">,</span> <span class="n">top</span><span class="p">(</span><span class="mf">0.5</span><span class="p">),</span> <span class="n">top</span><span class="p">(</span><span class="mf">1.0</span><span class="p">)])</span>
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"Greens_r"</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span>
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">colors</span><span class="o">.</span><span class="n">LinearSegmentedColormap</span><span class="o">.</span><span class="n">from_list</span><span class="p">(</span><span class="s2">""</span><span class="p">,</span> <span class="p">[</span><span class="n">bottom</span><span class="p">(</span><span class="mi">0</span><span class="p">),</span> <span class="n">bottom</span><span class="p">(</span><span class="mf">0.5</span><span class="p">),</span> <span class="s2">"white"</span><span class="p">])</span>
|
||||
|
||||
<span class="n">interp_top</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_top</span>
|
||||
<span class="n">interp_bottom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">truncate_bottom</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_bottom</span>
|
||||
<span class="n">cols_galaxy</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vstack</span><span class="p">((</span><span class="n">bottom</span><span class="p">(</span><span class="n">interp_bottom</span><span class="p">),</span> <span class="n">top</span><span class="p">(</span><span class="n">interp_top</span><span class="p">)))</span>
|
||||
<span class="k">return</span> <span class="n">colors</span><span class="o">.</span><span class="n">ListedColormap</span><span class="p">(</span><span class="n">cols_galaxy</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s2">"GalaxyMap"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">elif</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">"GradientMap"</span><span class="p">:</span>
|
||||
<span class="c1"># Colormap for gradient matrices</span>
|
||||
<span class="n">Ndots</span> <span class="o">=</span> <span class="mi">2</span><span class="o">**</span><span class="mi">13</span>
|
||||
<span class="n">stretch_bottom</span> <span class="o">=</span> <span class="mf">6.0</span>
|
||||
<span class="n">stretch_top</span> <span class="o">=</span> <span class="mi">1</span> <span class="o">/</span> <span class="mf">2.5</span>
|
||||
<span class="n">truncate_bottom</span> <span class="o">=</span> <span class="mf">0.35</span>
|
||||
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"BuGn_r"</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span>
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"RdPu"</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span>
|
||||
|
||||
<span class="n">interp_top</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_top</span>
|
||||
<span class="n">interp_bottom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="n">truncate_bottom</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_bottom</span>
|
||||
<span class="n">newcolors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vstack</span><span class="p">((</span><span class="n">bottom</span><span class="p">(</span><span class="n">interp_bottom</span><span class="p">),</span> <span class="n">top</span><span class="p">(</span><span class="n">interp_top</span><span class="p">)))</span>
|
||||
<span class="k">return</span> <span class="n">colors</span><span class="o">.</span><span class="n">ListedColormap</span><span class="p">(</span><span class="n">newcolors</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s2">"GradientMap"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">elif</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">"CovarianceMap"</span><span class="p">:</span>
|
||||
<span class="c1"># Colormap for the diagonal blocks of covariance matrices</span>
|
||||
<span class="n">Ndots</span> <span class="o">=</span> <span class="mi">2</span><span class="o">**</span><span class="mi">15</span>
|
||||
<span class="n">stretch_top_1</span> <span class="o">=</span> <span class="mf">0.3</span>
|
||||
<span class="n">stretch_top_2</span> <span class="o">=</span> <span class="mf">1.0</span>
|
||||
<span class="n">stretch_bottom</span> <span class="o">=</span> <span class="mf">0.2</span>
|
||||
<span class="n">middle</span> <span class="o">=</span> <span class="mf">0.4</span> <span class="c1"># Middle of the positive scale, between 0 and 1</span>
|
||||
<span class="n">cmap_name</span> <span class="o">=</span> <span class="s2">"BrBG"</span>
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">colormaps</span><span class="p">[</span><span class="n">cmap_name</span><span class="p">]</span>
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">colormaps</span><span class="p">[</span><span class="n">cmap_name</span><span class="p">]</span>
|
||||
|
||||
<span class="n">interp_top</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">middle</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_top_1</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">middle</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_top_2</span> <span class="o">+</span> <span class="mf">0.5</span> <span class="o">+</span> <span class="n">middle</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">interp_bottom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mf">1.0</span><span class="p">,</span> <span class="n">Ndots</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_bottom</span> <span class="o">-</span> <span class="mf">0.5</span>
|
||||
<span class="n">newcolors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vstack</span><span class="p">((</span><span class="n">bottom</span><span class="p">(</span><span class="n">interp_bottom</span><span class="p">),</span> <span class="n">top</span><span class="p">(</span><span class="n">interp_top</span><span class="p">)))</span>
|
||||
<span class="k">return</span> <span class="n">colors</span><span class="o">.</span><span class="n">ListedColormap</span><span class="p">(</span><span class="n">newcolors</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s2">"CovarianceMap"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">elif</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">"FullCovarianceMap"</span><span class="p">:</span>
|
||||
<span class="c1"># Colormap for full covariance matrices</span>
|
||||
<span class="n">Ndots</span> <span class="o">=</span> <span class="mi">2</span><span class="o">**</span><span class="mi">15</span>
|
||||
<span class="n">stretch_top_1</span> <span class="o">=</span> <span class="mf">0.3</span>
|
||||
<span class="n">stretch_top_2</span> <span class="o">=</span> <span class="mf">1.0</span>
|
||||
<span class="n">middle_top</span> <span class="o">=</span> <span class="mf">0.4</span> <span class="c1"># Middle of the positive scale, between 0 and 1</span>
|
||||
<span class="n">stretch_bottom_1</span> <span class="o">=</span> <span class="mf">1.0</span>
|
||||
<span class="n">stretch_bottom_2</span> <span class="o">=</span> <span class="mf">5.0</span>
|
||||
<span class="n">middle_bottom</span> <span class="o">=</span> <span class="mf">0.7</span> <span class="c1"># Middle of the negative scale, between 0 and 1</span>
|
||||
<span class="n">colname</span> <span class="o">=</span> <span class="s2">"PRGn_r"</span> <span class="c1"># Options: "PRGn", "PRGn_r", "BrBG", "PuOr"</span>
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">colormaps</span><span class="p">[</span><span class="n">colname</span><span class="p">]</span>
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">colormaps</span><span class="p">[</span><span class="n">colname</span><span class="p">]</span>
|
||||
|
||||
<span class="n">interp_top</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">middle_top</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_top_1</span> <span class="o">+</span> <span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">middle_top</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_top_2</span>
|
||||
<span class="o">+</span> <span class="mf">0.5</span>
|
||||
<span class="o">+</span> <span class="n">middle_top</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">interp_bottom</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">(</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">middle_bottom</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_bottom_1</span> <span class="o">-</span> <span class="mf">0.5</span><span class="p">,</span>
|
||||
<span class="p">(</span><span class="mi">1</span> <span class="o">-</span> <span class="n">middle_bottom</span><span class="p">)</span> <span class="o">*</span> <span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="n">Ndots</span> <span class="o">//</span> <span class="mi">2</span><span class="p">)</span> <span class="o">**</span> <span class="n">stretch_bottom_2</span>
|
||||
<span class="o">-</span> <span class="mf">0.5</span>
|
||||
<span class="o">+</span> <span class="n">middle_bottom</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">newcolors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vstack</span><span class="p">((</span><span class="n">bottom</span><span class="p">(</span><span class="n">interp_bottom</span><span class="p">),</span> <span class="n">top</span><span class="p">(</span><span class="n">interp_top</span><span class="p">)))</span>
|
||||
<span class="k">return</span> <span class="n">colors</span><span class="o">.</span><span class="n">ListedColormap</span><span class="p">(</span><span class="n">newcolors</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s2">"FullCovarianceMap"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">elif</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">"Blues_Reds"</span><span class="p">:</span>
|
||||
<span class="c1"># Additional colormap combining blues and reds</span>
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"Reds_r"</span><span class="p">,</span> <span class="mi">128</span><span class="p">)</span>
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"Blues"</span><span class="p">,</span> <span class="mi">128</span><span class="p">)</span>
|
||||
<span class="n">newcolors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vstack</span><span class="p">((</span><span class="n">top</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.7</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">128</span><span class="p">)),</span> <span class="n">bottom</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">128</span><span class="p">))))</span>
|
||||
<span class="k">return</span> <span class="n">colors</span><span class="o">.</span><span class="n">ListedColormap</span><span class="p">(</span><span class="n">newcolors</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s2">"Blues_Reds"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">elif</span> <span class="n">name</span> <span class="o">==</span> <span class="s2">"Purples_Oranges"</span><span class="p">:</span>
|
||||
<span class="c1"># Additional colormap combining purples and oranges</span>
|
||||
<span class="n">top</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"Oranges_r"</span><span class="p">,</span> <span class="mi">128</span><span class="p">)</span>
|
||||
<span class="n">bottom</span> <span class="o">=</span> <span class="n">cm</span><span class="o">.</span><span class="n">get_cmap</span><span class="p">(</span><span class="s2">"Purples"</span><span class="p">,</span> <span class="mi">128</span><span class="p">)</span>
|
||||
<span class="n">newcolors</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">vstack</span><span class="p">((</span><span class="n">top</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mf">0.7</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">128</span><span class="p">)),</span> <span class="n">bottom</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">linspace</span><span class="p">(</span><span class="mi">0</span><span class="p">,</span> <span class="mi">1</span><span class="p">,</span> <span class="mi">128</span><span class="p">))))</span>
|
||||
<span class="k">return</span> <span class="n">colors</span><span class="o">.</span><span class="n">ListedColormap</span><span class="p">(</span><span class="n">newcolors</span><span class="p">,</span> <span class="n">name</span><span class="o">=</span><span class="s2">"Purples_Oranges"</span><span class="p">)</span>
|
||||
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="sa">f</span><span class="s2">"Colormap '</span><span class="si">{</span><span class="n">name</span><span class="si">}</span><span class="s2">' is not defined."</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="create_all_colormaps">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">create_all_colormaps</span><span class="p">():</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Create all custom colormaps.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> colormaps : dict</span>
|
||||
<span class="sd"> Dictionary containing all custom colormaps.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="n">colormaps_dict</span> <span class="o">=</span> <span class="p">{}</span>
|
||||
<span class="n">colormap_names</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="s2">"GalaxyMap"</span><span class="p">,</span>
|
||||
<span class="s2">"GradientMap"</span><span class="p">,</span>
|
||||
<span class="s2">"CovarianceMap"</span><span class="p">,</span>
|
||||
<span class="s2">"FullCovarianceMap"</span><span class="p">,</span>
|
||||
<span class="s2">"Blues_Reds"</span><span class="p">,</span>
|
||||
<span class="s2">"Purples_Oranges"</span><span class="p">,</span>
|
||||
<span class="p">]</span>
|
||||
<span class="k">for</span> <span class="n">name</span> <span class="ow">in</span> <span class="n">colormap_names</span><span class="p">:</span>
|
||||
<span class="n">colormaps_dict</span><span class="p">[</span><span class="n">name</span><span class="p">]</span> <span class="o">=</span> <span class="n">create_colormap</span><span class="p">(</span><span class="n">name</span><span class="p">)</span>
|
||||
<span class="k">return</span> <span class="n">colormaps_dict</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
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<p>© Copyright 2025, Tristan Hoellinger.</p>
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2741
docs/_modules/selfisys/utils/plot_utils.html
Normal file
2741
docs/_modules/selfisys/utils/plot_utils.html
Normal file
File diff suppressed because it is too large
Load diff
389
docs/_modules/selfisys/utils/timestepping.html
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389
docs/_modules/selfisys/utils/timestepping.html
Normal file
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<!DOCTYPE html>
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<html class="writer-html5" lang="en" data-content_root="../../../">
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
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<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
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<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
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<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
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||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
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||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
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||||
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<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.timestepping</li>
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<li class="wy-breadcrumbs-aside">
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<div itemprop="articleBody">
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|
||||
<h1>Source code for selfisys.utils.timestepping</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""Tools for time-stepping.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="merge_nTS">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">merge_nTS</span><span class="p">(</span><span class="n">ts_path_list</span><span class="p">,</span> <span class="n">merged_path</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Merge multiple time-stepping objects into a single file.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> ts_path_list : list of str</span>
|
||||
<span class="sd"> Paths to the individual time-stepping files to be merged.</span>
|
||||
<span class="sd"> merged_path : str</span>
|
||||
<span class="sd"> Path to save the merged time-stepping file.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> None</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">h5py</span> <span class="kn">import</span> <span class="n">File</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">concatenate</span>
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.timestepping</span> <span class="kn">import</span> <span class="n">read_timestepping</span>
|
||||
|
||||
<span class="c1"># Read individual time-stepping objects</span>
|
||||
<span class="n">ts</span> <span class="o">=</span> <span class="p">[</span><span class="n">read_timestepping</span><span class="p">(</span><span class="n">ts_path</span><span class="p">)</span> <span class="k">for</span> <span class="n">ts_path</span> <span class="ow">in</span> <span class="n">ts_path_list</span><span class="p">]</span>
|
||||
|
||||
<span class="k">with</span> <span class="n">File</span><span class="p">(</span><span class="n">merged_path</span><span class="p">,</span> <span class="s2">"w"</span><span class="p">)</span> <span class="k">as</span> <span class="n">hf</span><span class="p">:</span>
|
||||
<span class="c1"># Write scalar attributes</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s2">"/info/scalars/nsteps"</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sum</span><span class="p">(</span><span class="n">tsi</span><span class="o">.</span><span class="n">nsteps</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">)</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s2">"/info/scalars/nkicks"</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sum</span><span class="p">(</span><span class="n">tsi</span><span class="o">.</span><span class="n">nkicks</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">)</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s2">"/info/scalars/ndrifts"</span><span class="p">]</span> <span class="o">=</span> <span class="nb">sum</span><span class="p">(</span><span class="n">tsi</span><span class="o">.</span><span class="n">ndrifts</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">)</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s2">"/info/scalars/ai"</span><span class="p">]</span> <span class="o">=</span> <span class="n">ts</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">ai</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">attrs</span><span class="p">[</span><span class="s2">"/info/scalars/af"</span><span class="p">]</span> <span class="o">=</span> <span class="n">ts</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">af</span>
|
||||
|
||||
<span class="c1"># Merge and write datasets</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/forces"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">forces</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/snapshots"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">snapshots</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aKickBeg"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aKickBeg</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aKickEnd"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aKickEnd</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aDriftBeg"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aDriftBeg</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aDriftEnd"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aDriftEnd</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aiKick"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aiKick</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/afKick"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">afKick</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
|
||||
<span class="c1"># Handle `aDrift` merging with overlap adjustments</span>
|
||||
<span class="n">aDrift_data</span> <span class="o">=</span> <span class="n">concatenate</span><span class="p">(</span>
|
||||
<span class="p">[</span>
|
||||
<span class="p">[</span><span class="n">ts</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">aDrift</span><span class="p">[</span><span class="mi">0</span><span class="p">]],</span> <span class="c1"># Initial drift</span>
|
||||
<span class="n">concatenate</span><span class="p">(</span>
|
||||
<span class="p">[</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aDrift</span><span class="p">[</span><span class="mi">1</span><span class="p">:],</span> <span class="p">[</span><span class="n">tsi</span><span class="o">.</span><span class="n">aDrift</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]]])</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">]]</span>
|
||||
<span class="p">),</span> <span class="c1"># Intermediate drifts</span>
|
||||
<span class="n">ts</span><span class="p">[</span><span class="o">-</span><span class="mi">1</span><span class="p">]</span><span class="o">.</span><span class="n">aDrift</span><span class="p">[</span><span class="mi">1</span><span class="p">:],</span> <span class="c1"># Final drift</span>
|
||||
<span class="p">]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aDrift"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">aDrift_data</span><span class="p">)</span>
|
||||
|
||||
<span class="c1"># Handle `aSnapshotSave` merging</span>
|
||||
<span class="n">aSnapshotSave_data</span> <span class="o">=</span> <span class="n">concatenate</span><span class="p">(</span>
|
||||
<span class="p">[</span><span class="n">ts</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">aSnapshotSave</span><span class="p">]</span> <span class="o">+</span> <span class="p">[</span><span class="n">tsi</span><span class="o">.</span><span class="n">aSnapshotSave</span><span class="p">[</span><span class="mi">1</span><span class="p">:]</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">[</span><span class="mi">1</span><span class="p">:]]</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aSnapshotSave"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">aSnapshotSave_data</span><span class="p">)</span>
|
||||
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aiDrift"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aiDrift</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/afDrift"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">afDrift</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span>
|
||||
<span class="n">hf</span><span class="o">.</span><span class="n">create_dataset</span><span class="p">(</span><span class="s2">"/scalars/aKick"</span><span class="p">,</span> <span class="n">data</span><span class="o">=</span><span class="n">concatenate</span><span class="p">([</span><span class="n">tsi</span><span class="o">.</span><span class="n">aKick</span> <span class="k">for</span> <span class="n">tsi</span> <span class="ow">in</span> <span class="n">ts</span><span class="p">]))</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
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|
||||
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<hr/>
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644
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<!DOCTYPE html>
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
||||
|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../../index.html">SelfiSys</a>
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</nav>
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<div class="wy-nav-content">
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<div class="rst-content style-external-links">
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<div role="navigation" aria-label="Page navigation">
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<ul class="wy-breadcrumbs">
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<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.tools</li>
|
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<li class="wy-breadcrumbs-aside">
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</li>
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<hr/>
|
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</div>
|
||||
<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.tools</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Utilities for the SelfiSys package, including tools for cosmological</span>
|
||||
<span class="sd">parameter handling, power spectrum computations, and prior sampling.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="none_or_bool_or_str">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">none_or_bool_or_str</span><span class="p">(</span><span class="n">value</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Convert string representations of None, True, and False to their</span>
|
||||
<span class="sd"> respective Python objects; otherwise, return the input value.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"None"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">None</span>
|
||||
<span class="k">if</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"True"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">True</span>
|
||||
<span class="k">if</span> <span class="n">value</span> <span class="o">==</span> <span class="s2">"False"</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="kc">False</span>
|
||||
<span class="k">return</span> <span class="n">value</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="get_k_max">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">get_k_max</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">size</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute the maximum wavenumber for a given box size.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> L : float</span>
|
||||
<span class="sd"> Size of the box in Mpc/h.</span>
|
||||
<span class="sd"> size : int</span>
|
||||
<span class="sd"> Number of grid cells along each dimension.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> float</span>
|
||||
<span class="sd"> Maximum wavenumber in h/Mpc.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">pi</span><span class="p">,</span> <span class="n">sqrt</span>
|
||||
|
||||
<span class="k">return</span> <span class="nb">int</span><span class="p">(</span><span class="mf">1e3</span> <span class="o">*</span> <span class="n">sqrt</span><span class="p">(</span><span class="mi">3</span><span class="p">)</span> <span class="o">*</span> <span class="n">pi</span> <span class="o">*</span> <span class="n">size</span> <span class="o">/</span> <span class="n">L</span> <span class="o">+</span> <span class="mi">1</span><span class="p">)</span> <span class="o">*</span> <span class="mf">1e-3</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="custom_stat">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">custom_stat</span><span class="p">(</span><span class="n">vec</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute a custom statistic for use with</span>
|
||||
<span class="sd"> `scipy.stats.binned_statistic`.</span>
|
||||
|
||||
<span class="sd"> Assumes the data power spectrum is inverse-Gamma distributed (as in</span>
|
||||
<span class="sd"> [jasche2010bayesian] and [leclercq2019primordial]). Returns "NaN"</span>
|
||||
<span class="sd"> for vectors with insufficient elements, as expected by</span>
|
||||
<span class="sd"> `scipy.stats.binned_statistic`.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> vec : array-like</span>
|
||||
<span class="sd"> Input vector for computation.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> float or str</span>
|
||||
<span class="sd"> Custom statistic or NaN if input is invalid.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">if</span> <span class="nb">len</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span> <span class="o"><=</span> <span class="mi">2</span> <span class="ow">or</span> <span class="nb">sum</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span>
|
||||
<span class="k">return</span> <span class="s2">"NaN"</span>
|
||||
<span class="k">return</span> <span class="nb">sum</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span> <span class="o">/</span> <span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">vec</span><span class="p">)</span> <span class="o">-</span> <span class="mi">2</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="cosmo_vector_to_Simbelmyne_dict">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">cosmo_vector_to_Simbelmyne_dict</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="mf">1.4</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Convert a vector of cosmological parameters into a dictionary</span>
|
||||
<span class="sd"> compatible with `pysbmy`.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> x : array-like</span>
|
||||
<span class="sd"> Vector of cosmological parameters.</span>
|
||||
<span class="sd"> kmax : float, optional</span>
|
||||
<span class="sd"> Maximum wavenumber for the power spectrum computation.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> dict</span>
|
||||
<span class="sd"> Dictionary of cosmological parameters compatible with `pysbmy`.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.global_parameters</span> <span class="kn">import</span> <span class="n">WHICH_SPECTRUM</span>
|
||||
|
||||
<span class="k">return</span> <span class="p">{</span>
|
||||
<span class="s2">"h"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span>
|
||||
<span class="s2">"Omega_r"</span><span class="p">:</span> <span class="mf">0.0</span><span class="p">,</span>
|
||||
<span class="s2">"Omega_q"</span><span class="p">:</span> <span class="mf">1.0</span> <span class="o">-</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span>
|
||||
<span class="s2">"Omega_b"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span>
|
||||
<span class="s2">"Omega_m"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span>
|
||||
<span class="s2">"m_ncdm"</span><span class="p">:</span> <span class="mf">0.0</span><span class="p">,</span>
|
||||
<span class="s2">"Omega_k"</span><span class="p">:</span> <span class="mf">0.0</span><span class="p">,</span>
|
||||
<span class="s2">"tau_reio"</span><span class="p">:</span> <span class="mf">0.066</span><span class="p">,</span>
|
||||
<span class="s2">"n_s"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
|
||||
<span class="s2">"sigma8"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">4</span><span class="p">],</span>
|
||||
<span class="s2">"w0_fld"</span><span class="p">:</span> <span class="o">-</span><span class="mf">1.0</span><span class="p">,</span>
|
||||
<span class="s2">"wa_fld"</span><span class="p">:</span> <span class="mf">0.0</span><span class="p">,</span>
|
||||
<span class="s2">"k_max"</span><span class="p">:</span> <span class="n">kmax</span><span class="p">,</span>
|
||||
<span class="s2">"WhichSpectrum"</span><span class="p">:</span> <span class="n">WHICH_SPECTRUM</span><span class="p">,</span>
|
||||
<span class="p">}</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="cosmo_vector_to_class_dict">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">cosmo_vector_to_class_dict</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">lmax</span><span class="o">=</span><span class="mi">2500</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="mf">1.4</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Convert a vector of cosmological parameters into a dictionary</span>
|
||||
<span class="sd"> compatible with `classy`.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> x : array-like</span>
|
||||
<span class="sd"> Vector of cosmological parameters.</span>
|
||||
<span class="sd"> lmax : int, optional</span>
|
||||
<span class="sd"> Maximum multipole for the power spectrum computation.</span>
|
||||
<span class="sd"> kmax : float, optional</span>
|
||||
<span class="sd"> Maximum wavenumber for the power spectrum computation.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> dict</span>
|
||||
<span class="sd"> Dictionary of cosmological parameters compatible with `classy`.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">return</span> <span class="p">{</span>
|
||||
<span class="s2">"output"</span><span class="p">:</span> <span class="s2">"lCl mPk"</span><span class="p">,</span>
|
||||
<span class="s2">"l_max_scalars"</span><span class="p">:</span> <span class="n">lmax</span><span class="p">,</span>
|
||||
<span class="s2">"lensing"</span><span class="p">:</span> <span class="s2">"no"</span><span class="p">,</span>
|
||||
<span class="s2">"N_ncdm"</span><span class="p">:</span> <span class="mi">0</span><span class="p">,</span>
|
||||
<span class="s2">"P_k_max_h/Mpc"</span><span class="p">:</span> <span class="n">kmax</span><span class="p">,</span>
|
||||
<span class="s2">"h"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">0</span><span class="p">],</span>
|
||||
<span class="s2">"Omega_b"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">1</span><span class="p">],</span>
|
||||
<span class="s2">"Omega_m"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">2</span><span class="p">],</span>
|
||||
<span class="s2">"n_s"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">3</span><span class="p">],</span>
|
||||
<span class="s2">"sigma8"</span><span class="p">:</span> <span class="n">x</span><span class="p">[</span><span class="mi">4</span><span class="p">],</span>
|
||||
<span class="p">}</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="params_ids_to_Simbelmyne_dict">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">params_ids_to_Simbelmyne_dict</span><span class="p">(</span><span class="n">params_vals</span><span class="p">,</span> <span class="n">params_ids</span><span class="p">,</span> <span class="n">fixed</span><span class="p">,</span> <span class="n">kmax</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Convert a list of cosmological parameters into a dictionary</span>
|
||||
<span class="sd"> compatible with `pysbmy`.</span>
|
||||
|
||||
<span class="sd"> Fixed parameters remain unchanged unless overridden by</span>
|
||||
<span class="sd"> `params_vals`.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> params_vals : array-like</span>
|
||||
<span class="sd"> Values of the parameters to be modified.</span>
|
||||
<span class="sd"> params_ids : array-like</span>
|
||||
<span class="sd"> Indices of the parameters to be modified.</span>
|
||||
<span class="sd"> fixed : array-like</span>
|
||||
<span class="sd"> Base values of the parameters.</span>
|
||||
<span class="sd"> kmax : float</span>
|
||||
<span class="sd"> Maximum wavenumber for the power spectrum computation.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> dict</span>
|
||||
