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csiborgtools/notebooks/field_sample.ipynb
Richard Stiskalek 9e4b34f579
Overlap fixing and more (#107) 
* Update README

* Update density field reader

* Update name of SDSSxALFAFA

* Fix quick bug

* Add little fixes

* Update README

* Put back fit_init

* Add paths to initial snapshots

* Add export

* Remove some choices

* Edit README

* Add Jens' comments

* Organize imports

* Rename snapshot

* Add additional print statement

* Add paths to initial snapshots

* Add masses to the initial files

* Add normalization

* Edit README

* Update README

* Fix bug in CSiBORG1 so that does not read fof_00001

* Edit README

* Edit README

* Overwrite comments

* Add paths to init lag

* Fix Quijote path

* Add lagpatch

* Edit submits

* Update README

* Fix numpy int problem

* Update README

* Add a flag to keep the snapshots open when fitting

* Add a flag to keep snapshots open

* Comment out some path issue

* Keep snapshots open

* Access directly snasphot

* Add lagpatch for CSiBORG2

* Add treatment of x-z coordinates flipping

* Add radial velocity field loader

* Update README

* Add lagpatch to Quijote

* Fix typo

* Add setter

* Fix typo

* Update README

* Add output halo cat as ASCII

* Add import

* Add halo plot

* Update README

* Add evaluating field at radial distanfe

* Add field shell evaluation

* Add enclosed mass computation

* Add BORG2 import

* Add BORG boxsize

* Add BORG paths

* Edit run

* Add BORG2 overdensity field

* Add bulk flow clauclation

* Update README

* Add new plots

* Add nbs

* Edit paper

* Update plotting

* Fix overlap paths to contain simname

* Add normalization of positions

* Add default paths to CSiBORG1

* Add overlap path simname

* Fix little things

* Add CSiBORG2 catalogue

* Update README

* Add import

* Add TNG density field constructor

* Add TNG density

* Add draft of calculating BORG ACL

* Fix bug

* Add ACL of enclosed density

* Add nmean acl

* Add galaxy bias calculation

* Add BORG acl notebook

* Add enclosed mass calculation

* Add TNG300-1 dir

* Add TNG300 and BORG1 dir

* Update nb
2024-01-30 16:14:07 +00:00

2 MiB
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In [1]:
import numpy as np
import matplotlib.pyplot as plt
from h5py import File
from scipy.stats import spearmanr

import csiborgtools

%matplotlib inline
%load_ext autoreload
%autoreload 2
In [2]:
paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)

# d = np.load(paths.field_interpolated("SDSS", "csiborg2_main", 16817, "density", "SPH", 1024))
In [33]:
survey = csiborgtools.SDSS()(apply_selection=False)
# survey = csiborgtools.SDSSxALFALFA()(apply_selection=False)
In [35]:
for kind in ["main", "random"]:
    x, smooth = csiborgtools.summary.read_interpolated_field(survey, f"csiborg2_{kind}", "density", "SPH", 1024, paths)
    np .savez(f"../data/{survey.name}_{kind}_density_SPH_1024.npz", val=x, smooth_scales=smooth)

Reading fields:   0%|          | 0/20 [00:00<?, ?it/s]Reading fields: 100%|██████████| 20/20 [00:11<00:00,  1.80it/s]
Reading fields: 100%|██████████| 20/20 [00:10<00:00,  1.86it/s]
In [37]:
Out[37]:
(20, 641409, 5)
In [24]:
np.load("../data/SDSS_main_density_SPH_1024.npz")["val"]
Out[24]:
array([[[nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        ...,
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan]],

       [[nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        ...,
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan]],

       [[nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        ...,
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan]],

       ...,

       [[nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        ...,
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan]],

       [[nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        ...,
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan]],

       [[nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        ...,
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan],
        [nan, nan, nan, nan, nan]]], dtype=float32)
In [ ]: