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https://bitbucket.org/cosmicvoids/vide_public.git
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140 lines
5.1 KiB
Python
140 lines
5.1 KiB
Python
#!/usr/bin/env python
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#+
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# VIDE -- Void IDentification and Examination -- ./python_tools/void_pipeline/__init__.py
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# Copyright (C) 2010-2014 Guilhem Lavaux
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# Copyright (C) 2011-2014 P. M. Sutter
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#
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# This program is free software; you can redistribute it and/or modify
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# it under the terms of the GNU General Public License as published by
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# the Free Software Foundation; version 2 of the License.
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#
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#
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# This program is distributed in the hope that it will be useful,
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# but WITHOUT ANY WARRANTY; without even the implied warranty of
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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# GNU General Public License for more details.
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#
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# You should have received a copy of the GNU General Public License along
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# with this program; if not, write to the Free Software Foundation, Inc.,
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# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
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#+
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# Stage 1 : generate particles
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# Stage 2 : find voids
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# Stage 3 : prune catalog
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from vide.backend import *
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import vide
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import imp
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import os
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import pickle
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# ------------------------------------------------------------------------------
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if (len(sys.argv) == 1):
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print("Usage: python3 -m void_pipeline parameter_file.py")
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exit(-1)
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if (len(sys.argv) > 1):
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filename = sys.argv[1]
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print(" Loading parameters from", filename)
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if not os.access(filename, os.F_OK):
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print(" Cannot find parameter file %s!" % filename)
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exit(-1)
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parms = imp.load_source("name", filename)
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regenerateFlag = False
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globals().update(vars(parms))
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void_path = os.path.split(vide.__file__)[0]
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ZOBOV_PATH=f'{void_path}/bin/'
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CTOOLS_PATH=ZOBOV_PATH
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print(f"ZOBOV_PATH is {ZOBOV_PATH}")
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else:
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print(" Using default parameters")
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# ------------------------------------------------------------------------------
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# ------------------------------------------------------------------------------
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if not os.access(logDir, os.F_OK):
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os.makedirs(logDir)
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if not os.access(figDir, os.F_OK):
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os.makedirs(figDir)
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if not continueRun:
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print(" Cleaning out log files...")
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if startCatalogStage <= 1 and glob.glob(logDir+"/generate*") != []:
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os.system("rm %s/generate*" % logDir)
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if startCatalogStage <= 2 and glob.glob(logDir+"/zobov*") != []:
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os.system("rm %s/zobov*" % logDir)
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if startCatalogStage <= 3 and glob.glob(logDir+"/prune*") != []:
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os.system("rm %s/prune*" % logDir)
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for sample in dataSampleList:
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sampleName = sample.fullName
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print(" Working with data set", sampleName, "...")
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zobovDir = workDir+"/sample_"+sampleName+"/"
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sample.zobovDir = zobovDir
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if not os.access(zobovDir, os.F_OK):
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os.makedirs(zobovDir)
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# ---------------------------------------------------------------------------
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if (startCatalogStage <= 1) and (endCatalogStage >= 1) and not sample.isCombo:
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print(" Extracting tracers from catalog...", end=' ')
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sys.stdout.flush()
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logFile = logDir+"/generate_"+sampleName+".out"
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if sample.dataType == "observation":
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GENERATE_PATH = CTOOLS_PATH+"/generateFromCatalog"
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else:
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GENERATE_PATH = CTOOLS_PATH+"/generateMock"
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launchGenerate(sample, GENERATE_PATH, workDir=workDir,
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inputDataDir=inputDataDir, zobovDir=zobovDir,
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figDir=figDir, logFile=logFile, useComoving=sample.useComoving,
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continueRun=continueRun, regenerate=regenerateFlag)
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# --------------------------------------------------------------------------
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if (startCatalogStage <= 2) and (endCatalogStage >= 2) and not sample.isCombo:
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print(" Extracting voids with ZOBOV...", end=' ')
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sys.stdout.flush()
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launchZobov(sample, ZOBOV_PATH, zobovDir=zobovDir, logDir=logDir,
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continueRun=continueRun, numZobovDivisions=numZobovDivisions,
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numZobovThreads=numZobovThreads, mergingThreshold=mergingThreshold)
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# -------------------------------------------------------------------------
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if (startCatalogStage <= 3) and (endCatalogStage >= 3) and not sample.isCombo:
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print(" Taking data portions", "...", end=' ')
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sys.stdout.flush()
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logFile = logDir+"/pruneVoids_"+sampleName+".out"
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PRUNE_PATH = CTOOLS_PATH+"/pruneVoids"
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launchPrune(sample, PRUNE_PATH,
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logFile=logFile, zobovDir=zobovDir,
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useComoving=sample.useComoving, continueRun=continueRun, mergingThreshold=mergingThreshold)
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# -------------------------------------------------------------------------
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if (startCatalogStage <= 4) and (endCatalogStage >= 4):
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print(" Plotting...", end=' ')
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sys.stdout.flush()
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#for thisDataPortion in dataPortions:
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#plotRedshiftDistribution(workDir, dataSampleList, figDir, showPlot=False,
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# dataPortion=thisDataPortion, setName=setName)
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#plotSizeDistribution(workDir, dataSampleList, figDir, showPlot=False,
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# dataPortion=thisDataPortion, setName=setName)
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#plotNumberDistribution(workDir, dataSampleList, figDir, showPlot=False,
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# dataPortion=thisDataPortion, setName=setName)
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#plotVoidDistribution(workDir, dataSampleList, figDir, showPlot=False,
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# dataPortion=thisDataPortion, setName=setName)
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print("\n Done!")
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