<span class="sd"> Dictionary of cosmological parameters compatible with `pysbmy`.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">copy</span>
|
||||
|
||||
<span class="n">x</span> <span class="o">=</span> <span class="n">copy</span><span class="p">(</span><span class="n">fixed</span><span class="p">)</span>
|
||||
<span class="n">x</span><span class="p">[</span><span class="n">params_ids</span><span class="p">]</span> <span class="o">=</span> <span class="n">params_vals</span>
|
||||
<span class="k">return</span> <span class="n">cosmo_vector_to_Simbelmyne_dict</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="n">kmax</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="get_summary">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">get_summary</span><span class="p">(</span><span class="n">params_vals</span><span class="p">,</span> <span class="n">params_ids</span><span class="p">,</span> <span class="n">Omegas_fixed</span><span class="p">,</span> <span class="n">bins</span><span class="p">,</span> <span class="n">normalisation</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="mf">1.4</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute the normalised power spectrum summary for a given parameter</span>
|
||||
<span class="sd"> set.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> params_vals : array-like</span>
|
||||
<span class="sd"> Parameter values to update.</span>
|
||||
<span class="sd"> params_ids : array-like</span>
|
||||
<span class="sd"> Indices of the parameters to update.</span>
|
||||
<span class="sd"> Omegas_fixed : array-like</span>
|
||||
<span class="sd"> Fixed base values of parameters.</span>
|
||||
<span class="sd"> bins : array-like</span>
|
||||
<span class="sd"> Power spectrum bins.</span>
|
||||
<span class="sd"> normalisation : float, optional</span>
|
||||
<span class="sd"> Normalisation factor for the summary.</span>
|
||||
<span class="sd"> kmax : float, optional</span>
|
||||
<span class="sd"> Maximum wavenumber for power spectrum computation.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> array</span>
|
||||
<span class="sd"> Normalised power spectrum summary.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.power</span> <span class="kn">import</span> <span class="n">get_Pk</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">array</span>
|
||||
|
||||
<span class="n">phi</span> <span class="o">=</span> <span class="n">get_Pk</span><span class="p">(</span><span class="n">bins</span><span class="p">,</span> <span class="n">params_ids_to_Simbelmyne_dict</span><span class="p">(</span><span class="n">params_vals</span><span class="p">,</span> <span class="n">params_ids</span><span class="p">,</span> <span class="n">Omegas_fixed</span><span class="p">,</span> <span class="n">kmax</span><span class="p">))</span>
|
||||
|
||||
<span class="k">return</span> <span class="n">array</span><span class="p">(</span><span class="n">phi</span><span class="p">)</span> <span class="o">/</span> <span class="n">normalisation</span> <span class="k">if</span> <span class="n">normalisation</span> <span class="k">else</span> <span class="n">array</span><span class="p">(</span><span class="n">phi</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="summary_to_score">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">summary_to_score</span><span class="p">(</span><span class="n">params_ids</span><span class="p">,</span> <span class="n">omega0</span><span class="p">,</span> <span class="n">F0</span><span class="p">,</span> <span class="n">F0_inv</span><span class="p">,</span> <span class="n">f0</span><span class="p">,</span> <span class="n">dw_f0</span><span class="p">,</span> <span class="n">C0_inv</span><span class="p">,</span> <span class="n">phi</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute the Fisher score.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> params_ids : array-like</span>
|
||||
<span class="sd"> Indices of the parameters.</span>
|
||||
<span class="sd"> omega0 : array-like</span>
|
||||
<span class="sd"> Cosmological parameters at the expansion point.</span>
|
||||
<span class="sd"> F0 : array-like</span>
|
||||
<span class="sd"> Fisher information matrix.</span>
|
||||
<span class="sd"> F0_inv : array-like</span>
|
||||
<span class="sd"> Inverse Fisher information matrix.</span>
|
||||
<span class="sd"> f0 : array-like</span>
|
||||
<span class="sd"> Mean model at the expansion point.</span>
|
||||
<span class="sd"> dw_f0 : array-like</span>
|
||||
<span class="sd"> Derivative of the mean model.</span>
|
||||
<span class="sd"> C0_inv : array-like</span>
|
||||
<span class="sd"> Inverse covariance matrix.</span>
|
||||
<span class="sd"> phi : array-like</span>
|
||||
<span class="sd"> Observed summary.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> array</span>
|
||||
<span class="sd"> Fisher score.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="k">return</span> <span class="n">omega0</span><span class="p">[</span><span class="n">params_ids</span><span class="p">]</span> <span class="o">+</span> <span class="n">F0_inv</span> <span class="o">@</span> <span class="n">dw_f0</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">C0_inv</span> <span class="o">@</span> <span class="p">(</span><span class="n">phi</span> <span class="o">-</span> <span class="n">f0</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="fisher_rao">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">fisher_rao</span><span class="p">(</span><span class="n">Com</span><span class="p">,</span> <span class="n">Com_obs</span><span class="p">,</span> <span class="n">F0</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Compute the Fisher-Rao distance between two summaries.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> Com : array-like</span>
|
||||
<span class="sd"> Computed summary.</span>
|
||||
<span class="sd"> Com_obs : array-like</span>
|
||||
<span class="sd"> Observed summary.</span>
|
||||
<span class="sd"> F0 : array-like</span>
|
||||
<span class="sd"> Fisher information matrix.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> float</span>
|
||||
<span class="sd"> Fisher-Rao distance.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">sqrt</span>
|
||||
|
||||
<span class="n">diff</span> <span class="o">=</span> <span class="n">Com</span> <span class="o">-</span> <span class="n">Com_obs</span>
|
||||
<span class="k">return</span> <span class="n">sqrt</span><span class="p">(</span><span class="n">diff</span><span class="o">.</span><span class="n">T</span> <span class="o">@</span> <span class="n">F0</span> <span class="o">@</span> <span class="n">diff</span><span class="p">)</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="sample_omega_from_prior">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">sample_omega_from_prior</span><span class="p">(</span><span class="n">nsample</span><span class="p">,</span> <span class="n">omega_mean</span><span class="p">,</span> <span class="n">omega_cov</span><span class="p">,</span> <span class="n">params_ids</span><span class="p">,</span> <span class="n">seed</span><span class="o">=</span><span class="kc">None</span><span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Sample cosmological parameters from a prior distribution.</span>
|
||||
|
||||
<span class="sd"> Ensures physical validity by clipping values to [eps, 1-eps].</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> nsample : int</span>
|
||||
<span class="sd"> Number of samples to draw.</span>
|
||||
<span class="sd"> omega_mean : array-like</span>
|
||||
<span class="sd"> Prior mean vector.</span>
|
||||
<span class="sd"> omega_cov : array-like</span>
|
||||
<span class="sd"> Prior covariance matrix.</span>
|
||||
<span class="sd"> params_ids : array-like</span>
|
||||
<span class="sd"> Indices of the parameters to sample.</span>
|
||||
<span class="sd"> seed : int, optional</span>
|
||||
<span class="sd"> Seed for the random number generator.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> array</span>
|
||||
<span class="sd"> Sampled cosmological parameters.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">array</span><span class="p">,</span> <span class="n">ix_</span><span class="p">,</span> <span class="n">clip</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy.random</span> <span class="kn">import</span> <span class="n">default_rng</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">seed</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="k">raise</span> <span class="ne">ValueError</span><span class="p">(</span><span class="s2">"A seed value is mandatory."</span><span class="p">)</span>
|
||||
|
||||
<span class="n">rng</span> <span class="o">=</span> <span class="n">default_rng</span><span class="p">(</span><span class="n">seed</span><span class="p">)</span>
|
||||
<span class="n">OO_unbounded</span> <span class="o">=</span> <span class="n">rng</span><span class="o">.</span><span class="n">multivariate_normal</span><span class="p">(</span>
|
||||
<span class="n">array</span><span class="p">(</span><span class="n">omega_mean</span><span class="p">)[</span><span class="n">params_ids</span><span class="p">],</span>
|
||||
<span class="n">array</span><span class="p">(</span><span class="n">omega_cov</span><span class="p">)[</span><span class="n">ix_</span><span class="p">(</span><span class="n">params_ids</span><span class="p">,</span> <span class="n">params_ids</span><span class="p">)],</span>
|
||||
<span class="n">nsample</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">eps</span> <span class="o">=</span> <span class="mf">1e-5</span>
|
||||
<span class="k">return</span> <span class="n">clip</span><span class="p">(</span><span class="n">OO_unbounded</span><span class="p">,</span> <span class="n">eps</span><span class="p">,</span> <span class="mi">1</span> <span class="o">-</span> <span class="n">eps</span><span class="p">)</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
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702
docs/_modules/selfisys/utils/workers.html
Normal file
702
docs/_modules/selfisys/utils/workers.html
Normal file
|
|
@ -0,0 +1,702 @@
|
|||
|
||||
|
||||
<!DOCTYPE html>
|
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<html class="writer-html5" lang="en" data-content_root="../../../">
|
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<head>
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<meta charset="utf-8" />
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
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<title>selfisys.utils.workers — SelfiSys /Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/ documentation</title>
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</div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
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<p class="caption" role="heading"><span class="caption-text">API Documentation</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.hiddenbox.html">hiddenbox</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox"><code class="docutils literal notranslate"><span class="pre">HiddenBox</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Npop"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Npop</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Ntimesteps"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Ntimesteps</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.Psingle"><code class="docutils literal notranslate"><span class="pre">HiddenBox.Psingle</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.compute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.compute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.evaluate"><code class="docutils literal notranslate"><span class="pre">HiddenBox.evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_neglect_lightcone"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_neglect_lightcone</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.force_recompute_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.force_recompute_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.gravity_on"><code class="docutils literal notranslate"><span class="pre">HiddenBox.gravity_on</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.load_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.load_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.make_data"><code class="docutils literal notranslate"><span class="pre">HiddenBox.make_data()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.modified_selfi"><code class="docutils literal notranslate"><span class="pre">HiddenBox.modified_selfi</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.prefix_mocks"><code class="docutils literal notranslate"><span class="pre">HiddenBox.prefix_mocks</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.reset_survey"><code class="docutils literal notranslate"><span class="pre">HiddenBox.reset_survey()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.setup_only"><code class="docutils literal notranslate"><span class="pre">HiddenBox.setup_only</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_recompute_pool"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_recompute_pool()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.switch_setup"><code class="docutils literal notranslate"><span class="pre">HiddenBox.switch_setup()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.hiddenbox.html#selfisys.hiddenbox.HiddenBox.update"><code class="docutils literal notranslate"><span class="pre">HiddenBox.update()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.normalise_hb.html">normalise_hb</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.define_normalisation"><code class="docutils literal notranslate"><span class="pre">define_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation"><code class="docutils literal notranslate"><span class="pre">worker_normalisation()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_public"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_public()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.normalise_hb.html#selfisys.normalise_hb.worker_normalisation_wrapper"><code class="docutils literal notranslate"><span class="pre">worker_normalisation_wrapper()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.prior.html">prior</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.logposterior_hyperparameters_parallel"><code class="docutils literal notranslate"><span class="pre">logposterior_hyperparameters_parallel()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.perform_prior_optimisation_and_plot"><code class="docutils literal notranslate"><span class="pre">perform_prior_optimisation_and_plot()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior"><code class="docutils literal notranslate"><span class="pre">planck_prior</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.mean"><code class="docutils literal notranslate"><span class="pre">planck_prior.mean</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.inv_covariance"><code class="docutils literal notranslate"><span class="pre">planck_prior.inv_covariance</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_max"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_max</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.Nbin_min"><code class="docutils literal notranslate"><span class="pre">planck_prior.Nbin_min</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.compute"><code class="docutils literal notranslate"><span class="pre">planck_prior.compute()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.load"><code class="docutils literal notranslate"><span class="pre">planck_prior.load()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.logpdf"><code class="docutils literal notranslate"><span class="pre">planck_prior.logpdf()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.sample"><code class="docutils literal notranslate"><span class="pre">planck_prior.sample()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.planck_prior.save"><code class="docutils literal notranslate"><span class="pre">planck_prior.save()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.prior.html#selfisys.prior.worker_class"><code class="docutils literal notranslate"><span class="pre">worker_class()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selection_functions.html">selection_functions</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection</span></code></a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.init_selection"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.init_selection()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.lognormals_z_to_x"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.lognormals_z_to_x()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.multiple_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.multiple_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.one_lognormal_z"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.one_lognormal_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.selection_functions.html#selfisys.selection_functions.LognormalSelection.r_grid"><code class="docutils literal notranslate"><span class="pre">LognormalSelection.r_grid()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.selfi_interface.html">selfi_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.PrintMessage"><code class="docutils literal notranslate"><span class="pre">PrintMessage()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.indent"><code class="docutils literal notranslate"><span class="pre">indent()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.selfi_interface.html#selfisys.selfi_interface.unindent"><code class="docutils literal notranslate"><span class="pre">unindent()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.sbmy_interface.html">sbmy_interface</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.compute_Phi"><code class="docutils literal notranslate"><span class="pre">compute_Phi()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.generate_white_noise_Field"><code class="docutils literal notranslate"><span class="pre">generate_white_noise_Field()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.get_power_spectrum_from_cosmo"><code class="docutils literal notranslate"><span class="pre">get_power_spectrum_from_cosmo()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.handle_time_stepping"><code class="docutils literal notranslate"><span class="pre">handle_time_stepping()</span></code></a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.sbmy_interface.html#selfisys.sbmy_interface.setup_sbmy_parfiles"><code class="docutils literal notranslate"><span class="pre">setup_sbmy_parfiles()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.grf.html">grf</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.grf.html#selfisys.grf.primordial_grf"><code class="docutils literal notranslate"><span class="pre">primordial_grf()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../selfisys.utils.html">selfisys.utils package</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#submodules">Submodules</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.examples_utils">selfisys.utils.examples_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.examples_utils.clear_large_plot"><code class="docutils literal notranslate"><span class="pre">clear_large_plot()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.logger">selfisys.utils.logger module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger"><code class="docutils literal notranslate"><span class="pre">CustomLogger</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLogger.diagnostic"><code class="docutils literal notranslate"><span class="pre">CustomLogger.diagnostic()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.CustomLoggerHandler.emit"><code class="docutils literal notranslate"><span class="pre">CustomLoggerHandler.emit()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.INDENT"><code class="docutils literal notranslate"><span class="pre">INDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintDiagnostic"><code class="docutils literal notranslate"><span class="pre">PrintDiagnostic()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintError"><code class="docutils literal notranslate"><span class="pre">PrintError()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintInfo"><code class="docutils literal notranslate"><span class="pre">PrintInfo()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintLeftType"><code class="docutils literal notranslate"><span class="pre">PrintLeftType()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.PrintWarning"><code class="docutils literal notranslate"><span class="pre">PrintWarning()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.UNINDENT"><code class="docutils literal notranslate"><span class="pre">UNINDENT()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.logger.getCustomLogger"><code class="docutils literal notranslate"><span class="pre">getCustomLogger()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.low_level">selfisys.utils.low_level module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stderr_redirector"><code class="docutils literal notranslate"><span class="pre">stderr_redirector()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.low_level.stdout_redirector"><code class="docutils literal notranslate"><span class="pre">stdout_redirector()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.parser">selfisys.utils.parser module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.bool_sh"><code class="docutils literal notranslate"><span class="pre">bool_sh()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.check_files_exist"><code class="docutils literal notranslate"><span class="pre">check_files_exist()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.intNone"><code class="docutils literal notranslate"><span class="pre">intNone()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs"><code class="docutils literal notranslate"><span class="pre">joinstrs()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.joinstrs_only"><code class="docutils literal notranslate"><span class="pre">joinstrs_only()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.parser.safe_npload"><code class="docutils literal notranslate"><span class="pre">safe_npload()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.path_utils">selfisys.utils.path_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.file_names_evaluate"><code class="docutils literal notranslate"><span class="pre">file_names_evaluate()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.path_utils.get_file_names"><code class="docutils literal notranslate"><span class="pre">get_file_names()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_examples">selfisys.utils.plot_examples module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_comoving_distance_redshift"><code class="docutils literal notranslate"><span class="pre">plot_comoving_distance_redshift()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_galaxy_field_slice"><code class="docutils literal notranslate"><span class="pre">plot_galaxy_field_slice()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_power_spectrum"><code class="docutils literal notranslate"><span class="pre">plot_power_spectrum()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.plot_selection_functions_def_in_z"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions_def_in_z()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.redshift_distance_conversion"><code class="docutils literal notranslate"><span class="pre">redshift_distance_conversion()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_examples.relative_error_analysis"><code class="docutils literal notranslate"><span class="pre">relative_error_analysis()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_params">selfisys.utils.plot_params module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11</span></code></a><ul>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.get_offset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.get_offset()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_scientific"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_scientific()</span></code></a></li>
|
||||
<li class="toctree-l4"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.ScalarFormatterForceFormat_11.set_useOffset"><code class="docutils literal notranslate"><span class="pre">ScalarFormatterForceFormat_11.set_useOffset()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_all_colormaps"><code class="docutils literal notranslate"><span class="pre">create_all_colormaps()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.create_colormap"><code class="docutils literal notranslate"><span class="pre">create_colormap()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.dynamic_text_scaling"><code class="docutils literal notranslate"><span class="pre">dynamic_text_scaling()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.get_contours"><code class="docutils literal notranslate"><span class="pre">get_contours()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.reset_plotting"><code class="docutils literal notranslate"><span class="pre">reset_plotting()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_params.setup_plotting"><code class="docutils literal notranslate"><span class="pre">setup_plotting()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.plot_utils">selfisys.utils.plot_utils module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_C"><code class="docutils literal notranslate"><span class="pre">plot_C()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_fisher"><code class="docutils literal notranslate"><span class="pre">plot_fisher()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_gradients"><code class="docutils literal notranslate"><span class="pre">plot_gradients()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_histogram"><code class="docutils literal notranslate"><span class="pre">plot_histogram()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks"><code class="docutils literal notranslate"><span class="pre">plot_mocks()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_mocks_compact"><code class="docutils literal notranslate"><span class="pre">plot_mocks_compact()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_observations"><code class="docutils literal notranslate"><span class="pre">plot_observations()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_prior_and_posterior_covariances"><code class="docutils literal notranslate"><span class="pre">plot_prior_and_posterior_covariances()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_reconstruction"><code class="docutils literal notranslate"><span class="pre">plot_reconstruction()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plot_selection_functions"><code class="docutils literal notranslate"><span class="pre">plot_selection_functions()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.plot_utils.plotly_3d"><code class="docutils literal notranslate"><span class="pre">plotly_3d()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.timestepping">selfisys.utils.timestepping module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.timestepping.merge_nTS"><code class="docutils literal notranslate"><span class="pre">merge_nTS()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.tools">selfisys.utils.tools module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.cosmo_vector_to_class_dict"><code class="docutils literal notranslate"><span class="pre">cosmo_vector_to_class_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.custom_stat"><code class="docutils literal notranslate"><span class="pre">custom_stat()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.fisher_rao"><code class="docutils literal notranslate"><span class="pre">fisher_rao()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_k_max"><code class="docutils literal notranslate"><span class="pre">get_k_max()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.get_summary"><code class="docutils literal notranslate"><span class="pre">get_summary()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.none_or_bool_or_str"><code class="docutils literal notranslate"><span class="pre">none_or_bool_or_str()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.params_ids_to_Simbelmyne_dict"><code class="docutils literal notranslate"><span class="pre">params_ids_to_Simbelmyne_dict()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.sample_omega_from_prior"><code class="docutils literal notranslate"><span class="pre">sample_omega_from_prior()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.tools.summary_to_score"><code class="docutils literal notranslate"><span class="pre">summary_to_score()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils.workers">selfisys.utils.workers module</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker"><code class="docutils literal notranslate"><span class="pre">Simbelmyne_worker()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">evaluate_gradient_of_Symbelmyne()</span></code></a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne"><code class="docutils literal notranslate"><span class="pre">worker_gradient_Symbelmyne()</span></code></a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../selfisys.utils.html#module-selfisys.utils">Module contents</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">Contribute</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../CONTRIBUTING.html">Contributing to SelfiSys</a><ul>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#reporting-issues">Reporting Issues</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#submitting-contributions">Submitting Contributions</a></li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#style-guidelines">Style Guidelines</a><ul>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#python-code">Python code</a></li>
|
||||
<li class="toctree-l3"><a class="reference internal" href="../../../CONTRIBUTING.html#jupyter-notebooks">Jupyter Notebooks</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
<li class="toctree-l2"><a class="reference internal" href="../../../CONTRIBUTING.html#questions">Questions?</a></li>
|
||||
</ul>
|
||||
</li>
|
||||
</ul>
|
||||
<p class="caption" role="heading"><span class="caption-text">References</span></p>
|
||||
<ul>
|
||||
<li class="toctree-l1"><a class="reference internal" href="../../../REFERENCES.html">References</a></li>
|
||||
</ul>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
</nav>
|
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|
||||
<section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
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<i data-toggle="wy-nav-top" class="fa fa-bars"></i>
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<a href="../../../index.html">SelfiSys</a>
|
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</nav>
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|
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<div class="wy-nav-content">
|
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<div class="rst-content style-external-links">
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<div role="navigation" aria-label="Page navigation">
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<ul class="wy-breadcrumbs">
|
||||
<li><a href="../../../index.html" class="icon icon-home" aria-label="Home"></a></li>
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<li class="breadcrumb-item"><a href="../../index.html">Module code</a></li>
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<li class="breadcrumb-item active">selfisys.utils.workers</li>
|
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<li class="wy-breadcrumbs-aside">
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||||
</li>
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</ul>
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<hr/>
|
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</div>
|
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<div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
|
||||
<div itemprop="articleBody">
|
||||
|
||||
<h1>Source code for selfisys.utils.workers</h1><div class="highlight"><pre>
|
||||
<span></span><span class="ch">#!/usr/bin/env python3</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
<span class="c1"># Copyright (C) 2024 Tristan Hoellinger</span>
|
||||
<span class="c1"># Distributed under the GNU General Public License v3.0 (GPLv3).</span>
|
||||
<span class="c1"># See the LICENSE file in the root directory for details.</span>
|
||||
<span class="c1"># SPDX-License-Identifier: GPL-3.0-or-later</span>
|
||||
<span class="c1"># ----------------------------------------------------------------------</span>
|
||||
|
||||
<span class="n">__author__</span> <span class="o">=</span> <span class="s2">"Tristan Hoellinger"</span>
|
||||
<span class="n">__version__</span> <span class="o">=</span> <span class="s2">"0.1.0"</span>
|
||||
<span class="n">__date__</span> <span class="o">=</span> <span class="s2">"2024"</span>
|
||||
<span class="n">__license__</span> <span class="o">=</span> <span class="s2">"GPLv3"</span>
|
||||
|
||||
<span class="sd">"""</span>
|
||||
<span class="sd">Routines for parameter inference and gradient evaluation in the SelfiSys</span>
|
||||
<span class="sd">pipeline.</span>
|
||||
<span class="sd">"""</span>
|
||||
|
||||
<span class="kn">import</span> <span class="nn">gc</span>
|
||||
<span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">Any</span><span class="p">,</span> <span class="n">Tuple</span><span class="p">,</span> <span class="n">List</span>
|
||||
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.logger</span> <span class="kn">import</span> <span class="n">getCustomLogger</span>
|
||||
|
||||
<span class="n">logger</span> <span class="o">=</span> <span class="n">getCustomLogger</span><span class="p">(</span><span class="vm">__name__</span><span class="p">)</span>
|
||||
|
||||
|
||||
<div class="viewcode-block" id="Simbelmyne_worker">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.workers.Simbelmyne_worker">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">Simbelmyne_worker</span><span class="p">(</span><span class="n">args</span><span class="p">)</span> <span class="o">-></span> <span class="n">Tuple</span><span class="p">[</span><span class="nb">float</span><span class="p">,</span> <span class="n">Any</span><span class="p">]:</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Worker function used for implicit likelihood inference of</span>
|
||||
<span class="sd"> cosmological parameters.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> args : tuple</span>
|
||||
<span class="sd"> A tuple of arguments to be unpacked for the worker routine:</span>
|
||||
<span class="sd"> (index, param_val, param_id, fsimdir, k_s, Pbins_bnd,</span>
|
||||
<span class="sd"> selection_params, norm_csts, P_ss_obj_path, obs_density,</span>
|
||||
<span class="sd"> lin_bias, noise, survey_mask_path, G_sim_path, G_ss_path, Np0,</span>
|
||||
<span class="sd"> Npm0, seedphase_init, seednoise_init, size, L,</span>
|
||||
<span class="sd"> radial_selection, sim_params, wd, batch_idx, dbg, modeldir,</span>
