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Implemented (yet another) new boundary handling scheme, whereby we scan radially along survey edge while flagging nearest galaxies. The prepObservation routine was significantly cleaned up to accommodate this, but it was ultimately implemented in python (surveyTools.py) for ease of prototyping, with the intent to move it back into C later.

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Some general housekeeping, making sure some new parameters are passed around correctly, and removing the storage of some unused files.

This update is considered HIGHLY UNSTABLE. It will almost certainly break somewhere for simulations.

Still under active development.
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Paul M. Sutter 2025-01-07 20:04:29 +08:00
parent 62dd66be79
commit 3dce2593d9
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26
README.md
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@ -89,26 +89,24 @@ Usage: python3 -m vide_pipeline parameter_file.py
The VIDE tools are all packaged in the `vide` package.
Running with observation
-----------------------
An example parameter file and dataset is given in the examples/example_observation directory. The parameter file contains all the information VIDE needs to run: where to find inputs and place outputs, tolerances for managing boundary handling, and information about your particular datasets, like redshift boundaries. To see how this works, here is an example:
cd examples/example_observation
python3 -m vide_pipeline example_observation.py
Running with simulation
-----------------------
Using simulation requires a preliminary step, consisting in using the script
`vide_prepare_simulation` which is installed during the installation procedure.
The script generates mock catalog and a default pipeline to handle simulations.
An example of the complete procedure is given here-below:
```
mkdir $HOME/my_vide_test
cp python_tools/vide_pipeline/datasets/example_simulation.py $HOME/my_vide_test
mkdir $HOME/my_vide_test/examples
cp examples/example_simulation_z0.0.dat $HOME/my_vide_test/examples
cd $HOME/my_vide_test
vide_prepare_simulation --all --parm example_simulation.py
Working with simulations requires a preliminary step, consisting in using the script "vide_prepare_simulation" which is installed automatically. This script performs necessary processing on your simulation file, such as extracting slices, performing subsampling, placing particles on a lightcone, and so on. For a demonstration, see the "example_simulation.py" parameter file in the examples/example_simulation/ directory. Running this script creates a series of auxillary parameter files that can then be run individually for void finding. Here is an example of this procedure:
cd examples/example_simulation
vide_prepare_simulation --all --parm example_simulation.py
python3 -m vide_pipeline example_simulation/sim_ss1.0.py
```
The example copies the required data in a separate directory. Then, we execute
the `vide_prepare_simulation` script to generate the auxiliary pipeline. The
`vide_pipeline` is finally executed on this generated script.
Notes for CONDA
---------------