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This is VIDE, the Void IDentification and Examination toolkit.
For more information, see http://www.cosmicvoids.net
Please cite arXiv:1406.1191 and arXiv:0712.0349 if you use this software, using the following suggested sentence:
"This work uses voids identified with VIDE\footnote{\url{http:www.cosmicvoids.net}} (Sutter et al. 2014), which implements an enhanced version of ZOBOV (Neyrinck 2008) to construct voids with a watershed algorithm."
License/Copyright information
Copyright (C) 2010-2020 Guilhem Lavaux, 2011-2014 P.M. Sutter. This software is put under the GNU Public License. Please see LICENSE for further information.
Mainline VIDE contributions from Ben Wandelt, Nico Hamaus, Alice Pisani,
Paul Zivick, and Qingqing Mao.
This toolkit includes ZOBOV, originally developed by Mark Neyrinck.
See zobov/zobov_readme.txt for copyright/license information.
SDF library provided by Michael S. Warren and John Salmon.
HOD fitting code provided by Francisco Navarro.
HOD halo population code provided by Jeremy Tinker.
RAMSES module provided by Benjamin B. Thompson.
Requirements
The package swig needs to be installed and available in the PATH (http://www.swig.org/). It is required by scipy and we have not decided to bundle it with VIDE at the moment.
Quick Start Guide
After installing the package with python3 setup.py install --user, you can execute
python3 -m void_pipeline your_config_file.py
The VIDE tools are all packaged in the vide package.
Running with simulation
!! Temporary measure !!
After build the vide package and installing it with python3 setup.py install (for example), it is possible to find the
script to build the pipeline for simulations in build/temp.[SOMETHING]/pipeline/prepareInputs.py. Just copy that script where
you want the analysis and execute it directly with the parameter file as an argument.
For example:
mkdir $HOME/my_vide_test
cp build/temp.[SOMETHING]/pipeline/prepareInputs.py $HOME/my_vide_test
cp python_tools/void_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
python3 prepareInputs.py --all --parm example_simulation.py
python3 -m void_pipeline example_simulation/sim_ss1.0.py
Notes for CONDA
If you use a conda installation, you have to be sure to use all the building tools that
are consistent. On linux that means for example installing the conda packages gcc_linux-64
and gxx_linux-64. In addition to that it is recommended to define the environment variable
LIBRARY_PATH=the_path_of_your_conda_environment_with_/lib. For example if your environment
is in '/home/user/conda' you should define
export LIBRARY_PATH=/home/user/conda/lib
You can then initiate the construction with
python3 setup.py build
Version Summary
v1.0 - Initial Release v2.0 - Ported to python3, revisited build system