|
||||
<span class="sd"> local_mask_prefix, TimeStepDistribution, indices_steps_cumul,</span>
|
||||
<span class="sd"> eff_redshifts, poolname_abc, setup_only, prefix_mocks).</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> tuple</span>
|
||||
<span class="sd"> (param_val, Phi) where param_val is the parameter value used,</span>
|
||||
<span class="sd"> and Phi is the resulting summary from evaluating the model.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
<span class="sd"> OSError</span>
|
||||
<span class="sd"> If file I/O (reading or writing mock data) fails.</span>
|
||||
<span class="sd"> RuntimeError</span>
|
||||
<span class="sd"> For unexpected errors in the worker routine.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">os</span>
|
||||
<span class="kn">from</span> <span class="nn">pathlib</span> <span class="kn">import</span> <span class="n">Path</span>
|
||||
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="p">(</span>
|
||||
<span class="n">index</span><span class="p">,</span>
|
||||
<span class="n">param_val</span><span class="p">,</span>
|
||||
<span class="n">param_id</span><span class="p">,</span>
|
||||
<span class="n">fsimdir</span><span class="p">,</span>
|
||||
<span class="n">k_s</span><span class="p">,</span>
|
||||
<span class="n">Pbins_bnd</span><span class="p">,</span>
|
||||
<span class="n">selection_params</span><span class="p">,</span>
|
||||
<span class="n">norm_csts</span><span class="p">,</span>
|
||||
<span class="n">P_ss_obj_path</span><span class="p">,</span>
|
||||
<span class="n">obs_density</span><span class="p">,</span>
|
||||
<span class="n">lin_bias</span><span class="p">,</span>
|
||||
<span class="n">noise</span><span class="p">,</span>
|
||||
<span class="n">survey_mask_path</span><span class="p">,</span>
|
||||
<span class="n">G_sim_path</span><span class="p">,</span>
|
||||
<span class="n">G_ss_path</span><span class="p">,</span>
|
||||
<span class="n">Np0</span><span class="p">,</span>
|
||||
<span class="n">Npm0</span><span class="p">,</span>
|
||||
<span class="n">seedphase_init</span><span class="p">,</span>
|
||||
<span class="n">seednoise_init</span><span class="p">,</span>
|
||||
<span class="n">size</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">radial_selection</span><span class="p">,</span>
|
||||
<span class="n">sim_params</span><span class="p">,</span>
|
||||
<span class="n">wd</span><span class="p">,</span>
|
||||
<span class="n">batch_idx</span><span class="p">,</span>
|
||||
<span class="n">dbg</span><span class="p">,</span>
|
||||
<span class="n">modeldir</span><span class="p">,</span>
|
||||
<span class="n">local_mask_prefix</span><span class="p">,</span>
|
||||
<span class="n">TimeStepDistribution</span><span class="p">,</span>
|
||||
<span class="n">indices_steps_cumul</span><span class="p">,</span>
|
||||
<span class="n">eff_redshifts</span><span class="p">,</span>
|
||||
<span class="n">poolname_abc</span><span class="p">,</span>
|
||||
<span class="n">setup_only</span><span class="p">,</span>
|
||||
<span class="n">prefix_mocks</span><span class="p">,</span>
|
||||
<span class="p">)</span> <span class="o">=</span> <span class="n">args</span>
|
||||
|
||||
<span class="n">spectrum_name</span> <span class="o">=</span> <span class="nb">int</span><span class="p">(</span><span class="nb">str</span><span class="p">(</span><span class="n">seedphase_init</span> <span class="o">+</span> <span class="n">index</span><span class="p">)</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">seednoise_init</span> <span class="o">+</span> <span class="n">index</span><span class="p">))</span>
|
||||
<span class="n">pooldir</span> <span class="o">=</span> <span class="p">(</span>
|
||||
<span class="n">fsimdir</span> <span class="o">+</span> <span class="s2">"/pool/d"</span> <span class="k">if</span> <span class="ow">not</span> <span class="n">poolname_abc</span> <span class="k">else</span> <span class="n">fsimdir</span> <span class="o">+</span> <span class="s2">"/pool/"</span> <span class="o">+</span> <span class="n">poolname_abc</span> <span class="o">+</span> <span class="s2">"/d"</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">simdir_d</span> <span class="o">=</span> <span class="n">pooldir</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">spectrum_name</span><span class="p">)</span> <span class="o">+</span> <span class="s2">"/"</span>
|
||||
<span class="n">Path</span><span class="p">(</span><span class="n">simdir_d</span><span class="p">)</span><span class="o">.</span><span class="n">mkdir</span><span class="p">(</span><span class="n">parents</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span> <span class="n">exist_ok</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">prefix_mocks</span> <span class="ow">is</span> <span class="kc">None</span><span class="p">:</span>
|
||||
<span class="n">fname_mocks</span> <span class="o">=</span> <span class="p">(</span>
|
||||
<span class="n">simdir_d</span> <span class="o">+</span> <span class="s2">"mocks_d"</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">spectrum_name</span><span class="p">)</span> <span class="o">+</span> <span class="s2">"_p"</span> <span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">batch_idx</span> <span class="o">+</span> <span class="n">index</span><span class="p">)</span> <span class="o">+</span> <span class="s2">".h5"</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">fname_mocks</span> <span class="o">=</span> <span class="p">(</span>
|
||||
<span class="n">simdir_d</span>
|
||||
<span class="o">+</span> <span class="n">prefix_mocks</span>
|
||||
<span class="o">+</span> <span class="s2">"_mocks_d"</span>
|
||||
<span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">spectrum_name</span><span class="p">)</span>
|
||||
<span class="o">+</span> <span class="s2">"_p"</span>
|
||||
<span class="o">+</span> <span class="nb">str</span><span class="p">(</span><span class="n">batch_idx</span> <span class="o">+</span> <span class="n">index</span><span class="p">)</span>
|
||||
<span class="o">+</span> <span class="s2">".h5"</span>
|
||||
<span class="p">)</span>
|
||||
|
||||
<span class="k">if</span> <span class="n">os</span><span class="o">.</span><span class="n">path</span><span class="o">.</span><span class="n">exists</span><span class="p">(</span><span class="n">fname_mocks</span><span class="p">):</span>
|
||||
<span class="kn">from</span> <span class="nn">h5py</span> <span class="kn">import</span> <span class="n">File</span>
|
||||
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">debug</span><span class="p">(</span><span class="s2">"Mock file </span><span class="si">%s</span><span class="s2"> found, loading existing data..."</span><span class="p">,</span> <span class="n">fname_mocks</span><span class="p">)</span>
|
||||
<span class="k">with</span> <span class="n">File</span><span class="p">(</span><span class="n">fname_mocks</span><span class="p">,</span> <span class="s2">"r"</span><span class="p">)</span> <span class="k">as</span> <span class="n">f</span><span class="p">:</span>
|
||||
<span class="n">Phi</span> <span class="o">=</span> <span class="n">f</span><span class="p">[</span><span class="s2">"Phi"</span><span class="p">][:]</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">debug</span><span class="p">(</span><span class="s2">"No existing mock file at </span><span class="si">%s</span><span class="s2">, generating new data..."</span><span class="p">,</span> <span class="n">fname_mocks</span><span class="p">)</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy.random</span> <span class="kn">import</span> <span class="n">normal</span>
|
||||
<span class="kn">from</span> <span class="nn">numpy</span> <span class="kn">import</span> <span class="n">shape</span><span class="p">,</span> <span class="nb">max</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.global_parameters</span> <span class="kn">import</span> <span class="n">BASELINE_SEEDNORM</span><span class="p">,</span> <span class="n">omegas_gt</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.tools</span> <span class="kn">import</span> <span class="n">get_k_max</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.hiddenbox</span> <span class="kn">import</span> <span class="n">HiddenBox</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.tools</span> <span class="kn">import</span> <span class="n">get_summary</span>
|
||||
|
||||
<span class="n">P</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">Pbins_bnd</span><span class="p">)</span> <span class="o">-</span> <span class="mi">1</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">BB_selfi</span> <span class="o">=</span> <span class="n">HiddenBox</span><span class="p">(</span>
|
||||
<span class="n">k_s</span><span class="o">=</span><span class="n">k_s</span><span class="p">,</span>
|
||||
<span class="n">P_ss_path</span><span class="o">=</span><span class="n">P_ss_obj_path</span><span class="p">,</span>
|
||||
<span class="n">Pbins_bnd</span><span class="o">=</span><span class="n">Pbins_bnd</span><span class="p">,</span>
|
||||
<span class="n">theta2P</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span>
|
||||
<span class="n">P</span><span class="o">=</span><span class="n">P</span> <span class="o">*</span> <span class="n">shape</span><span class="p">(</span><span class="n">selection_params</span><span class="p">)[</span><span class="mi">1</span><span class="p">],</span> <span class="c1"># P * Npop</span>
|
||||
<span class="n">size</span><span class="o">=</span><span class="n">size</span><span class="p">,</span>
|
||||
<span class="n">L</span><span class="o">=</span><span class="n">L</span><span class="p">,</span>
|
||||
<span class="n">G_sim_path</span><span class="o">=</span><span class="n">G_sim_path</span><span class="p">,</span>
|
||||
<span class="n">G_ss_path</span><span class="o">=</span><span class="n">G_ss_path</span><span class="p">,</span>
|
||||
<span class="n">Np0</span><span class="o">=</span><span class="n">Np0</span><span class="p">,</span>
|
||||
<span class="n">Npm0</span><span class="o">=</span><span class="n">Npm0</span><span class="p">,</span>
|
||||
<span class="n">fsimdir</span><span class="o">=</span><span class="n">wd</span><span class="p">[:</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span>
|
||||
<span class="n">modeldir</span><span class="o">=</span><span class="n">modeldir</span><span class="p">,</span>
|
||||
<span class="n">noise_std</span><span class="o">=</span><span class="n">noise</span><span class="p">,</span>
|
||||
<span class="n">radial_selection</span><span class="o">=</span><span class="n">radial_selection</span><span class="p">,</span>
|
||||
<span class="n">selection_params</span><span class="o">=</span><span class="n">selection_params</span><span class="p">,</span>
|
||||
<span class="n">observed_density</span><span class="o">=</span><span class="n">obs_density</span><span class="p">,</span>
|
||||
<span class="n">linear_bias</span><span class="o">=</span><span class="n">lin_bias</span><span class="p">,</span>
|
||||
<span class="n">norm_csts</span><span class="o">=</span><span class="n">norm_csts</span><span class="p">,</span>
|
||||
<span class="n">survey_mask_path</span><span class="o">=</span><span class="n">survey_mask_path</span><span class="p">,</span>
|
||||
<span class="n">local_mask_prefix</span><span class="o">=</span><span class="n">local_mask_prefix</span><span class="p">,</span>
|
||||
<span class="n">sim_params</span><span class="o">=</span><span class="n">sim_params</span><span class="p">,</span>
|
||||
<span class="n">TimeStepDistribution</span><span class="o">=</span><span class="n">TimeStepDistribution</span><span class="p">,</span>
|
||||
<span class="n">TimeSteps</span><span class="o">=</span><span class="n">indices_steps_cumul</span><span class="p">,</span>
|
||||
<span class="n">eff_redshifts</span><span class="o">=</span><span class="n">eff_redshifts</span><span class="p">,</span>
|
||||
<span class="n">seedphase</span><span class="o">=</span><span class="n">seedphase_init</span><span class="p">,</span>
|
||||
<span class="n">seednoise</span><span class="o">=</span><span class="n">seednoise_init</span><span class="p">,</span>
|
||||
<span class="n">fixnoise</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
|
||||
<span class="n">seednorm</span><span class="o">=</span><span class="n">BASELINE_SEEDNORM</span><span class="p">,</span>
|
||||
<span class="n">reset</span><span class="o">=</span><span class="kc">False</span><span class="p">,</span>
|
||||
<span class="n">save_frequency</span><span class="o">=</span><span class="mi">5</span><span class="p">,</span>
|
||||
<span class="n">verbosity</span><span class="o">=</span><span class="mi">2</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="n">k_max</span> <span class="o">=</span> <span class="n">get_k_max</span><span class="p">(</span><span class="n">L</span><span class="p">,</span> <span class="n">size</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">critical</span><span class="p">(</span><span class="s2">"Error instantiating HiddenBox: </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
|
||||
<span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">(</span><span class="s2">"Failed to set up HiddenBox."</span><span class="p">)</span> <span class="kn">from</span> <span class="nn">e</span>
|
||||
|
||||
<span class="c1"># Evaluate the param -> 'theta' using some get_summary logic</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">theta</span> <span class="o">=</span> <span class="n">get_summary</span><span class="p">(</span><span class="n">param_val</span><span class="p">,</span> <span class="n">param_id</span><span class="p">,</span> <span class="n">omegas_gt</span><span class="p">,</span> <span class="n">k_s</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="n">k_max</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
|
||||
<span class="n">max_tries</span> <span class="o">=</span> <span class="mi">10</span>
|
||||
<span class="n">perturb_std</span> <span class="o">=</span> <span class="mf">1e-8</span>
|
||||
<span class="n">param_val_init</span> <span class="o">=</span> <span class="n">param_val</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">warning</span><span class="p">(</span>
|
||||
<span class="s2">"get_summary failed for param_val=</span><span class="si">%s</span><span class="s2">. Trying small perturbations..."</span><span class="p">,</span> <span class="n">param_val</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="n">max_tries</span><span class="p">):</span>
|
||||
<span class="n">param_val</span> <span class="o">=</span> <span class="n">normal</span><span class="p">(</span><span class="n">param_val_init</span><span class="p">,</span> <span class="n">perturb_std</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="s2">"Attempt #</span><span class="si">%d</span><span class="s2">: param_val=</span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="n">i</span> <span class="o">+</span> <span class="mi">1</span><span class="p">,</span> <span class="n">param_val</span><span class="p">)</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">theta</span> <span class="o">=</span> <span class="n">get_summary</span><span class="p">(</span><span class="n">param_val</span><span class="p">,</span> <span class="n">param_id</span><span class="p">,</span> <span class="n">omegas_gt</span><span class="p">,</span> <span class="n">k_s</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="n">k_max</span><span class="p">)</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span>
|
||||
<span class="s2">"Success with param_val=</span><span class="si">%s</span><span class="s2"> on attempt #</span><span class="si">%d</span><span class="s2">"</span><span class="p">,</span> <span class="n">param_val</span><span class="p">,</span> <span class="n">i</span> <span class="o">+</span> <span class="mi">1</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">break</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span><span class="p">:</span>
|
||||
<span class="k">if</span> <span class="n">i</span> <span class="o">==</span> <span class="n">max_tries</span> <span class="o">-</span> <span class="mi">1</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">critical</span><span class="p">(</span>
|
||||
<span class="s2">"All attempts to get_summary failed for param_val=</span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span>
|
||||
<span class="n">param_val_init</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">(</span><span class="s2">"get_summary repeatedly failed."</span><span class="p">)</span>
|
||||
<span class="k">continue</span>
|
||||
|
||||
<span class="kn">from</span> <span class="nn">io</span> <span class="kn">import</span> <span class="n">BytesIO</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.low_level</span> <span class="kn">import</span> <span class="n">stderr_redirector</span><span class="p">,</span> <span class="n">stdout_redirector</span>
|
||||
|
||||
<span class="n">cosmo_vect</span> <span class="o">=</span> <span class="n">omegas_gt</span>
|
||||
<span class="n">cosmo_vect</span><span class="p">[</span><span class="n">param_id</span><span class="p">]</span> <span class="o">=</span> <span class="n">param_val</span>
|
||||
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">debug</span><span class="p">(</span><span class="s2">"Evaluating model with HPC redirection, setup_only=</span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="n">setup_only</span><span class="p">)</span>
|
||||
<span class="n">f</span> <span class="o">=</span> <span class="n">BytesIO</span><span class="p">()</span>
|
||||
<span class="n">g</span> <span class="o">=</span> <span class="n">BytesIO</span><span class="p">()</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="k">with</span> <span class="n">stderr_redirector</span><span class="p">(</span><span class="n">f</span><span class="p">):</span>
|
||||
<span class="k">with</span> <span class="n">stdout_redirector</span><span class="p">(</span><span class="n">g</span><span class="p">):</span>
|
||||
<span class="k">if</span> <span class="n">setup_only</span><span class="p">:</span>
|
||||
<span class="n">BB_selfi</span><span class="o">.</span><span class="n">switch_setup</span><span class="p">()</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">BB_selfi</span><span class="o">.</span><span class="n">switch_recompute_pool</span><span class="p">(</span><span class="n">prefix_mocks</span><span class="o">=</span><span class="n">prefix_mocks</span><span class="p">)</span>
|
||||
|
||||
<span class="n">Phi</span> <span class="o">=</span> <span class="n">BB_selfi</span><span class="o">.</span><span class="n">evaluate</span><span class="p">(</span>
|
||||
<span class="n">theta</span><span class="p">,</span>
|
||||
<span class="n">spectrum_name</span><span class="p">,</span>
|
||||
<span class="n">seedphase_init</span> <span class="o">+</span> <span class="n">index</span><span class="p">,</span>
|
||||
<span class="n">seednoise_init</span> <span class="o">+</span> <span class="n">index</span><span class="p">,</span>
|
||||
<span class="n">i</span><span class="o">=</span><span class="n">batch_idx</span> <span class="o">+</span> <span class="n">index</span><span class="p">,</span>
|
||||
<span class="n">thetaIsP</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
|
||||
<span class="n">remove_sbmy</span><span class="o">=</span><span class="kc">True</span><span class="p">,</span>
|
||||
<span class="n">force_powerspectrum</span><span class="o">=</span><span class="n">dbg</span><span class="p">,</span>
|
||||
<span class="n">force_parfiles</span><span class="o">=</span><span class="n">dbg</span><span class="p">,</span>
|
||||
<span class="n">check_output</span><span class="o">=</span><span class="n">dbg</span><span class="p">,</span>
|
||||
<span class="n">abc</span><span class="o">=</span><span class="n">poolname_abc</span><span class="p">,</span>
|
||||
<span class="n">cosmo_vect</span><span class="o">=</span><span class="n">cosmo_vect</span><span class="p">,</span>
|
||||
<span class="p">)</span>
|
||||
<span class="k">if</span> <span class="n">setup_only</span><span class="p">:</span>
|
||||
<span class="n">BB_selfi</span><span class="o">.</span><span class="n">switch_setup</span><span class="p">()</span>
|
||||
<span class="k">else</span><span class="p">:</span>
|
||||
<span class="n">BB_selfi</span><span class="o">.</span><span class="n">switch_recompute_pool</span><span class="p">(</span><span class="n">prefix_mocks</span><span class="o">=</span><span class="n">prefix_mocks</span><span class="p">)</span>
|
||||
|
||||
<span class="k">except</span> <span class="ne">Exception</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">critical</span><span class="p">(</span><span class="s2">"Error while evaluating model: </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
|
||||
<span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">(</span><span class="s2">"Simbelmyne_worker model evaluation failed."</span><span class="p">)</span> <span class="kn">from</span> <span class="nn">e</span>
|
||||
<span class="k">finally</span><span class="p">:</span>
|
||||
<span class="n">g</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
<span class="n">f</span><span class="o">.</span><span class="n">close</span><span class="p">()</span>
|
||||
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">debug</span><span class="p">(</span><span class="s2">"Returning param_val=</span><span class="si">%s</span><span class="s2"> with resulting Phi of shape </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="n">param_val</span><span class="p">,</span> <span class="n">Phi</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
|
||||
<span class="k">return</span> <span class="n">param_val</span><span class="p">,</span> <span class="n">Phi</span>
|
||||
|
||||
<span class="k">except</span> <span class="ne">OSError</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">error</span><span class="p">(</span><span class="s2">"File I/O error in Simbelmyne_worker: </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
|
||||
<span class="k">raise</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">critical</span><span class="p">(</span><span class="s2">"Unexpected error in Simbelmyne_worker: </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
|
||||
<span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">(</span><span class="s2">"Simbelmyne_worker HPC run failed."</span><span class="p">)</span> <span class="kn">from</span> <span class="nn">e</span>
|
||||
<span class="k">finally</span><span class="p">:</span>
|
||||
<span class="n">gc</span><span class="o">.</span><span class="n">collect</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="worker_gradient_Symbelmyne">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.workers.worker_gradient_Symbelmyne">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">worker_gradient_Symbelmyne</span><span class="p">(</span>
|
||||
<span class="n">coeff</span><span class="p">:</span> <span class="nb">float</span><span class="p">,</span>
|
||||
<span class="n">delta_x</span><span class="p">:</span> <span class="nb">float</span><span class="p">,</span>
|
||||
<span class="n">omega</span><span class="p">,</span>
|
||||
<span class="n">param_index</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">k_s</span><span class="p">,</span>
|
||||
<span class="n">delta</span><span class="p">:</span> <span class="nb">float</span><span class="p">,</span>
|
||||
<span class="n">kmax</span><span class="p">:</span> <span class="nb">float</span><span class="p">,</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Worker function for evaluating the gradient of the power spectrum</span>
|
||||
<span class="sd"> using finite differences.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> coeff : float</span>
|
||||
<span class="sd"> Coefficient for the finite difference.</span>
|
||||
<span class="sd"> delta_x : float</span>
|
||||
<span class="sd"> Step size in the parameter space.</span>
|
||||
<span class="sd"> omega : ndarray</span>
|
||||
<span class="sd"> Base cosmological parameter vector.</span>
|
||||
<span class="sd"> param_index : int</span>
|
||||
<span class="sd"> Index of the parameter being varied.</span>
|
||||
<span class="sd"> k_s : ndarray</span>
|
||||
<span class="sd"> Array of wavenumbers.</span>
|
||||
<span class="sd"> delta : float</span>
|
||||
<span class="sd"> Denominator for finite differences (scaled).</span>
|
||||
<span class="sd"> kmax : float</span>
|
||||
<span class="sd"> Maximum wavenumber for power spectrum.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ndarray</span>
|
||||
<span class="sd"> The gradient of the power spectrum wrt the specified parameter.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
<span class="sd"> RuntimeError</span>
|
||||
<span class="sd"> If the gradient evaluation fails.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">from</span> <span class="nn">pysbmy.power</span> <span class="kn">import</span> <span class="n">get_Pk</span>
|
||||
<span class="kn">from</span> <span class="nn">selfisys.utils.tools</span> <span class="kn">import</span> <span class="n">cosmo_vector_to_Simbelmyne_dict</span>
|
||||
|
||||
<span class="n">omega_new</span> <span class="o">=</span> <span class="n">omega</span><span class="o">.</span><span class="n">copy</span><span class="p">()</span>
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">omega_new</span><span class="p">[</span><span class="n">param_index</span><span class="p">]</span> <span class="o">+=</span> <span class="n">delta_x</span>
|
||||
<span class="n">ps</span> <span class="o">=</span> <span class="n">get_Pk</span><span class="p">(</span><span class="n">k_s</span><span class="p">,</span> <span class="n">cosmo_vector_to_Simbelmyne_dict</span><span class="p">(</span><span class="n">omega_new</span><span class="p">,</span> <span class="n">kmax</span><span class="o">=</span><span class="n">kmax</span><span class="p">))</span>
|
||||
<span class="n">contrib_to_grad</span> <span class="o">=</span> <span class="p">(</span><span class="n">coeff</span> <span class="o">*</span> <span class="n">ps</span><span class="p">)</span> <span class="o">/</span> <span class="n">delta</span>
|
||||
<span class="k">return</span> <span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">contrib_to_grad</span><span class="p">)</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">critical</span><span class="p">(</span><span class="s2">"Error in worker_gradient_Symbelmyne: </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
|
||||
<span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">(</span><span class="s2">"worker_gradient_Symbelmyne failed."</span><span class="p">)</span> <span class="kn">from</span> <span class="nn">e</span>
|
||||
<span class="k">finally</span><span class="p">:</span>
|
||||
<span class="n">gc</span><span class="o">.</span><span class="n">collect</span><span class="p">()</span></div>
|
||||
|
||||
|
||||
|
||||
<div class="viewcode-block" id="evaluate_gradient_of_Symbelmyne">
|
||||
<a class="viewcode-back" href="../../../selfisys.utils.html#selfisys.utils.workers.evaluate_gradient_of_Symbelmyne">[docs]</a>
|
||||
<span class="k">def</span> <span class="nf">evaluate_gradient_of_Symbelmyne</span><span class="p">(</span>
|
||||
<span class="n">omega</span><span class="p">,</span>
|
||||
<span class="n">param_index</span><span class="p">:</span> <span class="nb">int</span><span class="p">,</span>
|
||||
<span class="n">k_s</span><span class="p">,</span>
|
||||
<span class="n">coeffs</span><span class="p">:</span> <span class="n">List</span><span class="p">[</span><span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="mi">2</span> <span class="o">/</span> <span class="mf">3.0</span><span class="p">,</span> <span class="o">-</span><span class="mi">1</span> <span class="o">/</span> <span class="mf">12.0</span><span class="p">],</span>
|
||||
<span class="n">deltas_x</span><span class="p">:</span> <span class="n">List</span><span class="p">[</span><span class="nb">float</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="mf">0.01</span><span class="p">,</span> <span class="mf">0.02</span><span class="p">],</span>
|
||||
<span class="n">delta</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">1e-2</span><span class="p">,</span>
|
||||
<span class="n">kmax</span><span class="p">:</span> <span class="nb">float</span> <span class="o">=</span> <span class="mf">1.4</span><span class="p">,</span>
|
||||
<span class="p">):</span>
|
||||
<span class="w"> </span><span class="sd">"""</span>
|
||||
<span class="sd"> Estimate the gradient of CLASS with respect to the cosmological</span>
|
||||
<span class="sd"> parameters using central finite differences of arbitrary order.</span>
|
||||
|
||||
<span class="sd"> Parameters</span>
|
||||
<span class="sd"> ----------</span>
|
||||
<span class="sd"> omega : ndarray</span>
|
||||
<span class="sd"> Base cosmological parameter vector.</span>
|
||||
<span class="sd"> param_index : int</span>
|
||||
<span class="sd"> Index of the parameter to differentiate against.</span>
|
||||
<span class="sd"> k_s : ndarray</span>
|
||||
<span class="sd"> Wavenumbers for the power spectrum.</span>
|
||||
<span class="sd"> coeffs : list of float, optional</span>
|
||||
<span class="sd"> Coefficients for the finite-difference scheme, typically</span>
|
||||
<span class="sd"> [2/3, -1/12] etc. Default is [2/3.0, -1/12.0].</span>
|
||||
<span class="sd"> deltas_x : list of float, optional</span>
|
||||
<span class="sd"> Step sizes. The corresponding negative steps are generated</span>
|
||||
<span class="sd"> automatically. Default is [0.01, 0.02].</span>
|
||||
<span class="sd"> delta : float, optional</span>
|
||||
<span class="sd"> Scale for the finite difference in the denominator. Default is</span>
|
||||
<span class="sd"> 1e-2.</span>
|
||||
<span class="sd"> kmax : float, optional</span>
|
||||
<span class="sd"> Maximum wavenumber for the power spectrum. Default is 1.4.</span>
|
||||
|
||||
<span class="sd"> Returns</span>
|
||||
<span class="sd"> -------</span>
|
||||
<span class="sd"> ndarray</span>
|
||||
<span class="sd"> The gradient of the power spectrum wrt the specified parameter.</span>
|
||||
|
||||
<span class="sd"> Raises</span>
|
||||
<span class="sd"> ------</span>
|
||||
<span class="sd"> RuntimeError</span>
|
||||
<span class="sd"> If the gradient evaluation fails.</span>
|
||||
<span class="sd"> """</span>
|
||||
<span class="kn">import</span> <span class="nn">numpy</span> <span class="k">as</span> <span class="nn">np</span>
|
||||
<span class="kn">from</span> <span class="nn">multiprocessing</span> <span class="kn">import</span> <span class="n">Pool</span>
|
||||
|
||||
<span class="k">try</span><span class="p">:</span>
|
||||
<span class="n">grad</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">zeros</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">k_s</span><span class="p">))</span>
|
||||
<span class="n">full_coeffs</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">coeffs</span><span class="p">)[::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">coeffs</span><span class="p">))</span>
|
||||
<span class="n">deltas_x_full</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">concatenate</span><span class="p">((</span><span class="o">-</span><span class="n">np</span><span class="o">.</span><span class="n">array</span><span class="p">(</span><span class="n">deltas_x</span><span class="p">)[::</span><span class="o">-</span><span class="mi">1</span><span class="p">],</span> <span class="n">deltas_x</span><span class="p">))</span>
|
||||
|
||||
<span class="n">tasks</span> <span class="o">=</span> <span class="p">[</span>
|
||||
<span class="p">(</span><span class="n">c</span><span class="p">,</span> <span class="n">dx</span><span class="p">,</span> <span class="n">omega</span><span class="p">,</span> <span class="n">param_index</span><span class="p">,</span> <span class="n">k_s</span><span class="p">,</span> <span class="n">delta</span><span class="p">,</span> <span class="n">kmax</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">c</span><span class="p">,</span> <span class="n">dx</span> <span class="ow">in</span> <span class="nb">zip</span><span class="p">(</span><span class="n">full_coeffs</span><span class="p">,</span> <span class="n">deltas_x_full</span><span class="p">)</span>
|
||||
<span class="p">]</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="s2">"Starting parallel HPC for gradient, tasks=</span><span class="si">%d</span><span class="s2">"</span><span class="p">,</span> <span class="nb">len</span><span class="p">(</span><span class="n">tasks</span><span class="p">))</span>
|
||||
|
||||
<span class="k">with</span> <span class="n">Pool</span><span class="p">()</span> <span class="k">as</span> <span class="n">mp_pool</span><span class="p">:</span>
|
||||
<span class="n">results</span> <span class="o">=</span> <span class="n">mp_pool</span><span class="o">.</span><span class="n">starmap</span><span class="p">(</span><span class="n">worker_gradient_Symbelmyne</span><span class="p">,</span> <span class="n">tasks</span><span class="p">)</span>
|
||||
<span class="k">for</span> <span class="n">contrib</span> <span class="ow">in</span> <span class="n">results</span><span class="p">:</span>
|
||||
<span class="n">grad</span> <span class="o">+=</span> <span class="n">contrib</span>
|
||||
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">diagnostic</span><span class="p">(</span><span class="s2">"Gradient evaluation completed. Shape=</span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="n">grad</span><span class="o">.</span><span class="n">shape</span><span class="p">)</span>
|
||||
<span class="k">return</span> <span class="n">grad</span>
|
||||
<span class="k">except</span> <span class="ne">Exception</span> <span class="k">as</span> <span class="n">e</span><span class="p">:</span>
|
||||
<span class="n">logger</span><span class="o">.</span><span class="n">critical</span><span class="p">(</span><span class="s2">"Unexpected error in evaluate_gradient_of_Symbelmyne: </span><span class="si">%s</span><span class="s2">"</span><span class="p">,</span> <span class="nb">str</span><span class="p">(</span><span class="n">e</span><span class="p">))</span>
|
||||
<span class="k">raise</span> <span class="ne">RuntimeError</span><span class="p">(</span><span class="s2">"evaluate_gradient_of_Symbelmyne failed."</span><span class="p">)</span> <span class="kn">from</span> <span class="nn">e</span>
|
||||
<span class="k">finally</span><span class="p">:</span>
|
||||
<span class="n">gc</span><span class="o">.</span><span class="n">collect</span><span class="p">()</span></div>
|
||||
|
||||
</pre></div>
|
||||
|
||||
</div>
|
||||
</div>
|
||||
<footer>
|
||||
|
||||
<hr/>
|
||||
|
||||
<div role="contentinfo">
|
||||
<p>© Copyright 2025, Tristan Hoellinger.</p>
|
||||
</div>
|
||||
|
||||
Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
|
||||
<a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
|
||||
provided by <a href="https://readthedocs.org">Read the Docs</a>.
|
||||
|
||||
|
||||
</footer>
|
||||
</div>
|
||||
</div>
|
||||
</section>
|
||||
</div>
|
||||
<script>
|
||||
jQuery(function () {
|
||||
SphinxRtdTheme.Navigation.enable(true);
|
||||
});
|
||||
</script>
|
||||
|
||||
</body>
|
||||
</html>
|
||||
58
docs/_sources/CONTRIBUTING.md.txt
Normal file
58
docs/_sources/CONTRIBUTING.md.txt
Normal file
|
|
@ -0,0 +1,58 @@
|
|||
# Contributing to SelfiSys
|
||||
|
||||
We welcome contributions to the SelfiSys repository! Please follow these guidelines when contributing.
|
||||
|
||||
---
|
||||
|
||||
## Reporting Issues
|
||||
|
||||
If you find a bug or have a suggestion, please open an issue in the [GitHub repository](https://github.com/hoellin/selfisys_public). Include as much detail as possible:
|
||||
- Steps to reproduce the issue
|
||||
- Expected vs. actual behaviour
|
||||
- Relevant error messages or logs (if applicable)
|
||||
- Suggestions for improvement (if applicable)
|
||||
|
||||
If you are unsure whether your issue is a bug or have questions about the code, you are welcome to open an issue for discussion.
|
||||
|
||||
## Submitting Contributions
|
||||
|
||||
1. Fork the repository and create a new branch for your changes.
|
||||
2. Ensure your contributions are well-documented and adhere to the highest coding standards.
|
||||
3. Test your changes thoroughly before submitting:
|
||||
- Ensure Jupyter notebooks run without errors from top to bottom.
|
||||
- Validate new functionality or fixes using appropriate test cases.
|
||||
4. Before submitting a pull request, synchronise your fork with the main repository to incorporate upstream changes.
|
||||
- Add the main repository as a remote.
|
||||
```bash
|
||||
git remote add upstream https://github.com/hoellin/selfisys_public.git
|
||||
```
|
||||
- Fetch the latest changes from the upstream repository.
|
||||
```bash
|
||||
git fetch upstream
|
||||
```
|
||||
- Merge the changes into your local repository.
|
||||
```bash
|
||||
git merge upstream/main
|
||||
```
|
||||
5. Open a pull request describing your changes to the main repository.
|
||||
|
||||
## Style Guidelines
|
||||
|
||||
Follow best practices for Python coding and Jupyter notebooks.
|
||||
|
||||
### Python code
|
||||
|
||||
Refer to the [PEP 8 Style Guide](https://pep8.org/) for Python coding standards.
|
||||
|
||||
### Jupyter Notebooks
|
||||
|
||||
- Use clear and concise Markdown cells to explain code and results.
|
||||
- Avoid leaving unnecessary output (e.g., debugging print statements).
|
||||
- Ensure notebooks are runnable from top to bottom.
|
||||
- For tips on creating clean and effective Jupyter notebooks, see [Jupyter Notebook Best Practices](https://realpython.com/jupyter-notebook-best-practices/).
|
||||
|
||||
---
|
||||
|
||||
## Questions?
|
||||
|
||||
If you have any questions or need further clarification, feel free to [contact the authors](mailto:tristan.hoellinger@iap.fr).
|
||||
83
docs/_sources/README.md.txt
Normal file
83
docs/_sources/README.md.txt
Normal file
|
|
@ -0,0 +1,83 @@
|
|||
# SelfiSys: Assess the Impact of Systematic Effects in Galaxy Surveys
|
||||
|
||||
[](https://arxiv.org/abs/2412.04443)
|
||||
[](https://github.com/hoellin/selfisys_public/blob/main/LICENSE)
|
||||
[](https://github.com/hoellin/selfisys_public)
|
||||
[](https://github.com/hoellin/selfisys_public/commits/main)
|
||||
|
||||
|
||||
**SelfiSys** is a Python package designed to address the issue of model misspecification in field-based, implicit likelihood cosmological inference.
|
||||
|
||||
It leverages the inferred initial matter power spectrum, enabling a thorough diagnosis of systematic effects in large-scale spectroscopic galaxy surveys.
|
||||
|
||||
## Key Features
|
||||
|
||||
- **Custom hidden-box forward models**
|
||||
|
||||
We provide a `HiddenBox` class to simulate realistic spectroscopic galaxy surveys. It accommodates fully non-linear gravitational evolution, and incorporates multiple systematic effects observed in real-world survey, e.g., misspecified galaxy bias, survey mask, selection functions, dust extinction, line interlopers, or inaccurate gravity solver.
|
||||
|
||||
- **Diagnosis of systematic effects**
|
||||
|
||||
Diagnose the impact of systematic effects using the inferred initial matter power spectrum, prior to performing cosmological inference.
|
||||
|
||||
- **Cosmological inference**
|
||||
|
||||
Perform inference of cosmological parameters using Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.
|
||||
|
||||
---
|
||||
|
||||
## Documentation
|
||||
|
||||
The documentation, including a detailed API reference, is available at [hoellin.github.io/selfisys_public](https://hoellin.github.io/selfisys_public/).
|
||||
|
||||
For practical examples demonstrating how to use SelfiSys, visit the [SelfiSys Examples Repository](https://github.com/hoellin/selfisys_examples).
|
||||
|
||||
## Contributors
|
||||
|
||||
- **Tristan Hoellinger**, [tristan.hoellinger@iap.fr](mailto:tristan.hoellinger@iap.fr)
|
||||
Principal developer and maintainer, Institut d’Astrophysique de Paris (IAP).
|
||||
|
||||
For information on contributing, refer to [CONTRIBUTING.md](CONTRIBUTING.md).
|
||||
|
||||
## References
|
||||
|
||||
If you use the SelfiSys package in your research, please cite the following paper and feel free to [contact the authors](mailto:tristan.hoellinger@iap.fr) for feedback, collaboration opportunities, or other inquiries.
|
||||
|
||||
**Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum**
|
||||
*Hoellinger, T. and Leclercq, F., 2024*
|
||||
[arXiv:2412.04443](https://arxiv.org/abs/2412.04443) [[astro-ph.CO]](https://arxiv.org/abs/2412.04443) [[ADS]](https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443) [[pdf]](https://arxiv.org/pdf/2412.04443)
|
||||
|
||||
BibTeX entry for citation:
|
||||
```bibtex
|
||||
@ARTICLE{hoellinger2024diagnosing,
|
||||
author = {Hoellinger, Tristan and Leclercq, Florent},
|
||||
title = "{Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum}",
|
||||
journal = {arXiv e-prints},
|
||||
keywords = {Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics},
|
||||
year = 2024,
|
||||
month = dec,
|
||||
eid = {arXiv:2412.04443},
|
||||
pages = {arXiv:2412.04443},
|
||||
doi = {10.48550/arXiv.2412.04443},
|
||||
archivePrefix = {arXiv},
|
||||
eprint = {2412.04443},
|
||||
primaryClass = {astro-ph.CO},
|
||||
adsurl = {https://ui.adsabs.harvard.edu/abs/2024arXiv241204443H},
|
||||
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
|
||||
}
|
||||
```
|
||||
|
||||
## Requirements
|
||||
|
||||
The code is written in Python 3.10 and depends on the following packages:
|
||||
- [`pySELFI`](https://pyselfi.readthedocs.io/en/latest/): Python implementation of the Simulator Expansion for Likelihood-Free Inference.
|
||||
- [`Simbelmynë`](https://simbelmyne.readthedocs.io/en/latest/): A hierarchical probabilistic simulator for generating synthetic galaxy survey data.
|
||||
- [`ELFI`](https://elfi.readthedocs.io/en/latest/): A statistical software package for likelihood-free inference, implementing in particular Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.
|
||||
|
||||
A comprehensive list of dependencies, including version specifications to ensure reproducibility, will be provided in a yaml file, along with installation instructions, in a future release.
|
||||
|
||||
---
|
||||
|
||||
## License
|
||||
|
||||
This software is distributed under the GPLv3 Licence. Please review the [LICENSE](https://github.com/hoellin/selfisys_public/blob/main/LICENSE) file in the repository to understand the terms of use and ensure compliance. By downloading and using this software, you agree to the terms of the licence.
|
||||
44
docs/_sources/REFERENCES.md.txt
Normal file
44
docs/_sources/REFERENCES.md.txt
Normal file
|
|
@ -0,0 +1,44 @@
|
|||
# References
|
||||
|
||||
If you use the SelfiSys package in your research, please cite the following paper and feel free to [contact the authors](mailto:tristan.hoellinger@iap.fr) for feedback, collaboration opportunities, or other inquiries.
|
||||
|
||||
**Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum**
|
||||
*Hoellinger, T. and Leclercq, F., 2024*
|
||||
[arXiv:2412.04443](https://arxiv.org/abs/2412.04443) [[astro-ph.CO]](https://arxiv.org/abs/2412.04443) [[ADS]](https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443) [[pdf]](https://arxiv.org/pdf/2412.04443)
|
||||
|
||||
BibTeX entry for citation:
|
||||
```bibtex
|
||||
@ARTICLE{hoellinger2024diagnosing,
|
||||
author = {Hoellinger, Tristan and Leclercq, Florent},
|
||||
title = "{Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum}",
|
||||
journal = {arXiv e-prints},
|
||||
keywords = {Astrophysics - Cosmology and Nongalactic Astrophysics, Astrophysics - Instrumentation and Methods for Astrophysics},
|
||||
year = 2024,
|
||||
month = dec,
|
||||
eid = {arXiv:2412.04443},
|
||||
pages = {arXiv:2412.04443},
|
||||
doi = {10.48550/arXiv.2412.04443},
|
||||
archivePrefix = {arXiv},
|
||||
eprint = {2412.04443},
|
||||
primaryClass = {astro-ph.CO},
|
||||
adsurl = {https://ui.adsabs.harvard.edu/abs/2024arXiv241204443H},
|
||||
adsnote = {Provided by the SAO/NASA Astrophysics Data System}
|
||||
}
|
||||
```
|
||||
|
||||
Other references relevant to the SelfiSys pipeline and cited in the code are listed below.
|
||||
|
||||
- **[jasche2010bayesian]**
|
||||
Jasche, J., Kitaura, F. S., Wandelt, B. D., and Enßlin, T. A., “Bayesian power-spectrum inference for large-scale structure data”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 406, no. 1, OUP, pp. 60–85, 2010. [doi:10.1111/j.1365-2966.2010.16610.x](https://doi.org/10.48550/arXiv.0911.2493).
|
||||
|
||||
- **[gil2015power]**
|
||||
Gil-Marín, H., “The power spectrum and bispectrum of SDSS DR11 BOSS galaxies - I. Bias and gravity”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 451, no. 1, OUP, pp. 539–580, 2015. [doi:10.1093/mnras/stv961](https://doi.org/10.48550/arXiv.1407.5668).
|
||||
|
||||
- **[howlett2015clustering]**
|
||||
Howlett, C., Ross, A. J., Samushia, L., Percival, W. J., and Manera, M., “The clustering of the SDSS main galaxy sample - II. Mock galaxy catalogues and a measurement of the growth of structure from redshift space distortions at z = 0.15”, <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 449, no. 1, OUP, pp. 848–866, 2015. [doi:10.1093/mnras/stu2693](https://doi.org/10.48550/arXiv.1409.3238).
|
||||
|
||||
- **[leclercq2019primordial]**
|
||||
Florent Leclercq, Wolfgang Enzi, Jens Jasche, Alan Heavens, Primordial power spectrum and cosmology from black-box galaxy surveys, Monthly Notices of the Royal Astronomical Society, Volume 490, Issue 3, December 2019, Pages 4237–4253, [doi:10.1093/mnras/stz2718](https://doi.org/10.1093/mnras/stz2718).
|
||||
|
||||
- **[hoellinger2024diagnosing]**
|
||||
Hoellinger, T. and Leclercq, F., “Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum”, <i>arXiv e-prints</i>, Art. no. arXiv:2412.04443, 2024. [doi.org:10.48550/arXiv.2412.04443](https://doi.org/10.48550/arXiv.2412.04443).
|
||||
95
docs/_sources/index.rst.txt
Normal file
95
docs/_sources/index.rst.txt
Normal file
|
|
@ -0,0 +1,95 @@
|
|||
SelfiSys: Assess the Impact of Systematic Effects in Galaxy Surveys
|
||||
===================================================================
|
||||
|
||||
.. image:: https://img.shields.io/badge/astro--ph.CO-arxiv%3A2412.04443-B31B1B.svg
|
||||
:target: https://arxiv.org/abs/2412.04443
|
||||
:alt: arXiv
|
||||
|
||||
.. image:: https://img.shields.io/github/v/tag/hoellin/selfisys_public.svg?label=version
|
||||
:target: https://github.com/hoellin/selfisys_public/releases
|
||||
:alt: GitHub Release
|
||||
|
||||
.. image:: https://img.shields.io/github/last-commit/hoellin/selfisys_public
|
||||
:target: https://github.com/hoellin/selfisys_public/commits/main
|
||||
:alt: Last Commit
|
||||
|
||||
.. image:: https://img.shields.io/badge/License-GPLv3-blue.svg
|
||||
:target: https://github.com/hoellin/selfisys_public/blob/main/LICENSE
|
||||
:alt: License
|
||||
|
||||
**SelfiSys** is a Python package designed to address the issue of model misspecification in field-based, implicit likelihood cosmological inference.
|
||||
|
||||
It leverages the inferred initial matter power spectrum, enabling a thorough diagnosis of systematic effects in large-scale spectroscopic galaxy surveys.
|
||||
|
||||
Key Features
|
||||
------------
|
||||
|
||||
- **Custom hidden-box forward models**
|
||||
We provide a `HiddenBox` class to simulate realistic spectroscopic galaxy surveys. It accommodates fully non-linear gravitational evolution, and incorporates multiple systematic effects observed in real-world survey, e.g., misspecified galaxy bias, survey mask, selection functions, dust extinction, line interlopers, or inaccurate gravity solver.
|
||||
- **Diagnosis of systematic effects**
|
||||
Diagnose the impact of systematic effects using the inferred initial matter power spectrum, prior to performing cosmological inference.
|
||||
- **Cosmological inference**
|
||||
Perform inference of cosmological parameters using Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.
|
||||
|
||||
For practical examples demonstrating how to use SelfiSys, visit the `SelfiSys Examples Repository <https://github.com/hoellin/selfisys_examples>`_.
|
||||
|
||||
References
|
||||
----------
|
||||
|
||||
If you use the SelfiSys package in your research, please cite the following paper and feel free to `contact the authors <mailto:tristan.hoellinger@iap.fr>`_ for feedback, collaboration opportunities, or other inquiries.
|
||||
|
||||
**Diagnosing Systematic Effects Using the Inferred Initial Power Spectrum**
|
||||
*Hoellinger, T. and Leclercq, F., arXiv e-prints*, 2024
|
||||
`arXiv:2412.04443 <https://arxiv.org/abs/2412.04443>`_
|
||||
`[astro-ph.CO] <https://arxiv.org/abs/2412.04443>`_
|
||||
`[ADS] <https://ui.adsabs.harvard.edu/abs/arXiv:2412.04443>`_
|
||||
`[pdf] <https://arxiv.org/pdf/2412.04443>`_
|
||||
|
||||
Contributors
|
||||
------------
|
||||
|
||||
- **Tristan Hoellinger**
|
||||
`tristan.hoellinger@iap.fr <mailto:tristan.hoellinger@iap.fr>`_
|
||||
|
||||
Principal developer and maintainer, Institut d’Astrophysique de Paris (IAP).
|
||||
|
||||
License
|
||||
-------
|
||||
|
||||
This software is distributed under the GPLv3 Licence. Please review the `LICENSE <https://github.com/hoellin/selfisys_public/blob/main/LICENSE>`_ file in the repository to understand the terms of use and ensure compliance. By downloading and using this software, you agree to the terms of the licence.
|
||||
|
||||
Requirements
|
||||
------------
|
||||
|
||||
The code is written in Python 3.10 and depends on the following packages:
|
||||
|
||||
- `pySELFI <https://pyselfi.readthedocs.io/en/latest/>`_: Python implementation of the Simulator Expansion for Likelihood-Free Inference.
|
||||
- `Simbelmynë <https://simbelmyne.readthedocs.io/en/latest/>`_: A hierarchical probabilistic simulator for generating synthetic galaxy survey data.
|
||||
- `ELFI <https://elfi.readthedocs.io/en/latest/>`_: A statistical software package for likelihood-free inference, implementing Approximate Bayesian Computation (ABC) with a Population Monte Carlo (PMC) sampler.
|
||||
|
||||
A comprehensive list of dependencies, along with installation instructions, will be provided in a future release.
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 2
|
||||
:caption: API Documentation
|
||||
|
||||
selfisys.hiddenbox
|
||||
selfisys.normalise_hb
|
||||
selfisys.prior
|
||||
selfisys.selection_functions
|
||||
selfisys.selfi_interface
|
||||
selfisys.sbmy_interface
|
||||
selfisys.grf
|
||||
selfisys.utils
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 2
|
||||
:caption: Contribute
|
||||
|
||||
../../CONTRIBUTING.md
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 2
|
||||
:caption: References
|
||||
|
||||
../../REFERENCES.md
|
||||
7
docs/_sources/selfisys.global_parameters.rst.txt
Normal file
7
docs/_sources/selfisys.global_parameters.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
global_parameters
|
||||
=================
|
||||
|
||||
.. automodule:: selfisys.global_parameters
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.grf.rst.txt
Normal file
7
docs/_sources/selfisys.grf.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
grf
|
||||
===
|
||||
|
||||
.. automodule:: selfisys.grf
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.hiddenbox.rst.txt
Normal file
7
docs/_sources/selfisys.hiddenbox.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
hiddenbox
|
||||
=========
|
||||
|
||||
.. automodule:: selfisys.hiddenbox
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.normalise_hb.rst.txt
Normal file
7
docs/_sources/selfisys.normalise_hb.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
normalise_hb
|
||||
============
|
||||
|
||||
.. automodule:: selfisys.normalise_hb
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.prior.rst.txt
Normal file
7
docs/_sources/selfisys.prior.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
prior
|
||||
=====
|
||||
|
||||
.. automodule:: selfisys.prior
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
93
docs/_sources/selfisys.rst.txt
Normal file
93
docs/_sources/selfisys.rst.txt
Normal file
|
|
@ -0,0 +1,93 @@
|
|||
selfisys package
|
||||
================
|
||||
|
||||
Subpackages
|
||||
-----------
|
||||
|
||||
.. toctree::
|
||||
:maxdepth: 4
|
||||
|
||||
selfisys.utils
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
selfisys.global\_parameters module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: selfisys.global_parameters
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.grf module
|
||||
-------------------
|
||||
|
||||
.. automodule:: selfisys.grf
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.hiddenbox module
|
||||
-------------------------
|
||||
|
||||
.. automodule:: selfisys.hiddenbox
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.normalise\_hb module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: selfisys.normalise_hb
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.prior module
|
||||
---------------------
|
||||
|
||||
.. automodule:: selfisys.prior
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.sbmy\_interface module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: selfisys.sbmy_interface
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.selection\_functions module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: selfisys.selection_functions
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.selfi\_interface module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: selfisys.selfi_interface
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.setup\_model module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: selfisys.setup_model
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Module contents
|
||||
---------------
|
||||
|
||||
.. automodule:: selfisys
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.sbmy_interface.rst.txt
Normal file
7
docs/_sources/selfisys.sbmy_interface.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
sbmy_interface
|
||||
==============
|
||||
|
||||
.. automodule:: selfisys.sbmy_interface
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.selection_functions.rst.txt
Normal file
7
docs/_sources/selfisys.selection_functions.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
selection_functions
|
||||
===================
|
||||
|
||||
.. automodule:: selfisys.selection_functions
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.selfi_interface.rst.txt
Normal file
7
docs/_sources/selfisys.selfi_interface.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
selfi_interface
|
||||
===============
|
||||
|
||||
.. automodule:: selfisys.selfi_interface
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
7
docs/_sources/selfisys.setup_model.rst.txt
Normal file
7
docs/_sources/selfisys.setup_model.rst.txt
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
setup_model
|
||||
===========
|
||||
|
||||
.. automodule:: selfisys.setup_model
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
101
docs/_sources/selfisys.utils.rst.txt
Normal file
101
docs/_sources/selfisys.utils.rst.txt
Normal file
|
|
@ -0,0 +1,101 @@
|
|||
selfisys.utils package
|
||||
======================
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
selfisys.utils.examples\_utils module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.examples_utils
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.logger module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.logger
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.low\_level module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.low_level
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.parser module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.parser
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.path\_utils module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.path_utils
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.plot\_examples module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.plot_examples
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.plot\_params module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.plot_params
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.plot\_utils module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.plot_utils
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.timestepping module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.timestepping
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.tools module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.tools
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
selfisys.utils.workers module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: selfisys.utils.workers
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Module contents
|
||||
---------------
|
||||
|
||||
.. automodule:: selfisys.utils
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
123
docs/_static/_sphinx_javascript_frameworks_compat.js
vendored
Normal file
123
docs/_static/_sphinx_javascript_frameworks_compat.js
vendored
Normal file
|
|
@ -0,0 +1,123 @@
|
|||
/* Compatability shim for jQuery and underscores.js.
|
||||
*
|
||||
* Copyright Sphinx contributors
|
||||
* Released under the two clause BSD licence
|
||||
*/
|
||||
|
||||
/**
|
||||
* small helper function to urldecode strings
|
||||
*
|
||||
* See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL
|
||||
*/
|
||||
jQuery.urldecode = function(x) {
|
||||
if (!x) {
|
||||
return x
|
||||
}
|
||||
return decodeURIComponent(x.replace(/\+/g, ' '));
|
||||
};
|
||||
|
||||
/**
|
||||
* small helper function to urlencode strings
|
||||
*/
|
||||
jQuery.urlencode = encodeURIComponent;
|
||||
|
||||
/**
|
||||
* This function returns the parsed url parameters of the
|
||||
* current request. Multiple values per key are supported,
|
||||
* it will always return arrays of strings for the value parts.
|
||||
*/
|
||||
jQuery.getQueryParameters = function(s) {
|
||||
if (typeof s === 'undefined')
|
||||
s = document.location.search;
|
||||
var parts = s.substr(s.indexOf('?') + 1).split('&');
|
||||
var result = {};
|
||||
for (var i = 0; i < parts.length; i++) {
|
||||
var tmp = parts[i].split('=', 2);
|
||||
var key = jQuery.urldecode(tmp[0]);
|
||||
var value = jQuery.urldecode(tmp[1]);
|
||||
if (key in result)
|
||||
result[key].push(value);
|
||||
else
|
||||
result[key] = [value];
|
||||
}
|
||||
return result;
|
||||
};
|
||||
|
||||
/**
|
||||
* highlight a given string on a jquery object by wrapping it in
|
||||
* span elements with the given class name.
|
||||
*/
|
||||
jQuery.fn.highlightText = function(text, className) {
|
||||
function highlight(node, addItems) {
|
||||
if (node.nodeType === 3) {
|
||||
var val = node.nodeValue;
|
||||
var pos = val.toLowerCase().indexOf(text);
|
||||
if (pos >= 0 &&
|
||||
!jQuery(node.parentNode).hasClass(className) &&
|
||||
!jQuery(node.parentNode).hasClass("nohighlight")) {
|
||||
var span;
|
||||
var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg");
|
||||
if (isInSVG) {
|
||||
span = document.createElementNS("http://www.w3.org/2000/svg", "tspan");
|
||||
} else {
|
||||
span = document.createElement("span");
|
||||
span.className = className;
|
||||
}
|
||||
span.appendChild(document.createTextNode(val.substr(pos, text.length)));
|
||||
node.parentNode.insertBefore(span, node.parentNode.insertBefore(
|
||||
document.createTextNode(val.substr(pos + text.length)),
|
||||
node.nextSibling));
|
||||
node.nodeValue = val.substr(0, pos);
|
||||
if (isInSVG) {
|
||||
var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect");
|
||||
var bbox = node.parentElement.getBBox();
|
||||
rect.x.baseVal.value = bbox.x;
|
||||
rect.y.baseVal.value = bbox.y;
|
||||
rect.width.baseVal.value = bbox.width;
|
||||
rect.height.baseVal.value = bbox.height;
|
||||
rect.setAttribute('class', className);
|
||||
addItems.push({
|
||||
"parent": node.parentNode,
|
||||
"target": rect});
|
||||
}
|
||||
}
|
||||
}
|
||||
else if (!jQuery(node).is("button, select, textarea")) {
|
||||
jQuery.each(node.childNodes, function() {
|
||||
highlight(this, addItems);
|
||||
});
|
||||
}
|
||||
}
|
||||
var addItems = [];
|
||||
var result = this.each(function() {
|
||||
highlight(this, addItems);
|
||||
});
|
||||
for (var i = 0; i < addItems.length; ++i) {
|
||||
jQuery(addItems[i].parent).before(addItems[i].target);
|
||||
}
|
||||
return result;
|
||||
};
|
||||
|
||||
/*
|
||||
* backward compatibility for jQuery.browser
|
||||
* This will be supported until firefox bug is fixed.
|
||||
*/
|
||||
if (!jQuery.browser) {
|
||||
jQuery.uaMatch = function(ua) {
|
||||
ua = ua.toLowerCase();
|
||||
|
||||
var match = /(chrome)[ \/]([\w.]+)/.exec(ua) ||
|
||||
/(webkit)[ \/]([\w.]+)/.exec(ua) ||
|
||||
/(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) ||
|
||||
/(msie) ([\w.]+)/.exec(ua) ||
|
||||
ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) ||
|
||||
[];
|
||||
|
||||
return {
|
||||
browser: match[ 1 ] || "",
|
||||
version: match[ 2 ] || "0"
|
||||
};
|
||||
};
|
||||
jQuery.browser = {};
|
||||
jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true;
|
||||
}
|
||||
914
docs/_static/basic.css
vendored
Normal file
914
docs/_static/basic.css
vendored
Normal file
|
|
@ -0,0 +1,914 @@
|
|||
/*
|
||||
* Sphinx stylesheet -- basic theme.
|
||||
*/
|
||||
|
||||
/* -- main layout ----------------------------------------------------------- */
|
||||
|
||||
div.clearer {
|
||||
clear: both;
|
||||
}
|
||||
|
||||
div.section::after {
|
||||
display: block;
|
||||
content: '';
|
||||
clear: left;
|
||||
}
|
||||
|
||||
/* -- relbar ---------------------------------------------------------------- */
|
||||
|
||||
div.related {
|
||||
width: 100%;
|
||||
font-size: 90%;
|
||||
}
|
||||
|
||||
div.related h3 {
|
||||
display: none;
|
||||
}
|
||||
|
||||
div.related ul {
|
||||
margin: 0;
|
||||
padding: 0 0 0 10px;
|
||||
list-style: none;
|
||||
}
|
||||
|
||||
div.related li {
|
||||
display: inline;
|
||||
}
|
||||
|
||||
div.related li.right {
|
||||
float: right;
|
||||
margin-right: 5px;
|
||||
}
|
||||
|
||||
/* -- sidebar --------------------------------------------------------------- */
|
||||
|
||||
div.sphinxsidebarwrapper {
|
||||
padding: 10px 5px 0 10px;
|
||||
}
|
||||
|
||||
div.sphinxsidebar {
|
||||
float: left;
|
||||
width: 230px;
|
||||
margin-left: -100%;
|
||||
font-size: 90%;
|
||||
word-wrap: break-word;
|
||||
overflow-wrap : break-word;
|
||||
}
|
||||
|
||||
div.sphinxsidebar ul {
|
||||
list-style: none;
|
||||
}
|
||||
|
||||
div.sphinxsidebar ul ul,
|
||||
div.sphinxsidebar ul.want-points {
|
||||
margin-left: 20px;
|
||||
list-style: square;
|
||||
}
|
||||
|
||||
div.sphinxsidebar ul ul {
|
||||
margin-top: 0;
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
div.sphinxsidebar form {
|
||||
margin-top: 10px;
|
||||
}
|
||||
|
||||
div.sphinxsidebar input {
|
||||
border: 1px solid #98dbcc;
|
||||
font-family: sans-serif;
|
||||
font-size: 1em;
|
||||
}
|
||||
|
||||
div.sphinxsidebar #searchbox form.search {
|
||||
overflow: hidden;
|
||||
}
|
||||
|
||||
div.sphinxsidebar #searchbox input[type="text"] {
|
||||
float: left;
|
||||
width: 80%;
|
||||
padding: 0.25em;
|
||||
box-sizing: border-box;
|
||||
}
|
||||
|
||||
div.sphinxsidebar #searchbox input[type="submit"] {
|
||||
float: left;
|
||||
width: 20%;
|
||||
border-left: none;
|
||||
padding: 0.25em;
|
||||
box-sizing: border-box;
|
||||
}
|
||||
|
||||
|
||||
img {
|
||||
border: 0;
|
||||
max-width: 100%;
|
||||
}
|
||||
|
||||
/* -- search page ----------------------------------------------------------- */
|
||||
|
||||
ul.search {
|
||||
margin-top: 10px;
|
||||
}
|
||||
|
||||
ul.search li {
|
||||
padding: 5px 0;
|
||||
}
|
||||
|
||||
ul.search li a {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
ul.search li p.context {
|
||||
color: #888;
|
||||
margin: 2px 0 0 30px;
|
||||
text-align: left;
|
||||
}
|
||||
|
||||
ul.keywordmatches li.goodmatch a {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
/* -- index page ------------------------------------------------------------ */
|
||||
|
||||
table.contentstable {
|
||||
width: 90%;
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
table.contentstable p.biglink {
|
||||
line-height: 150%;
|
||||
}
|
||||
|
||||
a.biglink {
|
||||
font-size: 1.3em;
|
||||
}
|
||||
|
||||
span.linkdescr {
|
||||
font-style: italic;
|
||||
padding-top: 5px;
|
||||
font-size: 90%;
|
||||
}
|
||||
|
||||
/* -- general index --------------------------------------------------------- */
|
||||
|
||||
table.indextable {
|
||||
width: 100%;
|
||||
}
|
||||
|
||||
table.indextable td {
|
||||
text-align: left;
|
||||
vertical-align: top;
|
||||
}
|
||||
|
||||
table.indextable ul {
|
||||
margin-top: 0;
|
||||
margin-bottom: 0;
|
||||
list-style-type: none;
|
||||
}
|
||||
|
||||
table.indextable > tbody > tr > td > ul {
|
||||
padding-left: 0em;
|
||||
}
|
||||
|
||||
table.indextable tr.pcap {
|
||||
height: 10px;
|
||||
}
|
||||
|
||||
table.indextable tr.cap {
|
||||
margin-top: 10px;
|
||||
background-color: #f2f2f2;
|
||||
}
|
||||
|
||||
img.toggler {
|
||||
margin-right: 3px;
|
||||
margin-top: 3px;
|
||||
cursor: pointer;
|
||||
}
|
||||
|
||||
div.modindex-jumpbox {
|
||||
border-top: 1px solid #ddd;
|
||||
border-bottom: 1px solid #ddd;
|
||||
margin: 1em 0 1em 0;
|
||||
padding: 0.4em;
|
||||
}
|
||||
|
||||
div.genindex-jumpbox {
|
||||
border-top: 1px solid #ddd;
|
||||
border-bottom: 1px solid #ddd;
|
||||
margin: 1em 0 1em 0;
|
||||
padding: 0.4em;
|
||||
}
|
||||
|
||||
/* -- domain module index --------------------------------------------------- */
|
||||
|
||||
table.modindextable td {
|
||||
padding: 2px;
|
||||
border-collapse: collapse;
|
||||
}
|
||||
|
||||
/* -- general body styles --------------------------------------------------- */
|
||||
|
||||
div.body {
|
||||
min-width: 360px;
|
||||
max-width: 800px;
|
||||
}
|
||||
|
||||
div.body p, div.body dd, div.body li, div.body blockquote {
|
||||
-moz-hyphens: auto;
|
||||
-ms-hyphens: auto;
|
||||
-webkit-hyphens: auto;
|
||||
hyphens: auto;
|
||||
}
|
||||
|
||||
a.headerlink {
|
||||
visibility: hidden;
|
||||
}
|
||||
|
||||
a:visited {
|
||||
color: #551A8B;
|
||||
}
|
||||
|
||||
h1:hover > a.headerlink,
|
||||
h2:hover > a.headerlink,
|
||||
h3:hover > a.headerlink,
|
||||
h4:hover > a.headerlink,
|
||||
h5:hover > a.headerlink,
|
||||
h6:hover > a.headerlink,
|
||||
dt:hover > a.headerlink,
|
||||
caption:hover > a.headerlink,
|
||||
p.caption:hover > a.headerlink,
|
||||
div.code-block-caption:hover > a.headerlink {
|
||||
visibility: visible;
|
||||
}
|
||||
|
||||
div.body p.caption {
|
||||
text-align: inherit;
|
||||
}
|
||||
|
||||
div.body td {
|
||||
text-align: left;
|
||||
}
|
||||
|
||||
.first {
|
||||
margin-top: 0 !important;
|
||||
}
|
||||
|
||||
p.rubric {
|
||||
margin-top: 30px;
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
img.align-left, figure.align-left, .figure.align-left, object.align-left {
|
||||
clear: left;
|
||||
float: left;
|
||||
margin-right: 1em;
|
||||
}
|
||||
|
||||
img.align-right, figure.align-right, .figure.align-right, object.align-right {
|
||||
clear: right;
|
||||
float: right;
|
||||
margin-left: 1em;
|
||||
}
|
||||
|
||||
img.align-center, figure.align-center, .figure.align-center, object.align-center {
|
||||
display: block;
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
img.align-default, figure.align-default, .figure.align-default {
|
||||
display: block;
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
.align-left {
|
||||
text-align: left;
|
||||
}
|
||||
|
||||
.align-center {
|
||||
text-align: center;
|
||||
}
|
||||
|
||||
.align-default {
|
||||
text-align: center;
|
||||
}
|
||||
|
||||
.align-right {
|
||||
text-align: right;
|
||||
}
|
||||
|
||||
/* -- sidebars -------------------------------------------------------------- */
|
||||
|
||||
div.sidebar,
|
||||
aside.sidebar {
|
||||
margin: 0 0 0.5em 1em;
|
||||
border: 1px solid #ddb;
|
||||
padding: 7px;
|
||||
background-color: #ffe;
|
||||
width: 40%;
|
||||
float: right;
|
||||
clear: right;
|
||||
overflow-x: auto;
|
||||
}
|
||||
|
||||
p.sidebar-title {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
nav.contents,
|
||||
aside.topic,
|
||||
div.admonition, div.topic, blockquote {
|
||||
clear: left;
|
||||
}
|
||||
|
||||
/* -- topics ---------------------------------------------------------------- */
|
||||
|
||||
nav.contents,
|
||||
aside.topic,
|
||||
div.topic {
|
||||
border: 1px solid #ccc;
|
||||
padding: 7px;
|
||||
margin: 10px 0 10px 0;
|
||||
}
|
||||
|
||||
p.topic-title {
|
||||
font-size: 1.1em;
|
||||
font-weight: bold;
|
||||
margin-top: 10px;
|
||||
}
|
||||
|
||||
/* -- admonitions ----------------------------------------------------------- */
|
||||
|
||||
div.admonition {
|
||||
margin-top: 10px;
|
||||
margin-bottom: 10px;
|
||||
padding: 7px;
|
||||
}
|
||||
|
||||
div.admonition dt {
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
p.admonition-title {
|
||||
margin: 0px 10px 5px 0px;
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
div.body p.centered {
|
||||
text-align: center;
|
||||
margin-top: 25px;
|
||||
}
|
||||
|
||||
/* -- content of sidebars/topics/admonitions -------------------------------- */
|
||||
|
||||
div.sidebar > :last-child,
|
||||
aside.sidebar > :last-child,
|
||||
nav.contents > :last-child,
|
||||
aside.topic > :last-child,
|
||||
div.topic > :last-child,
|
||||
div.admonition > :last-child {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
div.sidebar::after,
|
||||
aside.sidebar::after,
|
||||
nav.contents::after,
|
||||
aside.topic::after,
|
||||
div.topic::after,
|
||||
div.admonition::after,
|
||||
blockquote::after {
|
||||
display: block;
|
||||
content: '';
|
||||
clear: both;
|
||||
}
|
||||
|
||||
/* -- tables ---------------------------------------------------------------- */
|
||||
|
||||
table.docutils {
|
||||
margin-top: 10px;
|
||||
margin-bottom: 10px;
|
||||
border: 0;
|
||||
border-collapse: collapse;
|
||||
}
|
||||
|
||||
table.align-center {
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
table.align-default {
|
||||
margin-left: auto;
|
||||
margin-right: auto;
|
||||
}
|
||||
|
||||
table caption span.caption-number {
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
table caption span.caption-text {
|
||||
}
|
||||
|
||||
table.docutils td, table.docutils th {
|
||||
padding: 1px 8px 1px 5px;
|
||||
border-top: 0;
|
||||
border-left: 0;
|
||||
border-right: 0;
|
||||
border-bottom: 1px solid #aaa;
|
||||
}
|
||||
|
||||
th {
|
||||
text-align: left;
|
||||
padding-right: 5px;
|
||||
}
|
||||
|
||||
table.citation {
|
||||
border-left: solid 1px gray;
|
||||
margin-left: 1px;
|
||||
}
|
||||
|
||||
table.citation td {
|
||||
border-bottom: none;
|
||||
}
|
||||
|
||||
th > :first-child,
|
||||
td > :first-child {
|
||||
margin-top: 0px;
|
||||
}
|
||||
|
||||
th > :last-child,
|
||||
td > :last-child {
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
/* -- figures --------------------------------------------------------------- */
|
||||
|
||||
div.figure, figure {
|
||||
margin: 0.5em;
|
||||
padding: 0.5em;
|
||||
}
|
||||
|
||||
div.figure p.caption, figcaption {
|
||||
padding: 0.3em;
|
||||
}
|
||||
|
||||
div.figure p.caption span.caption-number,
|
||||
figcaption span.caption-number {
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
div.figure p.caption span.caption-text,
|
||||
figcaption span.caption-text {
|
||||
}
|
||||
|
||||
/* -- field list styles ----------------------------------------------------- */
|
||||
|
||||
table.field-list td, table.field-list th {
|
||||
border: 0 !important;
|
||||
}
|
||||
|
||||
.field-list ul {
|
||||
margin: 0;
|
||||
padding-left: 1em;
|
||||
}
|
||||
|
||||
.field-list p {
|
||||
margin: 0;
|
||||
}
|
||||
|
||||
.field-name {
|
||||
-moz-hyphens: manual;
|
||||
-ms-hyphens: manual;
|
||||
-webkit-hyphens: manual;
|
||||
hyphens: manual;
|
||||
}
|
||||
|
||||
/* -- hlist styles ---------------------------------------------------------- */
|
||||
|
||||
table.hlist {
|
||||
margin: 1em 0;
|
||||
}
|
||||
|
||||
table.hlist td {
|
||||
vertical-align: top;
|
||||
}
|
||||
|
||||
/* -- object description styles --------------------------------------------- */
|
||||
|
||||
.sig {
|
||||
font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace;
|
||||
}
|
||||
|
||||
.sig-name, code.descname {
|
||||
background-color: transparent;
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
.sig-name {
|
||||
font-size: 1.1em;
|
||||
}
|
||||
|
||||
code.descname {
|
||||
font-size: 1.2em;
|
||||
}
|
||||
|
||||
.sig-prename, code.descclassname {
|
||||
background-color: transparent;
|
||||
}
|
||||
|
||||
.optional {
|
||||
font-size: 1.3em;
|
||||
}
|
||||
|
||||
.sig-paren {
|
||||
font-size: larger;
|
||||
}
|
||||
|
||||
.sig-param.n {
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
/* C++ specific styling */
|
||||
|
||||
.sig-inline.c-texpr,
|
||||
.sig-inline.cpp-texpr {
|
||||
font-family: unset;
|
||||
}
|
||||
|
||||
.sig.c .k, .sig.c .kt,
|
||||
.sig.cpp .k, .sig.cpp .kt {
|
||||
color: #0033B3;
|
||||
}
|
||||
|
||||
.sig.c .m,
|
||||
.sig.cpp .m {
|
||||
color: #1750EB;
|
||||
}
|
||||
|
||||
.sig.c .s, .sig.c .sc,
|
||||
.sig.cpp .s, .sig.cpp .sc {
|
||||
color: #067D17;
|
||||
}
|
||||
|
||||
|
||||
/* -- other body styles ----------------------------------------------------- */
|
||||
|
||||
ol.arabic {
|
||||
list-style: decimal;
|
||||
}
|
||||
|
||||
ol.loweralpha {
|
||||
list-style: lower-alpha;
|
||||
}
|
||||
|
||||
ol.upperalpha {
|
||||
list-style: upper-alpha;
|
||||
}
|
||||
|
||||
ol.lowerroman {
|
||||
list-style: lower-roman;
|
||||
}
|
||||
|
||||
ol.upperroman {
|
||||
list-style: upper-roman;
|
||||
}
|
||||
|
||||
:not(li) > ol > li:first-child > :first-child,
|
||||
:not(li) > ul > li:first-child > :first-child {
|
||||
margin-top: 0px;
|
||||
}
|
||||
|
||||
:not(li) > ol > li:last-child > :last-child,
|
||||
:not(li) > ul > li:last-child > :last-child {
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
ol.simple ol p,
|
||||
ol.simple ul p,
|
||||
ul.simple ol p,
|
||||
ul.simple ul p {
|
||||
margin-top: 0;
|
||||
}
|
||||
|
||||
ol.simple > li:not(:first-child) > p,
|
||||
ul.simple > li:not(:first-child) > p {
|
||||
margin-top: 0;
|
||||
}
|
||||
|
||||
ol.simple p,
|
||||
ul.simple p {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
aside.footnote > span,
|
||||
div.citation > span {
|
||||
float: left;
|
||||
}
|
||||
aside.footnote > span:last-of-type,
|
||||
div.citation > span:last-of-type {
|
||||
padding-right: 0.5em;
|
||||
}
|
||||
aside.footnote > p {
|
||||
margin-left: 2em;
|
||||
}
|
||||
div.citation > p {
|
||||
margin-left: 4em;
|
||||
}
|
||||
aside.footnote > p:last-of-type,
|
||||
div.citation > p:last-of-type {
|
||||
margin-bottom: 0em;
|
||||
}
|
||||
aside.footnote > p:last-of-type:after,
|
||||
div.citation > p:last-of-type:after {
|
||||
content: "";
|
||||
clear: both;
|
||||
}
|
||||
|
||||
dl.field-list {
|
||||
display: grid;
|
||||
grid-template-columns: fit-content(30%) auto;
|
||||
}
|
||||
|
||||
dl.field-list > dt {
|
||||
font-weight: bold;
|
||||
word-break: break-word;
|
||||
padding-left: 0.5em;
|
||||
padding-right: 5px;
|
||||
}
|
||||
|
||||
dl.field-list > dd {
|
||||
padding-left: 0.5em;
|
||||
margin-top: 0em;
|
||||
margin-left: 0em;
|
||||
margin-bottom: 0em;
|
||||
}
|
||||
|
||||
dl {
|
||||
margin-bottom: 15px;
|
||||
}
|
||||
|
||||
dd > :first-child {
|
||||
margin-top: 0px;
|
||||
}
|
||||
|
||||
dd ul, dd table {
|
||||
margin-bottom: 10px;
|
||||
}
|
||||
|
||||
dd {
|
||||
margin-top: 3px;
|
||||
margin-bottom: 10px;
|
||||
margin-left: 30px;
|
||||
}
|
||||
|
||||
.sig dd {
|
||||
margin-top: 0px;
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
.sig dl {
|
||||
margin-top: 0px;
|
||||
margin-bottom: 0px;
|
||||
}
|
||||
|
||||
dl > dd:last-child,
|
||||
dl > dd:last-child > :last-child {
|
||||
margin-bottom: 0;
|
||||
}
|
||||
|
||||
dt:target, span.highlighted {
|
||||
background-color: #fbe54e;
|
||||
}
|
||||
|
||||
rect.highlighted {
|
||||
fill: #fbe54e;
|
||||
}
|
||||
|
||||
dl.glossary dt {
|
||||
font-weight: bold;
|
||||
font-size: 1.1em;
|
||||
}
|
||||
|
||||
.versionmodified {
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
.system-message {
|
||||
background-color: #fda;
|
||||
padding: 5px;
|
||||
border: 3px solid red;
|
||||
}
|
||||
|
||||
.footnote:target {
|
||||
background-color: #ffa;
|
||||
}
|
||||
|
||||
.line-block {
|
||||
display: block;
|
||||
margin-top: 1em;
|
||||
margin-bottom: 1em;
|
||||
}
|
||||
|
||||
.line-block .line-block {
|
||||
margin-top: 0;
|
||||
margin-bottom: 0;
|
||||
margin-left: 1.5em;
|
||||
}
|
||||
|
||||
.guilabel, .menuselection {
|
||||
font-family: sans-serif;
|
||||
}
|
||||
|
||||
.accelerator {
|
||||
text-decoration: underline;
|
||||
}
|
||||
|
||||
.classifier {
|
||||
font-style: oblique;
|
||||
}
|
||||
|
||||
.classifier:before {
|
||||
font-style: normal;
|
||||
margin: 0 0.5em;
|
||||
content: ":";
|
||||
display: inline-block;
|
||||
}
|
||||
|
||||
abbr, acronym {
|
||||
border-bottom: dotted 1px;
|
||||
cursor: help;
|
||||
}
|
||||
|
||||
.translated {
|
||||
background-color: rgba(207, 255, 207, 0.2)
|
||||
}
|
||||
|
||||
.untranslated {
|
||||
background-color: rgba(255, 207, 207, 0.2)
|
||||
}
|
||||
|
||||
/* -- code displays --------------------------------------------------------- */
|
||||
|
||||
pre {
|
||||
overflow: auto;
|
||||
overflow-y: hidden; /* fixes display issues on Chrome browsers */
|
||||
}
|
||||
|
||||
pre, div[class*="highlight-"] {
|
||||
clear: both;
|
||||
}
|
||||
|
||||
span.pre {
|
||||
-moz-hyphens: none;
|
||||
-ms-hyphens: none;
|
||||
-webkit-hyphens: none;
|
||||
hyphens: none;
|
||||
white-space: nowrap;
|
||||
}
|
||||
|
||||
div[class*="highlight-"] {
|
||||
margin: 1em 0;
|
||||
}
|
||||
|
||||
td.linenos pre {
|
||||
border: 0;
|
||||
background-color: transparent;
|
||||
color: #aaa;
|
||||
}
|
||||
|
||||
table.highlighttable {
|
||||
display: block;
|
||||
}
|
||||
|
||||
table.highlighttable tbody {
|
||||
display: block;
|
||||
}
|
||||
|
||||
table.highlighttable tr {
|
||||
display: flex;
|
||||
}
|
||||
|
||||
table.highlighttable td {
|
||||
margin: 0;
|
||||
padding: 0;
|
||||
}
|
||||
|
||||
table.highlighttable td.linenos {
|
||||
padding-right: 0.5em;
|
||||
}
|
||||
|
||||
table.highlighttable td.code {
|
||||
flex: 1;
|
||||
overflow: hidden;
|
||||
}
|
||||
|
||||
.highlight .hll {
|
||||
display: block;
|
||||
}
|
||||
|
||||
div.highlight pre,
|
||||
table.highlighttable pre {
|
||||
margin: 0;
|
||||
}
|
||||
|
||||
div.code-block-caption + div {
|
||||
margin-top: 0;
|
||||
}
|
||||
|
||||
div.code-block-caption {
|
||||
margin-top: 1em;
|
||||
padding: 2px 5px;
|
||||
font-size: small;
|
||||
}
|
||||
|
||||
div.code-block-caption code {
|
||||
background-color: transparent;
|
||||
}
|
||||
|
||||
table.highlighttable td.linenos,
|
||||
span.linenos,
|
||||
div.highlight span.gp { /* gp: Generic.Prompt */
|
||||
user-select: none;
|
||||
-webkit-user-select: text; /* Safari fallback only */
|
||||
-webkit-user-select: none; /* Chrome/Safari */
|
||||
-moz-user-select: none; /* Firefox */
|
||||
-ms-user-select: none; /* IE10+ */
|
||||
}
|
||||
|
||||
div.code-block-caption span.caption-number {
|
||||
padding: 0.1em 0.3em;
|
||||
font-style: italic;
|
||||
}
|
||||
|
||||
div.code-block-caption span.caption-text {
|
||||
}
|
||||
|
||||
div.literal-block-wrapper {
|
||||
margin: 1em 0;
|
||||
}
|
||||
|
||||
code.xref, a code {
|
||||
background-color: transparent;
|
||||
font-weight: bold;
|
||||
}
|
||||
|
||||
h1 code, h2 code, h3 code, h4 code, h5 code, h6 code {
|
||||
background-color: transparent;
|
||||
}
|
||||
|
||||
.viewcode-link {
|
||||
float: right;
|
||||
}
|
||||
|
||||
.viewcode-back {
|
||||
float: right;
|
||||
font-family: sans-serif;
|
||||
}
|
||||
|
||||
div.viewcode-block:target {
|
||||
margin: -1px -10px;
|
||||
padding: 0 10px;
|
||||
}
|
||||
|
||||
/* -- math display ---------------------------------------------------------- */
|
||||
|
||||
img.math {
|
||||
vertical-align: middle;
|
||||
}
|
||||
|
||||
div.body div.math p {
|
||||
text-align: center;
|
||||
}
|
||||
|
||||
span.eqno {
|
||||
float: right;
|
||||
}
|
||||
|
||||
span.eqno a.headerlink {
|
||||
position: absolute;
|
||||
z-index: 1;
|
||||
}
|
||||
|
||||
div.math:hover a.headerlink {
|
||||
visibility: visible;
|
||||
}
|
||||
|
||||
/* -- printout stylesheet --------------------------------------------------- */
|
||||
|
||||
@media print {
|
||||
div.document,
|
||||
div.documentwrapper,
|
||||
div.bodywrapper {
|
||||
margin: 0 !important;
|
||||
width: 100%;
|
||||
}
|
||||
|
||||
div.sphinxsidebar,
|
||||
div.related,
|
||||
div.footer,
|
||||
#top-link {
|
||||
display: none;
|
||||
}
|
||||
}
|
||||
1
docs/_static/css/badge_only.css
vendored
Normal file
1
docs/_static/css/badge_only.css
vendored
Normal file
|
|
@ -0,0 +1 @@
|
|||
.clearfix{*zoom:1}.clearfix:after,.clearfix:before{display:table;content:""}.clearfix:after{clear:both}@font-face{font-family:FontAwesome;font-style:normal;font-weight:400;src:url(fonts/fontawesome-webfont.eot?674f50d287a8c48dc19ba404d20fe713?#iefix) format("embedded-opentype"),url(fonts/fontawesome-webfont.woff2?af7ae505a9eed503f8b8e6982036873e) format("woff2"),url(fonts/fontawesome-webfont.woff?fee66e712a8a08eef5805a46892932ad) format("woff"),url(fonts/fontawesome-webfont.ttf?b06871f281fee6b241d60582ae9369b9) format("truetype"),url(fonts/fontawesome-webfont.svg?912ec66d7572ff821749319396470bde#FontAwesome) format("svg")}.fa:before{font-family:FontAwesome;font-style:normal;font-weight:400;line-height:1}.fa:before,a .fa{text-decoration:inherit}.fa:before,a .fa,li .fa{display:inline-block}li .fa-large:before{width:1.875em}ul.fas{list-style-type:none;margin-left:2em;text-indent:-.8em}ul.fas li .fa{width:.8em}ul.fas li .fa-large:before{vertical-align:baseline}.fa-book:before,.icon-book:before{content:"\f02d"}.fa-caret-down:before,.icon-caret-down:before{content:"\f0d7"}.fa-caret-up:before,.icon-caret-up:before{content:"\f0d8"}.fa-caret-left:before,.icon-caret-left:before{content:"\f0d9"}.fa-caret-right:before,.icon-caret-right:before{content:"\f0da"}.rst-versions{position:fixed;bottom:0;left:0;width:300px;color:#fcfcfc;background:#1f1d1d;font-family:Lato,proxima-nova,Helvetica Neue,Arial,sans-serif;z-index:400}.rst-versions a{color:#2980b9;text-decoration:none}.rst-versions .rst-badge-small{display:none}.rst-versions .rst-current-version{padding:12px;background-color:#272525;display:block;text-align:right;font-size:90%;cursor:pointer;color:#27ae60}.rst-versions .rst-current-version:after{clear:both;content:"";display:block}.rst-versions .rst-current-version .fa{color:#fcfcfc}.rst-versions .rst-current-version .fa-book,.rst-versions .rst-current-version .icon-book{float:left}.rst-versions .rst-current-version.rst-out-of-date{background-color:#e74c3c;color:#fff}.rst-versions .rst-current-version.rst-active-old-version{background-color:#f1c40f;color:#000}.rst-versions.shift-up{height:auto;max-height:100%;overflow-y:scroll}.rst-versions.shift-up .rst-other-versions{display:block}.rst-versions .rst-other-versions{font-size:90%;padding:12px;color:grey;display:none}.rst-versions .rst-other-versions hr{display:block;height:1px;border:0;margin:20px 0;padding:0;border-top:1px solid #413d3d}.rst-versions .rst-other-versions dd{display:inline-block;margin:0}.rst-versions .rst-other-versions dd a{display:inline-block;padding:6px;color:#fcfcfc}.rst-versions .rst-other-versions .rtd-current-item{font-weight:700}.rst-versions.rst-badge{width:auto;bottom:20px;right:20px;left:auto;border:none;max-width:300px;max-height:90%}.rst-versions.rst-badge .fa-book,.rst-versions.rst-badge .icon-book{float:none;line-height:30px}.rst-versions.rst-badge.shift-up .rst-current-version{text-align:right}.rst-versions.rst-badge.shift-up .rst-current-version .fa-book,.rst-versions.rst-badge.shift-up .rst-current-version .icon-book{float:left}.rst-versions.rst-badge>.rst-current-version{width:auto;height:30px;line-height:30px;padding:0 6px;display:block;text-align:center}@media screen and (max-width:768px){.rst-versions{width:85%;display:none}.rst-versions.shift{display:block}}#flyout-search-form{padding:6px}
|
||||
BIN
docs/_static/css/fonts/Roboto-Slab-Bold.woff
vendored
Normal file
BIN
docs/_static/css/fonts/Roboto-Slab-Bold.woff
vendored
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docs/_static/css/fonts/Roboto-Slab-Bold.woff2
vendored
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docs/_static/css/fonts/Roboto-Slab-Bold.woff2
vendored
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BIN
docs/_static/css/fonts/Roboto-Slab-Regular.woff
vendored
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docs/_static/css/fonts/Roboto-Slab-Regular.woff
vendored
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docs/_static/css/fonts/Roboto-Slab-Regular.woff2
vendored
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docs/_static/css/fonts/Roboto-Slab-Regular.woff2
vendored
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Binary file not shown.
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docs/_static/css/fonts/fontawesome-webfont.eot
vendored
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BIN
docs/_static/css/fonts/fontawesome-webfont.eot
vendored
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Binary file not shown.
2671
docs/_static/css/fonts/fontawesome-webfont.svg
vendored
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2671
docs/_static/css/fonts/fontawesome-webfont.svg
vendored
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File diff suppressed because it is too large
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|
After Width: | Height: | Size: 434 KiB |
BIN
docs/_static/css/fonts/fontawesome-webfont.ttf
vendored
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docs/_static/css/fonts/fontawesome-webfont.ttf
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/fontawesome-webfont.woff
vendored
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docs/_static/css/fonts/fontawesome-webfont.woff
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/fontawesome-webfont.woff2
vendored
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BIN
docs/_static/css/fonts/fontawesome-webfont.woff2
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/lato-bold-italic.woff
vendored
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BIN
docs/_static/css/fonts/lato-bold-italic.woff
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/lato-bold-italic.woff2
vendored
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docs/_static/css/fonts/lato-bold-italic.woff2
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/lato-bold.woff
vendored
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docs/_static/css/fonts/lato-bold.woff
vendored
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BIN
docs/_static/css/fonts/lato-bold.woff2
vendored
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docs/_static/css/fonts/lato-bold.woff2
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/lato-normal-italic.woff
vendored
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docs/_static/css/fonts/lato-normal-italic.woff
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/lato-normal-italic.woff2
vendored
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docs/_static/css/fonts/lato-normal-italic.woff2
vendored
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Binary file not shown.
BIN
docs/_static/css/fonts/lato-normal.woff
vendored
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docs/_static/css/fonts/lato-normal.woff
vendored
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docs/_static/css/fonts/lato-normal.woff2
vendored
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docs/_static/css/fonts/lato-normal.woff2
vendored
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4
docs/_static/css/theme.css
vendored
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4
docs/_static/css/theme.css
vendored
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File diff suppressed because one or more lines are too long
149
docs/_static/doctools.js
vendored
Normal file
149
docs/_static/doctools.js
vendored
Normal file
|
|
@ -0,0 +1,149 @@
|
|||
/*
|
||||
* Base JavaScript utilities for all Sphinx HTML documentation.
|
||||
*/
|
||||
"use strict";
|
||||
|
||||
const BLACKLISTED_KEY_CONTROL_ELEMENTS = new Set([
|
||||
"TEXTAREA",
|
||||
"INPUT",
|
||||
"SELECT",
|
||||
"BUTTON",
|
||||
]);
|
||||
|
||||
const _ready = (callback) => {
|
||||
if (document.readyState !== "loading") {
|
||||
callback();
|
||||
} else {
|
||||
document.addEventListener("DOMContentLoaded", callback);
|
||||
}
|
||||
};
|
||||
|
||||
/**
|
||||
* Small JavaScript module for the documentation.
|
||||
*/
|
||||
const Documentation = {
|
||||
init: () => {
|
||||
Documentation.initDomainIndexTable();
|
||||
Documentation.initOnKeyListeners();
|
||||
},
|
||||
|
||||
/**
|
||||
* i18n support
|
||||
*/
|
||||
TRANSLATIONS: {},
|
||||
PLURAL_EXPR: (n) => (n === 1 ? 0 : 1),
|
||||
LOCALE: "unknown",
|
||||
|
||||
// gettext and ngettext don't access this so that the functions
|
||||
// can safely bound to a different name (_ = Documentation.gettext)
|
||||
gettext: (string) => {
|
||||
const translated = Documentation.TRANSLATIONS[string];
|
||||
switch (typeof translated) {
|
||||
case "undefined":
|
||||
return string; // no translation
|
||||
case "string":
|
||||
return translated; // translation exists
|
||||
default:
|
||||
return translated[0]; // (singular, plural) translation tuple exists
|
||||
}
|
||||
},
|
||||
|
||||
ngettext: (singular, plural, n) => {
|
||||
const translated = Documentation.TRANSLATIONS[singular];
|
||||
if (typeof translated !== "undefined")
|
||||
return translated[Documentation.PLURAL_EXPR(n)];
|
||||
return n === 1 ? singular : plural;
|
||||
},
|
||||
|
||||
addTranslations: (catalog) => {
|
||||
Object.assign(Documentation.TRANSLATIONS, catalog.messages);
|
||||
Documentation.PLURAL_EXPR = new Function(
|
||||
"n",
|
||||
`return (${catalog.plural_expr})`
|
||||
);
|
||||
Documentation.LOCALE = catalog.locale;
|
||||
},
|
||||
|
||||
/**
|
||||
* helper function to focus on search bar
|
||||
*/
|
||||
focusSearchBar: () => {
|
||||
document.querySelectorAll("input[name=q]")[0]?.focus();
|
||||
},
|
||||
|
||||
/**
|
||||
* Initialise the domain index toggle buttons
|
||||
*/
|
||||
initDomainIndexTable: () => {
|
||||
const toggler = (el) => {
|
||||
const idNumber = el.id.substr(7);
|
||||
const toggledRows = document.querySelectorAll(`tr.cg-${idNumber}`);
|
||||
if (el.src.substr(-9) === "minus.png") {
|
||||
el.src = `${el.src.substr(0, el.src.length - 9)}plus.png`;
|
||||
toggledRows.forEach((el) => (el.style.display = "none"));
|
||||
} else {
|
||||
el.src = `${el.src.substr(0, el.src.length - 8)}minus.png`;
|
||||
toggledRows.forEach((el) => (el.style.display = ""));
|
||||
}
|
||||
};
|
||||
|
||||
const togglerElements = document.querySelectorAll("img.toggler");
|
||||
togglerElements.forEach((el) =>
|
||||
el.addEventListener("click", (event) => toggler(event.currentTarget))
|
||||
);
|
||||
togglerElements.forEach((el) => (el.style.display = ""));
|
||||
if (DOCUMENTATION_OPTIONS.COLLAPSE_INDEX) togglerElements.forEach(toggler);
|
||||
},
|
||||
|
||||
initOnKeyListeners: () => {
|
||||
// only install a listener if it is really needed
|
||||
if (
|
||||
!DOCUMENTATION_OPTIONS.NAVIGATION_WITH_KEYS &&
|
||||
!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS
|
||||
)
|
||||
return;
|
||||
|
||||
document.addEventListener("keydown", (event) => {
|
||||
// bail for input elements
|
||||
if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return;
|
||||
// bail with special keys
|
||||
if (event.altKey || event.ctrlKey || event.metaKey) return;
|
||||
|
||||
if (!event.shiftKey) {
|
||||
switch (event.key) {
|
||||
case "ArrowLeft":
|
||||
if (!DOCUMENTATION_OPTIONS.NAVIGATION_WITH_KEYS) break;
|
||||
|
||||
const prevLink = document.querySelector('link[rel="prev"]');
|
||||
if (prevLink && prevLink.href) {
|
||||
window.location.href = prevLink.href;
|
||||
event.preventDefault();
|
||||
}
|
||||
break;
|
||||
case "ArrowRight":
|
||||
if (!DOCUMENTATION_OPTIONS.NAVIGATION_WITH_KEYS) break;
|
||||
|
||||
const nextLink = document.querySelector('link[rel="next"]');
|
||||
if (nextLink && nextLink.href) {
|
||||
window.location.href = nextLink.href;
|
||||
event.preventDefault();
|
||||
}
|
||||
break;
|
||||
}
|
||||
}
|
||||
|
||||
// some keyboard layouts may need Shift to get /
|
||||
switch (event.key) {
|
||||
case "/":
|
||||
if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) break;
|
||||
Documentation.focusSearchBar();
|
||||
event.preventDefault();
|
||||
}
|
||||
});
|
||||
},
|
||||
};
|
||||
|
||||
// quick alias for translations
|
||||
const _ = Documentation.gettext;
|
||||
|
||||
_ready(Documentation.init);
|
||||
13
docs/_static/documentation_options.js
vendored
Normal file
13
docs/_static/documentation_options.js
vendored
Normal file
|
|
@ -0,0 +1,13 @@
|
|||
const DOCUMENTATION_OPTIONS = {
|
||||
VERSION: '/Users/hoellinger/Library/CloudStorage/Dropbox/travail/these/science/code/SELFI/selfisys/src/',
|
||||
LANGUAGE: 'en',
|
||||
COLLAPSE_INDEX: false,
|
||||
BUILDER: 'html',
|
||||
FILE_SUFFIX: '.html',
|
||||
LINK_SUFFIX: '.html',
|
||||
HAS_SOURCE: true,
|
||||
SOURCELINK_SUFFIX: '.txt',
|
||||
NAVIGATION_WITH_KEYS: false,
|
||||
SHOW_SEARCH_SUMMARY: true,
|
||||
ENABLE_SEARCH_SHORTCUTS: true,
|
||||
};
|
||||
BIN
docs/_static/file.png
vendored
Normal file
BIN
docs/_static/file.png
vendored
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 286 B |
BIN
docs/_static/fonts/Lato/lato-bold.eot
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-bold.eot
vendored
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Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-bold.ttf
vendored
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BIN
docs/_static/fonts/Lato/lato-bold.ttf
vendored
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Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-bold.woff
vendored
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BIN
docs/_static/fonts/Lato/lato-bold.woff
vendored
Normal file
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BIN
docs/_static/fonts/Lato/lato-bold.woff2
vendored
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BIN
docs/_static/fonts/Lato/lato-bold.woff2
vendored
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Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-bolditalic.eot
vendored
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BIN
docs/_static/fonts/Lato/lato-bolditalic.eot
vendored
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BIN
docs/_static/fonts/Lato/lato-bolditalic.ttf
vendored
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BIN
docs/_static/fonts/Lato/lato-bolditalic.ttf
vendored
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Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-bolditalic.woff
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-bolditalic.woff
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-bolditalic.woff2
vendored
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BIN
docs/_static/fonts/Lato/lato-bolditalic.woff2
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-italic.eot
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-italic.eot
vendored
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BIN
docs/_static/fonts/Lato/lato-italic.ttf
vendored
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BIN
docs/_static/fonts/Lato/lato-italic.ttf
vendored
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BIN
docs/_static/fonts/Lato/lato-italic.woff
vendored
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BIN
docs/_static/fonts/Lato/lato-italic.woff
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-italic.woff2
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-italic.woff2
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-regular.eot
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-regular.eot
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-regular.ttf
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-regular.ttf
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-regular.woff
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-regular.woff
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/Lato/lato-regular.woff2
vendored
Normal file
BIN
docs/_static/fonts/Lato/lato-regular.woff2
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.eot
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.eot
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.ttf
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.ttf
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff
vendored
Normal file
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BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff2
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-bold.woff2
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.eot
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.eot
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.ttf
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.ttf
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff
vendored
Normal file
Binary file not shown.
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff2
vendored
Normal file
BIN
docs/_static/fonts/RobotoSlab/roboto-slab-v7-regular.woff2
vendored
Normal file
Binary file not shown.
2
docs/_static/jquery.js
vendored
Normal file
2
docs/_static/jquery.js
vendored
Normal file
File diff suppressed because one or more lines are too long
1
docs/_static/js/badge_only.js
vendored
Normal file
1
docs/_static/js/badge_only.js
vendored
Normal file
|
|
@ -0,0 +1 @@
|
|||
!function(e){var t={};function r(n){if(t[n])return t[n].exports;var o=t[n]={i:n,l:!1,exports:{}};return e[n].call(o.exports,o,o.exports,r),o.l=!0,o.exports}r.m=e,r.c=t,r.d=function(e,t,n){r.o(e,t)||Object.defineProperty(e,t,{enumerable:!0,get:n})},r.r=function(e){"undefined"!=typeof Symbol&&Symbol.toStringTag&&Object.defineProperty(e,Symbol.toStringTag,{value:"Module"}),Object.defineProperty(e,"__esModule",{value:!0})},r.t=function(e,t){if(1&t&&(e=r(e)),8&t)return e;if(4&t&&"object"==typeof e&&e&&e.__esModule)return e;var n=Object.create(null);if(r.r(n),Object.defineProperty(n,"default",{enumerable:!0,value:e}),2&t&&"string"!=typeof e)for(var o in e)r.d(n,o,function(t){return e[t]}.bind(null,o));return n},r.n=function(e){var t=e&&e.__esModule?function(){return e.default}:function(){return e};return r.d(t,"a",t),t},r.o=function(e,t){return Object.prototype.hasOwnProperty.call(e,t)},r.p="",r(r.s=4)}({4:function(e,t,r){}});
|
||||
1
docs/_static/js/theme.js
vendored
Normal file
1
docs/_static/js/theme.js
vendored
Normal file
File diff suppressed because one or more lines are too long
228
docs/_static/js/versions.js
vendored
Normal file
228
docs/_static/js/versions.js
vendored
Normal file
|
|
@ -0,0 +1,228 @@
|
|||
const themeFlyoutDisplay = "hidden";
|
||||
const themeVersionSelector = true;
|
||||
const themeLanguageSelector = true;
|
||||
|
||||
if (themeFlyoutDisplay === "attached") {
|
||||
function renderLanguages(config) {
|
||||
if (!config.projects.translations.length) {
|
||||
return "";
|
||||
}
|
||||
|
||||
// Insert the current language to the options on the selector
|
||||
let languages = config.projects.translations.concat(config.projects.current);
|
||||
languages = languages.sort((a, b) => a.language.name.localeCompare(b.language.name));
|
||||
|
||||
const languagesHTML = `
|
||||
<dl>
|
||||
<dt>Languages</dt>
|
||||
${languages
|
||||
.map(
|
||||
(translation) => `
|
||||
<dd ${translation.slug == config.projects.current.slug ? 'class="rtd-current-item"' : ""}>
|
||||
<a href="${translation.urls.documentation}">${translation.language.code}</a>
|
||||
</dd>
|
||||
`,
|
||||
)
|
||||
.join("\n")}
|
||||
</dl>
|
||||
`;
|
||||
return languagesHTML;
|
||||
}
|
||||
|
||||
function renderVersions(config) {
|
||||
if (!config.versions.active.length) {
|
||||
return "";
|
||||
}
|
||||
const versionsHTML = `
|
||||
<dl>
|
||||
<dt>Versions</dt>
|
||||
${config.versions.active
|
||||
.map(
|
||||
(version) => `
|
||||
<dd ${version.slug === config.versions.current.slug ? 'class="rtd-current-item"' : ""}>
|
||||
<a href="${version.urls.documentation}">${version.slug}</a>
|
||||
</dd>
|
||||
`,
|
||||
)
|
||||
.join("\n")}
|
||||
</dl>
|
||||
`;
|
||||
return versionsHTML;
|
||||
}
|
||||
|
||||
function renderDownloads(config) {
|
||||
if (!Object.keys(config.versions.current.downloads).length) {
|
||||
return "";
|
||||
}
|
||||
const downloadsNameDisplay = {
|
||||
pdf: "PDF",
|
||||
epub: "Epub",
|
||||
htmlzip: "HTML",
|
||||
};
|
||||
|
||||
const downloadsHTML = `
|
||||
<dl>
|
||||
<dt>Downloads</dt>
|
||||
${Object.entries(config.versions.current.downloads)
|
||||
.map(
|
||||
([name, url]) => `
|
||||
<dd>
|
||||
<a href="${url}">${downloadsNameDisplay[name]}</a>
|
||||
</dd>
|
||||
`,
|
||||
)
|
||||
.join("\n")}
|
||||
</dl>
|
||||
`;
|
||||
return downloadsHTML;
|
||||
}
|
||||
|
||||
document.addEventListener("readthedocs-addons-data-ready", function (event) {
|
||||
const config = event.detail.data();
|
||||
|
||||
const flyout = `
|
||||
<div class="rst-versions" data-toggle="rst-versions" role="note">
|
||||
<span class="rst-current-version" data-toggle="rst-current-version">
|
||||
<span class="fa fa-book"> Read the Docs</span>
|
||||
v: ${config.versions.current.slug}
|
||||
<span class="fa fa-caret-down"></span>
|
||||
</span>
|
||||
<div class="rst-other-versions">
|
||||
<div class="injected">
|
||||
${renderLanguages(config)}
|
||||
${renderVersions(config)}
|
||||
${renderDownloads(config)}
|
||||
<dl>
|
||||
<dt>On Read the Docs</dt>
|
||||
<dd>
|
||||
<a href="${config.projects.current.urls.home}">Project Home</a>
|
||||
</dd>
|
||||
<dd>
|
||||
<a href="${config.projects.current.urls.builds}">Builds</a>
|
||||
</dd>
|
||||
<dd>
|
||||
<a href="${config.projects.current.urls.downloads}">Downloads</a>
|
||||
</dd>
|
||||
</dl>
|
||||
<dl>
|
||||
<dt>Search</dt>
|
||||
<dd>
|
||||
<form id="flyout-search-form">
|
||||
<input
|
||||
class="wy-form"
|
||||
type="text"
|
||||
name="q"
|
||||
aria-label="Search docs"
|
||||
placeholder="Search docs"
|
||||
/>
|
||||
</form>
|
||||
</dd>
|
||||
</dl>
|
||||
<hr />
|
||||
<small>
|
||||
<span>Hosted by <a href="https://about.readthedocs.org/?utm_source=&utm_content=flyout">Read the Docs</a></span>
|
||||
</small>
|
||||
</div>
|
||||
</div>
|
||||
`;
|
||||
|
||||
// Inject the generated flyout into the body HTML element.
|
||||
document.body.insertAdjacentHTML("beforeend", flyout);
|
||||
|
||||
// Trigger the Read the Docs Addons Search modal when clicking on the "Search docs" input from inside the flyout.
|
||||
document
|
||||
.querySelector("#flyout-search-form")
|
||||
.addEventListener("focusin", () => {
|
||||
const event = new CustomEvent("readthedocs-search-show");
|
||||
document.dispatchEvent(event);
|
||||
});
|
||||
})
|
||||
}
|
||||
|
||||
if (themeLanguageSelector || themeVersionSelector) {
|
||||
function onSelectorSwitch(event) {
|
||||
const option = event.target.selectedIndex;
|
||||
const item = event.target.options[option];
|
||||
window.location.href = item.dataset.url;
|
||||
}
|
||||
|
||||
document.addEventListener("readthedocs-addons-data-ready", function (event) {
|
||||
const config = event.detail.data();
|
||||
|
||||
const versionSwitch = document.querySelector(
|
||||
"div.switch-menus > div.version-switch",
|
||||
);
|
||||
if (themeVersionSelector) {
|
||||
let versions = config.versions.active;
|
||||
if (config.versions.current.hidden || config.versions.current.type === "external") {
|
||||
versions.unshift(config.versions.current);
|
||||
}
|
||||
const versionSelect = `
|
||||
<select>
|
||||
${versions
|
||||
.map(
|
||||
(version) => `
|
||||
<option
|
||||
value="${version.slug}"
|
||||
${config.versions.current.slug === version.slug ? 'selected="selected"' : ""}
|
||||
data-url="${version.urls.documentation}">
|
||||
${version.slug}
|
||||
</option>`,
|
||||
)
|
||||
.join("\n")}
|
||||
</select>
|
||||
`;
|
||||
|
||||
versionSwitch.innerHTML = versionSelect;
|
||||
versionSwitch.firstElementChild.addEventListener("change", onSelectorSwitch);
|
||||
}
|
||||
|
||||
const languageSwitch = document.querySelector(
|
||||
"div.switch-menus > div.language-switch",
|
||||
);
|
||||
|
||||
if (themeLanguageSelector) {
|
||||
if (config.projects.translations.length) {
|
||||
// Add the current language to the options on the selector
|
||||
let languages = config.projects.translations.concat(
|
||||
config.projects.current,
|
||||
);
|
||||
languages = languages.sort((a, b) =>
|
||||
a.language.name.localeCompare(b.language.name),
|
||||
);
|
||||
|
||||
const languageSelect = `
|
||||
<select>
|
||||
${languages
|
||||
.map(
|
||||
(language) => `
|
||||
<option
|
||||
value="${language.language.code}"
|
||||
${config.projects.current.slug === language.slug ? 'selected="selected"' : ""}
|
||||
data-url="${language.urls.documentation}">
|
||||
${language.language.name}
|
||||
</option>`,
|
||||
)
|
||||
.join("\n")}
|
||||
</select>
|
||||
`;
|
||||
|
||||
languageSwitch.innerHTML = languageSelect;
|
||||
languageSwitch.firstElementChild.addEventListener("change", onSelectorSwitch);
|
||||
}
|
||||
else {
|
||||
languageSwitch.remove();
|
||||
}
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
document.addEventListener("readthedocs-addons-data-ready", function (event) {
|
||||
// Trigger the Read the Docs Addons Search modal when clicking on "Search docs" input from the topnav.
|
||||
document
|
||||
.querySelector("[role='search'] input")
|
||||
.addEventListener("focusin", () => {
|
||||
const event = new CustomEvent("readthedocs-search-show");
|
||||
document.dispatchEvent(event);
|
||||
});
|
||||
});
|
||||
192
docs/_static/language_data.js
vendored
Normal file
192
docs/_static/language_data.js
vendored
Normal file
|
|
@ -0,0 +1,192 @@
|
|||
/*
|
||||
* This script contains the language-specific data used by searchtools.js,
|
||||
* namely the list of stopwords, stemmer, scorer and splitter.
|
||||
*/
|
||||
|
||||
var stopwords = ["a", "and", "are", "as", "at", "be", "but", "by", "for", "if", "in", "into", "is", "it", "near", "no", "not", "of", "on", "or", "such", "that", "the", "their", "then", "there", "these", "they", "this", "to", "was", "will", "with"];
|
||||
|
||||
|
||||
/* Non-minified version is copied as a separate JS file, if available */
|
||||
|
||||
/**
|
||||
* Porter Stemmer
|
||||
*/
|
||||
var Stemmer = function() {
|
||||
|
||||
var step2list = {
|
||||
ational: 'ate',
|
||||
tional: 'tion',
|
||||
enci: 'ence',
|
||||
anci: 'ance',
|
||||
izer: 'ize',
|
||||
bli: 'ble',
|
||||
alli: 'al',
|
||||
entli: 'ent',
|
||||
eli: 'e',
|
||||
ousli: 'ous',
|
||||
ization: 'ize',
|
||||
ation: 'ate',
|
||||
ator: 'ate',
|
||||
alism: 'al',
|
||||
iveness: 'ive',
|
||||
fulness: 'ful',
|
||||
ousness: 'ous',
|
||||
aliti: 'al',
|
||||
iviti: 'ive',
|
||||
biliti: 'ble',
|
||||
logi: 'log'
|
||||
};
|
||||
|
||||
var step3list = {
|
||||
icate: 'ic',
|
||||
ative: '',
|
||||
alize: 'al',
|
||||
iciti: 'ic',
|
||||
ical: 'ic',
|
||||
ful: '',
|
||||
ness: ''
|
||||
};
|
||||
|
||||
var c = "[^aeiou]"; // consonant
|
||||
var v = "[aeiouy]"; // vowel
|
||||
var C = c + "[^aeiouy]*"; // consonant sequence
|
||||
var V = v + "[aeiou]*"; // vowel sequence
|
||||
|
||||
var mgr0 = "^(" + C + ")?" + V + C; // [C]VC... is m>0
|
||||
var meq1 = "^(" + C + ")?" + V + C + "(" + V + ")?$"; // [C]VC[V] is m=1
|
||||
var mgr1 = "^(" + C + ")?" + V + C + V + C; // [C]VCVC... is m>1
|
||||
var s_v = "^(" + C + ")?" + v; // vowel in stem
|
||||
|
||||
this.stemWord = function (w) {
|
||||
var stem;
|
||||
var suffix;
|
||||
var firstch;
|
||||
var origword = w;
|
||||
|
||||
if (w.length < 3)
|
||||
return w;
|
||||
|
||||
var re;
|
||||
var re2;
|
||||
var re3;
|
||||
var re4;
|
||||
|
||||
firstch = w.substr(0,1);
|
||||
if (firstch == "y")
|
||||
w = firstch.toUpperCase() + w.substr(1);
|
||||
|
||||
// Step 1a
|
||||
re = /^(.+?)(ss|i)es$/;
|
||||
re2 = /^(.+?)([^s])s$/;
|
||||
|
||||
if (re.test(w))
|
||||
w = w.replace(re,"$1$2");
|
||||
else if (re2.test(w))
|
||||
w = w.replace(re2,"$1$2");
|
||||
|
||||
// Step 1b
|
||||
re = /^(.+?)eed$/;
|
||||
re2 = /^(.+?)(ed|ing)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
re = new RegExp(mgr0);
|
||||
if (re.test(fp[1])) {
|
||||
re = /.$/;
|
||||
w = w.replace(re,"");
|
||||
}
|
||||
}
|
||||
else if (re2.test(w)) {
|
||||
var fp = re2.exec(w);
|
||||
stem = fp[1];
|
||||
re2 = new RegExp(s_v);
|
||||
if (re2.test(stem)) {
|
||||
w = stem;
|
||||
re2 = /(at|bl|iz)$/;
|
||||
re3 = new RegExp("([^aeiouylsz])\\1$");
|
||||
re4 = new RegExp("^" + C + v + "[^aeiouwxy]$");
|
||||
if (re2.test(w))
|
||||
w = w + "e";
|
||||
else if (re3.test(w)) {
|
||||
re = /.$/;
|
||||
w = w.replace(re,"");
|
||||
}
|
||||
else if (re4.test(w))
|
||||
w = w + "e";
|
||||
}
|
||||
}
|
||||
|
||||
// Step 1c
|
||||
re = /^(.+?)y$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
re = new RegExp(s_v);
|
||||
if (re.test(stem))
|
||||
w = stem + "i";
|
||||
}
|
||||
|
||||
// Step 2
|
||||
re = /^(.+?)(ational|tional|enci|anci|izer|bli|alli|entli|eli|ousli|ization|ation|ator|alism|iveness|fulness|ousness|aliti|iviti|biliti|logi)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
suffix = fp[2];
|
||||
re = new RegExp(mgr0);
|
||||
if (re.test(stem))
|
||||
w = stem + step2list[suffix];
|
||||
}
|
||||
|
||||
// Step 3
|
||||
re = /^(.+?)(icate|ative|alize|iciti|ical|ful|ness)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
suffix = fp[2];
|
||||
re = new RegExp(mgr0);
|
||||
if (re.test(stem))
|
||||
w = stem + step3list[suffix];
|
||||
}
|
||||
|
||||
// Step 4
|
||||
re = /^(.+?)(al|ance|ence|er|ic|able|ible|ant|ement|ment|ent|ou|ism|ate|iti|ous|ive|ize)$/;
|
||||
re2 = /^(.+?)(s|t)(ion)$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
re = new RegExp(mgr1);
|
||||
if (re.test(stem))
|
||||
w = stem;
|
||||
}
|
||||
else if (re2.test(w)) {
|
||||
var fp = re2.exec(w);
|
||||
stem = fp[1] + fp[2];
|
||||
re2 = new RegExp(mgr1);
|
||||
if (re2.test(stem))
|
||||
w = stem;
|
||||
}
|
||||
|
||||
// Step 5
|
||||
re = /^(.+?)e$/;
|
||||
if (re.test(w)) {
|
||||
var fp = re.exec(w);
|
||||
stem = fp[1];
|
||||
re = new RegExp(mgr1);
|
||||
re2 = new RegExp(meq1);
|
||||
re3 = new RegExp("^" + C + v + "[^aeiouwxy]$");
|
||||
if (re.test(stem) || (re2.test(stem) && !(re3.test(stem))))
|
||||
w = stem;
|
||||
}
|
||||
re = /ll$/;
|
||||
re2 = new RegExp(mgr1);
|
||||
if (re.test(w) && re2.test(w)) {
|
||||
re = /.$/;
|
||||
w = w.replace(re,"");
|
||||
}
|
||||
|
||||
// and turn initial Y back to y
|
||||
if (firstch == "y")
|
||||
w = firstch.toLowerCase() + w.substr(1);
|
||||
return w;
|
||||
}
|
||||
}
|
||||
|
||||
BIN
docs/_static/minus.png
vendored
Normal file
BIN
docs/_static/minus.png
vendored
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 90 B |
BIN
docs/_static/plus.png
vendored
Normal file
BIN
docs/_static/plus.png
vendored
Normal file
Binary file not shown.
|
After Width: | Height: | Size: 90 B |
75
docs/_static/pygments.css
vendored
Normal file
75
docs/_static/pygments.css
vendored
Normal file
|
|
@ -0,0 +1,75 @@
|
|||
pre { line-height: 125%; }
|
||||
td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
|
||||
span.linenos { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; }
|
||||
td.linenos .special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; }
|
||||
span.linenos.special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; }
|
||||
.highlight .hll { background-color: #ffffcc }
|
||||
.highlight { background: #f8f8f8; }
|
||||
.highlight .c { color: #3D7B7B; font-style: italic } /* Comment */
|
||||
.highlight .err { border: 1px solid #FF0000 } /* Error */
|
||||
.highlight .k { color: #008000; font-weight: bold } /* Keyword */
|
||||
.highlight .o { color: #666666 } /* Operator */
|
||||
.highlight .ch { color: #3D7B7B; font-style: italic } /* Comment.Hashbang */
|
||||
.highlight .cm { color: #3D7B7B; font-style: italic } /* Comment.Multiline */
|
||||
.highlight .cp { color: #9C6500 } /* Comment.Preproc */
|
||||
.highlight .cpf { color: #3D7B7B; font-style: italic } /* Comment.PreprocFile */
|
||||
.highlight .c1 { color: #3D7B7B; font-style: italic } /* Comment.Single */
|
||||
.highlight .cs { color: #3D7B7B; font-style: italic } /* Comment.Special */
|
||||
.highlight .gd { color: #A00000 } /* Generic.Deleted */
|
||||
.highlight .ge { font-style: italic } /* Generic.Emph */
|
||||
.highlight .ges { font-weight: bold; font-style: italic } /* Generic.EmphStrong */
|
||||
.highlight .gr { color: #E40000 } /* Generic.Error */
|
||||
.highlight .gh { color: #000080; font-weight: bold } /* Generic.Heading */
|
||||
.highlight .gi { color: #008400 } /* Generic.Inserted */
|
||||
.highlight .go { color: #717171 } /* Generic.Output */
|
||||
.highlight .gp { color: #000080; font-weight: bold } /* Generic.Prompt */
|
||||
.highlight .gs { font-weight: bold } /* Generic.Strong */
|
||||
.highlight .gu { color: #800080; font-weight: bold } /* Generic.Subheading */
|
||||
.highlight .gt { color: #0044DD } /* Generic.Traceback */
|
||||
.highlight .kc { color: #008000; font-weight: bold } /* Keyword.Constant */
|
||||
.highlight .kd { color: #008000; font-weight: bold } /* Keyword.Declaration */
|
||||
.highlight .kn { color: #008000; font-weight: bold } /* Keyword.Namespace */
|
||||
.highlight .kp { color: #008000 } /* Keyword.Pseudo */
|
||||
.highlight .kr { color: #008000; font-weight: bold } /* Keyword.Reserved */
|
||||
.highlight .kt { color: #B00040 } /* Keyword.Type */
|
||||
.highlight .m { color: #666666 } /* Literal.Number */
|
||||
.highlight .s { color: #BA2121 } /* Literal.String */
|
||||
.highlight .na { color: #687822 } /* Name.Attribute */
|
||||
.highlight .nb { color: #008000 } /* Name.Builtin */
|
||||
.highlight .nc { color: #0000FF; font-weight: bold } /* Name.Class */
|
||||
.highlight .no { color: #880000 } /* Name.Constant */
|
||||
.highlight .nd { color: #AA22FF } /* Name.Decorator */
|
||||
.highlight .ni { color: #717171; font-weight: bold } /* Name.Entity */
|
||||
.highlight .ne { color: #CB3F38; font-weight: bold } /* Name.Exception */
|
||||
.highlight .nf { color: #0000FF } /* Name.Function */
|
||||
.highlight .nl { color: #767600 } /* Name.Label */
|
||||
.highlight .nn { color: #0000FF; font-weight: bold } /* Name.Namespace */
|
||||
.highlight .nt { color: #008000; font-weight: bold } /* Name.Tag */
|
||||
.highlight .nv { color: #19177C } /* Name.Variable */
|
||||
.highlight .ow { color: #AA22FF; font-weight: bold } /* Operator.Word */
|
||||
.highlight .w { color: #bbbbbb } /* Text.Whitespace */
|
||||
.highlight .mb { color: #666666 } /* Literal.Number.Bin */
|
||||
.highlight .mf { color: #666666 } /* Literal.Number.Float */
|
||||
.highlight .mh { color: #666666 } /* Literal.Number.Hex */
|
||||
.highlight .mi { color: #666666 } /* Literal.Number.Integer */
|
||||
.highlight .mo { color: #666666 } /* Literal.Number.Oct */
|
||||
.highlight .sa { color: #BA2121 } /* Literal.String.Affix */
|
||||
.highlight .sb { color: #BA2121 } /* Literal.String.Backtick */
|
||||
.highlight .sc { color: #BA2121 } /* Literal.String.Char */
|
||||
.highlight .dl { color: #BA2121 } /* Literal.String.Delimiter */
|
||||
.highlight .sd { color: #BA2121; font-style: italic } /* Literal.String.Doc */
|
||||
.highlight .s2 { color: #BA2121 } /* Literal.String.Double */
|
||||
.highlight .se { color: #AA5D1F; font-weight: bold } /* Literal.String.Escape */
|
||||
.highlight .sh { color: #BA2121 } /* Literal.String.Heredoc */
|
||||
.highlight .si { color: #A45A77; font-weight: bold } /* Literal.String.Interpol */
|
||||
.highlight .sx { color: #008000 } /* Literal.String.Other */
|
||||
.highlight .sr { color: #A45A77 } /* Literal.String.Regex */
|
||||
.highlight .s1 { color: #BA2121 } /* Literal.String.Single */
|
||||
.highlight .ss { color: #19177C } /* Literal.String.Symbol */
|
||||
.highlight .bp { color: #008000 } /* Name.Builtin.Pseudo */
|
||||
.highlight .fm { color: #0000FF } /* Name.Function.Magic */
|
||||
.highlight .vc { color: #19177C } /* Name.Variable.Class */
|
||||
.highlight .vg { color: #19177C } /* Name.Variable.Global */
|
||||
.highlight .vi { color: #19177C } /* Name.Variable.Instance */
|
||||
.highlight .vm { color: #19177C } /* Name.Variable.Magic */
|
||||
.highlight .il { color: #666666 } /* Literal.Number.Integer.Long */
|
||||
632
docs/_static/searchtools.js
vendored
Normal file
632
docs/_static/searchtools.js
vendored
Normal file
|
|
@ -0,0 +1,632 @@
|
|||
/*
|
||||
* Sphinx JavaScript utilities for the full-text search.
|
||||
*/
|
||||
"use strict";
|
||||
|
||||
/**
|
||||
* Simple result scoring code.
|
||||
*/
|
||||
if (typeof Scorer === "undefined") {
|
||||
var Scorer = {
|
||||
// Implement the following function to further tweak the score for each result
|
||||
// The function takes a result array [docname, title, anchor, descr, score, filename]
|
||||
// and returns the new score.
|
||||
/*
|
||||
score: result => {
|
||||
const [docname, title, anchor, descr, score, filename, kind] = result
|
||||
return score
|
||||
},
|
||||
*/
|
||||
|
||||
// query matches the full name of an object
|
||||
objNameMatch: 11,
|
||||
// or matches in the last dotted part of the object name
|
||||
objPartialMatch: 6,
|
||||
// Additive scores depending on the priority of the object
|
||||
objPrio: {
|
||||
0: 15, // used to be importantResults
|
||||
1: 5, // used to be objectResults
|
||||
2: -5, // used to be unimportantResults
|
||||
},
|
||||
// Used when the priority is not in the mapping.
|
||||
objPrioDefault: 0,
|
||||
|
||||
// query found in title
|
||||
title: 15,
|
||||
partialTitle: 7,
|
||||
// query found in terms
|
||||
term: 5,
|
||||
partialTerm: 2,
|
||||
};
|
||||
}
|
||||
|
||||
// Global search result kind enum, used by themes to style search results.
|
||||
class SearchResultKind {
|
||||
static get index() { return "index"; }
|
||||
static get object() { return "object"; }
|
||||
static get text() { return "text"; }
|
||||
static get title() { return "title"; }
|
||||
}
|
||||
|
||||
const _removeChildren = (element) => {
|
||||
while (element && element.lastChild) element.removeChild(element.lastChild);
|
||||
};
|
||||
|
||||
/**
|
||||
* See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping
|
||||
*/
|
||||
const _escapeRegExp = (string) =>
|
||||
string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string
|
||||
|
||||
const _displayItem = (item, searchTerms, highlightTerms) => {
|
||||
const docBuilder = DOCUMENTATION_OPTIONS.BUILDER;
|
||||
const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX;
|
||||
const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX;
|
||||
const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY;
|
||||
const contentRoot = document.documentElement.dataset.content_root;
|
||||
|
||||
const [docName, title, anchor, descr, score, _filename, kind] = item;
|
||||
|
||||
let listItem = document.createElement("li");
|
||||
// Add a class representing the item's type:
|
||||
// can be used by a theme's CSS selector for styling
|
||||
// See SearchResultKind for the class names.
|
||||
listItem.classList.add(`kind-${kind}`);
|
||||
let requestUrl;
|
||||
let linkUrl;
|
||||
if (docBuilder === "dirhtml") {
|
||||
// dirhtml builder
|
||||
let dirname = docName + "/";
|
||||
if (dirname.match(/\/index\/$/))
|
||||
dirname = dirname.substring(0, dirname.length - 6);
|
||||
else if (dirname === "index/") dirname = "";
|
||||
requestUrl = contentRoot + dirname;
|
||||
linkUrl = requestUrl;
|
||||
} else {
|
||||
// normal html builders
|
||||
requestUrl = contentRoot + docName + docFileSuffix;
|
||||
linkUrl = docName + docLinkSuffix;
|
||||
}
|
||||
let linkEl = listItem.appendChild(document.createElement("a"));
|
||||
linkEl.href = linkUrl + anchor;
|
||||
linkEl.dataset.score = score;
|
||||
linkEl.innerHTML = title;
|
||||
if (descr) {
|
||||
listItem.appendChild(document.createElement("span")).innerHTML =
|
||||
" (" + descr + ")";
|
||||
// highlight search terms in the description
|
||||
if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js
|
||||
highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted"));
|
||||
}
|
||||
else if (showSearchSummary)
|
||||
fetch(requestUrl)
|
||||
.then((responseData) => responseData.text())
|
||||
.then((data) => {
|
||||
if (data)
|
||||
listItem.appendChild(
|
||||
Search.makeSearchSummary(data, searchTerms, anchor)
|
||||
);
|
||||
// highlight search terms in the summary
|
||||
if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js
|
||||
highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted"));
|
||||
});
|
||||
Search.output.appendChild(listItem);
|
||||
};
|
||||
const _finishSearch = (resultCount) => {
|
||||
Search.stopPulse();
|
||||
Search.title.innerText = _("Search Results");
|
||||
if (!resultCount)
|
||||
Search.status.innerText = Documentation.gettext(
|
||||
"Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories."
|
||||
);
|
||||
else
|
||||
Search.status.innerText = Documentation.ngettext(
|
||||
"Search finished, found one page matching the search query.",
|
||||
"Search finished, found ${resultCount} pages matching the search query.",
|
||||
resultCount,
|
||||
).replace('${resultCount}', resultCount);
|
||||
};
|
||||
const _displayNextItem = (
|
||||
results,
|
||||
resultCount,
|
||||
searchTerms,
|
||||
highlightTerms,
|
||||
) => {
|
||||
// results left, load the summary and display it
|
||||
// this is intended to be dynamic (don't sub resultsCount)
|
||||
if (results.length) {
|
||||
_displayItem(results.pop(), searchTerms, highlightTerms);
|
||||
setTimeout(
|
||||
() => _displayNextItem(results, resultCount, searchTerms, highlightTerms),
|
||||
5
|
||||
);
|
||||
}
|
||||
// search finished, update title and status message
|
||||
else _finishSearch(resultCount);
|
||||
};
|
||||
// Helper function used by query() to order search results.
|
||||
// Each input is an array of [docname, title, anchor, descr, score, filename, kind].
|
||||
// Order the results by score (in opposite order of appearance, since the
|
||||
// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically.
|
||||
const _orderResultsByScoreThenName = (a, b) => {
|
||||
const leftScore = a[4];
|
||||
const rightScore = b[4];
|
||||
if (leftScore === rightScore) {
|
||||
// same score: sort alphabetically
|
||||
const leftTitle = a[1].toLowerCase();
|
||||
const rightTitle = b[1].toLowerCase();
|
||||
if (leftTitle === rightTitle) return 0;
|
||||
return leftTitle > rightTitle ? -1 : 1; // inverted is intentional
|
||||
}
|
||||
return leftScore > rightScore ? 1 : -1;
|
||||
};
|
||||
|
||||
/**
|
||||
* Default splitQuery function. Can be overridden in ``sphinx.search`` with a
|
||||
* custom function per language.
|
||||
*
|
||||
* The regular expression works by splitting the string on consecutive characters
|
||||
* that are not Unicode letters, numbers, underscores, or emoji characters.
|
||||
* This is the same as ``\W+`` in Python, preserving the surrogate pair area.
|
||||
*/
|
||||
if (typeof splitQuery === "undefined") {
|
||||
var splitQuery = (query) => query
|
||||
.split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu)
|
||||
.filter(term => term) // remove remaining empty strings
|
||||
}
|
||||
|
||||
/**
|
||||
* Search Module
|
||||
*/
|
||||
const Search = {
|
||||
_index: null,
|
||||
_queued_query: null,
|
||||
_pulse_status: -1,
|
||||
|
||||
htmlToText: (htmlString, anchor) => {
|
||||
const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html');
|
||||
for (const removalQuery of [".headerlink", "script", "style"]) {
|
||||
htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() });
|
||||
}
|
||||
if (anchor) {
|
||||
const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`);
|
||||
if (anchorContent) return anchorContent.textContent;
|
||||
|
||||
console.warn(
|
||||
`Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.`
|
||||
);
|
||||
}
|
||||
|
||||
// if anchor not specified or not found, fall back to main content
|
||||
const docContent = htmlElement.querySelector('[role="main"]');
|
||||
if (docContent) return docContent.textContent;
|
||||
|
||||
console.warn(
|
||||
"Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template."
|
||||
);
|
||||
return "";
|
||||
},
|
||||
|
||||
init: () => {
|
||||
const query = new URLSearchParams(window.location.search).get("q");
|
||||
document
|
||||
.querySelectorAll('input[name="q"]')
|
||||
.forEach((el) => (el.value = query));
|
||||
if (query) Search.performSearch(query);
|
||||
},
|
||||
|
||||
loadIndex: (url) =>
|
||||
(document.body.appendChild(document.createElement("script")).src = url),
|
||||
|
||||
setIndex: (index) => {
|
||||
Search._index = index;
|
||||
if (Search._queued_query !== null) {
|
||||
const query = Search._queued_query;
|
||||
Search._queued_query = null;
|
||||
Search.query(query);
|
||||
}
|
||||
},
|
||||
|
||||
hasIndex: () => Search._index !== null,
|
||||
|
||||
deferQuery: (query) => (Search._queued_query = query),
|
||||
|
||||
stopPulse: () => (Search._pulse_status = -1),
|
||||
|
||||
startPulse: () => {
|
||||
if (Search._pulse_status >= 0) return;
|
||||
|
||||
const pulse = () => {
|
||||
Search._pulse_status = (Search._pulse_status + 1) % 4;
|
||||
Search.dots.innerText = ".".repeat(Search._pulse_status);
|
||||
if (Search._pulse_status >= 0) window.setTimeout(pulse, 500);
|
||||
};
|
||||
pulse();
|
||||
},
|
||||
|
||||
/**
|
||||
* perform a search for something (or wait until index is loaded)
|
||||
*/
|
||||
performSearch: (query) => {
|
||||
// create the required interface elements
|
||||
const searchText = document.createElement("h2");
|
||||
searchText.textContent = _("Searching");
|
||||
const searchSummary = document.createElement("p");
|
||||
searchSummary.classList.add("search-summary");
|
||||
searchSummary.innerText = "";
|
||||
const searchList = document.createElement("ul");
|
||||
searchList.setAttribute("role", "list");
|
||||
searchList.classList.add("search");
|
||||
|
||||
const out = document.getElementById("search-results");
|
||||
Search.title = out.appendChild(searchText);
|
||||
Search.dots = Search.title.appendChild(document.createElement("span"));
|
||||
Search.status = out.appendChild(searchSummary);
|
||||
Search.output = out.appendChild(searchList);
|
||||
|
||||
const searchProgress = document.getElementById("search-progress");
|
||||
// Some themes don't use the search progress node
|
||||
if (searchProgress) {
|
||||
searchProgress.innerText = _("Preparing search...");
|
||||
}
|
||||
Search.startPulse();
|
||||
|
||||
// index already loaded, the browser was quick!
|
||||
if (Search.hasIndex()) Search.query(query);
|
||||
else Search.deferQuery(query);
|
||||
},
|
||||
|
||||
_parseQuery: (query) => {
|
||||
// stem the search terms and add them to the correct list
|
||||
const stemmer = new Stemmer();
|
||||
const searchTerms = new Set();
|
||||
const excludedTerms = new Set();
|
||||
const highlightTerms = new Set();
|
||||
const objectTerms = new Set(splitQuery(query.toLowerCase().trim()));
|
||||
splitQuery(query.trim()).forEach((queryTerm) => {
|
||||
const queryTermLower = queryTerm.toLowerCase();
|
||||
|
||||
// maybe skip this "word"
|
||||
// stopwords array is from language_data.js
|
||||
if (
|
||||
stopwords.indexOf(queryTermLower) !== -1 ||
|
||||
queryTerm.match(/^\d+$/)
|
||||
)
|
||||
return;
|
||||
|
||||
// stem the word
|
||||
let word = stemmer.stemWord(queryTermLower);
|
||||
// select the correct list
|
||||
if (word[0] === "-") excludedTerms.add(word.substr(1));
|
||||
else {
|
||||
searchTerms.add(word);
|
||||
highlightTerms.add(queryTermLower);
|
||||
}
|
||||
});
|
||||
|
||||
if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js
|
||||
localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" "))
|
||||
}
|
||||
|
||||
// console.debug("SEARCH: searching for:");
|
||||
// console.info("required: ", [...searchTerms]);
|
||||
// console.info("excluded: ", [...excludedTerms]);
|
||||
|
||||
return [query, searchTerms, excludedTerms, highlightTerms, objectTerms];
|
||||
},
|
||||
|
||||
/**
|
||||
* execute search (requires search index to be loaded)
|
||||
*/
|
||||
_performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => {
|
||||
const filenames = Search._index.filenames;
|
||||
const docNames = Search._index.docnames;
|
||||
const titles = Search._index.titles;
|
||||
const allTitles = Search._index.alltitles;
|
||||
const indexEntries = Search._index.indexentries;
|
||||
|
||||
// Collect multiple result groups to be sorted separately and then ordered.
|
||||
// Each is an array of [docname, title, anchor, descr, score, filename, kind].
|
||||
const normalResults = [];
|
||||
const nonMainIndexResults = [];
|
||||
|
||||
_removeChildren(document.getElementById("search-progress"));
|
||||
|
||||
const queryLower = query.toLowerCase().trim();
|
||||
for (const [title, foundTitles] of Object.entries(allTitles)) {
|
||||
if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) {
|
||||
for (const [file, id] of foundTitles) {
|
||||
const score = Math.round(Scorer.title * queryLower.length / title.length);
|
||||
const boost = titles[file] === title ? 1 : 0; // add a boost for document titles
|
||||
normalResults.push([
|
||||
docNames[file],
|
||||
titles[file] !== title ? `${titles[file]} > ${title}` : title,
|
||||
id !== null ? "#" + id : "",
|
||||
null,
|
||||
score + boost,
|
||||
filenames[file],
|
||||
SearchResultKind.title,
|
||||
]);
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
// search for explicit entries in index directives
|
||||
for (const [entry, foundEntries] of Object.entries(indexEntries)) {
|
||||
if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) {
|
||||
for (const [file, id, isMain] of foundEntries) {
|
||||
const score = Math.round(100 * queryLower.length / entry.length);
|
||||
const result = [
|
||||
docNames[file],
|
||||
titles[file],
|
||||
id ? "#" + id : "",
|
||||
null,
|
||||
score,
|
||||
filenames[file],
|
||||
SearchResultKind.index,
|
||||
];
|
||||
if (isMain) {
|
||||
normalResults.push(result);
|
||||
} else {
|
||||
nonMainIndexResults.push(result);
|
||||
}
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
// lookup as object
|
||||
objectTerms.forEach((term) =>
|
||||
normalResults.push(...Search.performObjectSearch(term, objectTerms))
|
||||
);
|
||||
|
||||
// lookup as search terms in fulltext
|
||||
normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms));
|
||||
|
||||
// let the scorer override scores with a custom scoring function
|
||||
if (Scorer.score) {
|
||||
normalResults.forEach((item) => (item[4] = Scorer.score(item)));
|
||||
nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item)));
|
||||
}
|
||||
|
||||
// Sort each group of results by score and then alphabetically by name.
|
||||
normalResults.sort(_orderResultsByScoreThenName);
|
||||
nonMainIndexResults.sort(_orderResultsByScoreThenName);
|
||||
|
||||
// Combine the result groups in (reverse) order.
|
||||
// Non-main index entries are typically arbitrary cross-references,
|
||||
// so display them after other results.
|
||||
let results = [...nonMainIndexResults, ...normalResults];
|
||||
|
||||
// remove duplicate search results
|
||||
// note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept
|
||||
let seen = new Set();
|
||||
results = results.reverse().reduce((acc, result) => {
|
||||
let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(',');
|
||||
if (!seen.has(resultStr)) {
|
||||
acc.push(result);
|
||||
seen.add(resultStr);
|
||||
}
|
||||
return acc;
|
||||
}, []);
|
||||
|
||||
return results.reverse();
|
||||
},
|
||||
|
||||
query: (query) => {
|
||||
const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query);
|
||||
const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms);
|
||||
|
||||
// for debugging
|
||||
//Search.lastresults = results.slice(); // a copy
|
||||
// console.info("search results:", Search.lastresults);
|
||||
|
||||
// print the results
|
||||
_displayNextItem(results, results.length, searchTerms, highlightTerms);
|
||||
},
|
||||
|
||||
/**
|
||||
* search for object names
|
||||
*/
|
||||
performObjectSearch: (object, objectTerms) => {
|
||||
const filenames = Search._index.filenames;
|
||||
const docNames = Search._index.docnames;
|
||||
const objects = Search._index.objects;
|
||||
const objNames = Search._index.objnames;
|
||||
const titles = Search._index.titles;
|
||||
|
||||
const results = [];
|
||||
|
||||
const objectSearchCallback = (prefix, match) => {
|
||||
const name = match[4]
|
||||
const fullname = (prefix ? prefix + "." : "") + name;
|
||||
const fullnameLower = fullname.toLowerCase();
|
||||
if (fullnameLower.indexOf(object) < 0) return;
|
||||
|
||||
let score = 0;
|
||||
const parts = fullnameLower.split(".");
|
||||
|
||||
// check for different match types: exact matches of full name or
|
||||
// "last name" (i.e. last dotted part)
|
||||
if (fullnameLower === object || parts.slice(-1)[0] === object)
|
||||
score += Scorer.objNameMatch;
|
||||
else if (parts.slice(-1)[0].indexOf(object) > -1)
|
||||
score += Scorer.objPartialMatch; // matches in last name
|
||||
|
||||
const objName = objNames[match[1]][2];
|
||||
const title = titles[match[0]];
|
||||
|
||||
// If more than one term searched for, we require other words to be
|
||||
// found in the name/title/description
|
||||
const otherTerms = new Set(objectTerms);
|
||||
otherTerms.delete(object);
|
||||
if (otherTerms.size > 0) {
|
||||
const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase();
|
||||
if (
|
||||
[...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0)
|
||||
)
|
||||
return;
|
||||
}
|
||||
|
||||
let anchor = match[3];
|
||||
if (anchor === "") anchor = fullname;
|
||||
else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname;
|
||||
|
||||
const descr = objName + _(", in ") + title;
|
||||
|
||||
// add custom score for some objects according to scorer
|
||||
if (Scorer.objPrio.hasOwnProperty(match[2]))
|
||||
score += Scorer.objPrio[match[2]];
|
||||
else score += Scorer.objPrioDefault;
|
||||
|
||||
results.push([
|
||||
docNames[match[0]],
|
||||
fullname,
|
||||
"#" + anchor,
|
||||
descr,
|
||||
score,
|
||||
filenames[match[0]],
|
||||
SearchResultKind.object,
|
||||
]);
|
||||
};
|
||||
Object.keys(objects).forEach((prefix) =>
|
||||
objects[prefix].forEach((array) =>
|
||||
objectSearchCallback(prefix, array)
|
||||
)
|
||||
);
|
||||
return results;
|
||||
},
|
||||
|
||||
/**
|
||||
* search for full-text terms in the index
|
||||
*/
|
||||
performTermsSearch: (searchTerms, excludedTerms) => {
|
||||
// prepare search
|
||||
const terms = Search._index.terms;
|
||||
const titleTerms = Search._index.titleterms;
|
||||
const filenames = Search._index.filenames;
|
||||
const docNames = Search._index.docnames;
|
||||
const titles = Search._index.titles;
|
||||
|
||||
const scoreMap = new Map();
|
||||
const fileMap = new Map();
|
||||
|
||||
// perform the search on the required terms
|
||||
searchTerms.forEach((word) => {
|
||||
const files = [];
|
||||
const arr = [
|
||||
{ files: terms[word], score: Scorer.term },
|
||||
{ files: titleTerms[word], score: Scorer.title },
|
||||
];
|
||||
// add support for partial matches
|
||||
if (word.length > 2) {
|
||||
const escapedWord = _escapeRegExp(word);
|
||||
if (!terms.hasOwnProperty(word)) {
|
||||
Object.keys(terms).forEach((term) => {
|
||||
if (term.match(escapedWord))
|
||||
arr.push({ files: terms[term], score: Scorer.partialTerm });
|
||||
});
|
||||
}
|
||||
if (!titleTerms.hasOwnProperty(word)) {
|
||||
Object.keys(titleTerms).forEach((term) => {
|
||||
if (term.match(escapedWord))
|
||||
arr.push({ files: titleTerms[term], score: Scorer.partialTitle });
|
||||
});
|
||||
}
|
||||
}
|
||||
|
||||
// no match but word was a required one
|
||||
if (arr.every((record) => record.files === undefined)) return;
|
||||
|
||||
// found search word in contents
|
||||
arr.forEach((record) => {
|
||||
if (record.files === undefined) return;
|
||||
|
||||
let recordFiles = record.files;
|
||||
if (recordFiles.length === undefined) recordFiles = [recordFiles];
|
||||
files.push(...recordFiles);
|
||||
|
||||
// set score for the word in each file
|
||||
recordFiles.forEach((file) => {
|
||||
if (!scoreMap.has(file)) scoreMap.set(file, {});
|
||||
scoreMap.get(file)[word] = record.score;
|
||||
});
|
||||
});
|
||||
|
||||
// create the mapping
|
||||
files.forEach((file) => {
|
||||
if (!fileMap.has(file)) fileMap.set(file, [word]);
|
||||
else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word);
|
||||
});
|
||||
});
|
||||
|
||||
// now check if the files don't contain excluded terms
|
||||
const results = [];
|
||||
for (const [file, wordList] of fileMap) {
|
||||
// check if all requirements are matched
|
||||
|
||||
// as search terms with length < 3 are discarded
|
||||
const filteredTermCount = [...searchTerms].filter(
|
||||
(term) => term.length > 2
|
||||
).length;
|
||||
if (
|
||||
wordList.length !== searchTerms.size &&
|
||||
wordList.length !== filteredTermCount
|
||||
)
|
||||
continue;
|
||||
|
||||
// ensure that none of the excluded terms is in the search result
|
||||
if (
|
||||
[...excludedTerms].some(
|
||||
(term) =>
|
||||
terms[term] === file ||
|
||||
titleTerms[term] === file ||
|
||||
(terms[term] || []).includes(file) ||
|
||||
(titleTerms[term] || []).includes(file)
|
||||
)
|
||||
)
|
||||
break;
|
||||
|
||||
// select one (max) score for the file.
|
||||
const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w]));
|
||||
// add result to the result list
|
||||
results.push([
|
||||
docNames[file],
|
||||
titles[file],
|
||||
"",
|
||||
null,
|
||||
score,
|
||||
filenames[file],
|
||||
SearchResultKind.text,
|
||||
]);
|
||||
}
|
||||
return results;
|
||||
},
|
||||
|
||||
/**
|
||||
* helper function to return a node containing the
|
||||
* search summary for a given text. keywords is a list
|
||||
* of stemmed words.
|
||||
*/
|
||||
makeSearchSummary: (htmlText, keywords, anchor) => {
|
||||
const text = Search.htmlToText(htmlText, anchor);
|
||||
if (text === "") return null;
|
||||
|
||||
const textLower = text.toLowerCase();
|
||||
const actualStartPosition = [...keywords]
|
||||
.map((k) => textLower.indexOf(k.toLowerCase()))
|
||||
.filter((i) => i > -1)
|
||||
.slice(-1)[0];
|
||||
const startWithContext = Math.max(actualStartPosition - 120, 0);
|
||||
|
||||
const top = startWithContext === 0 ? "" : "...";
|
||||
const tail = startWithContext + 240 < text.length ? "..." : "";
|
||||
|
||||
let summary = document.createElement("p");
|
||||
summary.classList.add("context");
|
||||
summary.textContent = top + text.substr(startWithContext, 240).trim() + tail;
|
||||
|
||||
return summary;
|
||||
},
|
||||
};
|
||||
|
||||
_ready(Search.init);
|
||||
154
docs/_static/sphinx_highlight.js
vendored
Normal file
154
docs/_static/sphinx_highlight.js
vendored
Normal file
|
|
@ -0,0 +1,154 @@
|
|||
/* Highlighting utilities for Sphinx HTML documentation. */
|
||||
"use strict";
|
||||
|
||||
const SPHINX_HIGHLIGHT_ENABLED = true
|
||||
|
||||
/**
|
||||
* highlight a given string on a node by wrapping it in
|
||||
* span elements with the given class name.
|
||||
*/
|
||||
const _highlight = (node, addItems, text, className) => {
|
||||
if (node.nodeType === Node.TEXT_NODE) {
|
||||
const val = node.nodeValue;
|
||||
const parent = node.parentNode;
|
||||
const pos = val.toLowerCase().indexOf(text);
|
||||
if (
|
||||
pos >= 0 &&
|
||||
!parent.classList.contains(className) &&
|
||||
!parent.classList.contains("nohighlight")
|
||||
) {
|
||||
let span;
|
||||
|
||||
const closestNode = parent.closest("body, svg, foreignObject");
|
||||
const isInSVG = closestNode && closestNode.matches("svg");
|
||||
if (isInSVG) {
|
||||
span = document.createElementNS("http://www.w3.org/2000/svg", "tspan");
|
||||
} else {
|
||||
span = document.createElement("span");
|
||||
span.classList.add(className);
|
||||
}
|
||||
|
||||
span.appendChild(document.createTextNode(val.substr(pos, text.length)));
|
||||
const rest = document.createTextNode(val.substr(pos + text.length));
|
||||
parent.insertBefore(
|
||||
span,
|
||||
parent.insertBefore(
|
||||
rest,
|
||||
node.nextSibling
|
||||
)
|
||||
);
|
||||
node.nodeValue = val.substr(0, pos);
|
||||
/* There may be more occurrences of search term in this node. So call this
|
||||
* function recursively on the remaining fragment.
|
||||
*/
|
||||
_highlight(rest, addItems, text, className);
|
||||
|
||||
if (isInSVG) {
|
||||
const rect = document.createElementNS(
|
||||
"http://www.w3.org/2000/svg",
|
||||
"rect"
|
||||
);
|
||||
const bbox = parent.getBBox();
|
||||
rect.x.baseVal.value = bbox.x;
|
||||
rect.y.baseVal.value = bbox.y;
|
||||
rect.width.baseVal.value = bbox.width;
|
||||
rect.height.baseVal.value = bbox.height;
|
||||
rect.setAttribute("class", className);
|
||||
addItems.push({ parent: parent, target: rect });
|
||||
}
|
||||
}
|
||||
} else if (node.matches && !node.matches("button, select, textarea")) {
|
||||
node.childNodes.forEach((el) => _highlight(el, addItems, text, className));
|
||||
}
|
||||
};
|
||||
const _highlightText = (thisNode, text, className) => {
|
||||
let addItems = [];
|
||||
_highlight(thisNode, addItems, text, className);
|
||||
addItems.forEach((obj) =>
|
||||
obj.parent.insertAdjacentElement("beforebegin", obj.target)
|
||||
);
|
||||
};
|
||||
|
||||
/**
|
||||
* Small JavaScript module for the documentation.
|
||||
*/
|
||||
const SphinxHighlight = {
|
||||
|
||||
/**
|
||||
* highlight the search words provided in localstorage in the text
|
||||
*/
|
||||
highlightSearchWords: () => {
|
||||
if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight
|
||||
|
||||
// get and clear terms from localstorage
|
||||
const url = new URL(window.location);
|
||||
const highlight =
|
||||
localStorage.getItem("sphinx_highlight_terms")
|
||||
|| url.searchParams.get("highlight")
|
||||
|| "";
|
||||
localStorage.removeItem("sphinx_highlight_terms")
|
||||
url.searchParams.delete("highlight");
|
||||
window.history.replaceState({}, "", url);
|
||||
|
||||
// get individual terms from highlight string
|
||||
const terms = highlight.toLowerCase().split(/\s+/).filter(x => x);
|
||||
if (terms.length === 0) return; // nothing to do
|
||||
|
||||
// There should never be more than one element matching "div.body"
|
||||
const divBody = document.querySelectorAll("div.body");
|
||||
const body = divBody.length ? divBody[0] : document.querySelector("body");
|
||||
window.setTimeout(() => {
|
||||
terms.forEach((term) => _highlightText(body, term, "highlighted"));
|
||||
}, 10);
|
||||
|
||||
const searchBox = document.getElementById("searchbox");
|
||||
if (searchBox === null) return;
|
||||
searchBox.appendChild(
|
||||
document
|
||||
.createRange()
|
||||
.createContextualFragment(
|
||||
'<p class="highlight-link">' +
|
||||
'<a href="javascript:SphinxHighlight.hideSearchWords()">' +
|
||||
_("Hide Search Matches") +
|
||||
"</a></p>"
|
||||
)
|
||||
);
|
||||
},
|
||||
|
||||
/**
|
||||
* helper function to hide the search marks again
|
||||
*/
|
||||
hideSearchWords: () => {
|
||||
document
|
||||
.querySelectorAll("#searchbox .highlight-link")
|
||||
.forEach((el) => el.remove());
|
||||
document
|
||||
.querySelectorAll("span.highlighted")
|
||||
.forEach((el) => el.classList.remove("highlighted"));
|
||||
localStorage.removeItem("sphinx_highlight_terms")
|
||||
},
|
||||
|
||||
initEscapeListener: () => {
|
||||
// only install a listener if it is really needed
|
||||
if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return;
|
||||
|
||||
document.addEventListener("keydown", (event) => {
|
||||
// bail for input elements
|
||||
if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return;
|
||||
// bail with special keys
|
||||
if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return;
|
||||
if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) {
|
||||
SphinxHighlight.hideSearchWords();
|
||||
event.preventDefault();
|
||||
}
|
||||
});
|
||||
},
|
||||
};
|
||||
|
||||
_ready(() => {
|
||||
/* Do not call highlightSearchWords() when we are on the search page.
|
||||
* It will highlight words from the *previous* search query.
|
||||
*/
|
||||
if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords();
|
||||
SphinxHighlight.initEscapeListener();
|
||||
});
|
||||
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