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added density thresholding for halos and galaxies in preparation scripts
This commit is contained in:
P.M. Sutter
parent
615e60c5d2
commit
4d853bbe09
2 changed files with 214 additions and 30 deletions
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@ -111,6 +111,9 @@ haloFileDummy = 'NNNNN'
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# use "none" to get all halos
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minHaloMasses = [1.2e13]
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# density threshold for halo catalogs
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haloDenList = [0.0002]
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# locations of data in the halo catalog
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haloFileMCol = 6
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haloFileXCol = 0
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@ -135,7 +138,6 @@ lbox = 999.983 # Mpc/h
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omegaM = 0.2847979853038958
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hubble = 0.6962
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#galDens = 0.000225
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hodParmList = [
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{'name' : "dr9mid", #BOSS: Manera et al. 2012, eq. 26
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'Mmin' : 0.0,
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@ -143,7 +145,8 @@ hodParmList = [
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'sigma_logM' : 0.596,
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'alpha' : 1.0127,
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'Mcut' : 1.19399e13,
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'galDens' : 0.0002,
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'galDens' : 0.0002, # density passed to HOD code
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'galDensFinal' : 0.0002, # subsample galaxies to reach this density
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},
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]
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@ -549,7 +549,7 @@ for iSubSample in xrange(len(subSamples)):
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prevSubSample = thisSubSample
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# -----------------------------------------------------------------------------
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# now halos
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# now halos - filter on mass
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if (args.script or args.all) and haloFileBase != "":
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for minHaloMass in minHaloMasses:
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@ -612,8 +612,8 @@ if (args.script or args.all) and haloFileBase != "":
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numSubvolumes, numSlices, True, lbox, minRadius, omegaM,
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dataFileNameList = fileList)
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if (args.halos or args.all) and haloFileBase != "":
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print " Doing halos"
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if (args.halos or args.all) and haloFileBase != "" and len(minHaloMasses) > 0:
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print " Doing halos - mass"
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sys.stdout.flush()
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for minHaloMass in minHaloMasses:
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@ -664,11 +664,20 @@ if (args.halos or args.all) and haloFileBase != "":
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outFile.close()
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if dataFormat == "sdf":
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idTag = "id"
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for line in open(dataFile):
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if "int64_t id" in line:
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idTag = "id"
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break
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if "int64_t ident" in line:
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idTag = "ident"
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break
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SDFcvt_PATH = "@CMAKE_BINARY_DIR@/external/libsdf/apps/SDFcvt/SDFcvt.x86_64"
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if minHaloMass == "none":
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command = "%s -a 200000 %s mass ident x y z vz vy vx parent_id | awk '{if ($9==-1) print $2, $3, $4, $5, $6, $7, $8, $1}'>>%s" % (SDFcvt_PATH, dataFile, outFileName )
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command = "%s -a 200000 %s mass %s x y z vz vy vx parent_id | awk '{if ($9==-1) print $2, $3, $4, $5, $6, $7, $8, $1}'>>%s" % (SDFcvt_PATH, idTag, dataFile, outFileName )
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else:
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command = "%s -a 200000 %s mass ident x y z vz vy vx parent_id | awk '{if ($1>%g && $9==-1) print $2, $3, $4, $5, $6, $7, $8, $1}'>>%s" % (SDFcvt_PATH, dataFile, minHaloMass, outFileName )
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command = "%s -a 200000 %s mass %s x y z vz vy vx parent_id | awk '{if ($1>%g && $9==-1) print $2, $3, $4, $5, $6, $7, $8, $1}'>>%s" % (SDFcvt_PATH, idTag, dataFile, minHaloMass, outFileName )
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#os.system(command)
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subprocess.call(command, shell=True)
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outFile = open(outFileName, 'a')
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@ -697,6 +706,154 @@ if (args.halos or args.all) and haloFileBase != "":
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outFile.close()
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inFile.close()
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# -----------------------------------------------------------------------------
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# now halos - filter on density
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if (args.script or args.all) and haloFileBase != "":
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for haloDen in haloDenList:
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print " Doing halo script", haloDen
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sys.stdout.flush()
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# estimate number of halos to get density
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if haloFileDummy == '':
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dataFile = catalogDir+haloFileBase+fileNums[0]
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else:
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dataFile = catalogDir+haloFileBase.replace(haloFileDummy,
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fileNums[0])
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numPart = haloDen * lbox**3
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meanDen = lbox/numPart**(1./3.)
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if meanDen < 1:
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minRadius = 4
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else:
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minRadius = int(np.ceil(meanDen))
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setName = prefix+"halos_den"+str(haloDen)
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fileList = []
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for (iRedshift, redshift) in enumerate(redshifts):
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sampleName = getSampleName(setName, redshift, False)
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outFileName = sampleName+".dat"
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fileList.append(outFileName)
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writeScript(setName, prefix+"halos_den"+str(haloDen)+"_z", "multidark",
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scriptDir, catalogDir, fileNums,
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redshifts,
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numSubvolumes, numSlices, False, lbox, minRadius, omegaM,
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dataFileNameList = fileList)
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if doPecVel:
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writeScript(setName, prefix+"halos_den"+str(haloDen)+"_z",
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"multidark",
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scriptDir, catalogDir, fileNums,
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redshifts,
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numSubvolumes, numSlices, True, lbox, minRadius, omegaM,
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dataFileNameList = fileList)
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if (args.halos or args.all) and haloFileBase != "":
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print " Doing halos - density"
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sys.stdout.flush()
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for haloDen in haloDenList:
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print " halo density = ", haloDen
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sys.stdout.flush()
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for (iRedshift, redshift) in enumerate(redshifts):
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print " z = ", redshift
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sys.stdout.flush()
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if haloFileDummy == '':
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dataFile = catalogDir+haloFileBase+fileNums[iRedshift]
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else:
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dataFile = catalogDir+haloFileBase.replace(haloFileDummy,
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fileNums[iRedshift])
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# check the actual density of halos
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inFile = open(dataFile, 'r')
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numPart = 0
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if dataFormat == "sdf":
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for line in inFile:
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if "nhalos" in line:
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numPart = int(line.split()[3].strip(';'))
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break
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if "npart" in line:
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numPart = int(line.split()[3].strip(';'))
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break
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inFile.close()
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else:
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for (iLine, line) in enumerate(inFile):
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if iLine < haloFileNumComLines: continue
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numPart += 1
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inFile.close()
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numPartExpect = int(np.ceil(haloDen * lbox**3))
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if numPart < numPartExpect:
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print " ERROR: not enough halos to support that density! Maximum is %g" % (1.*numPart / lbox**3)
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exit(-1)
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sampleName = prefix+"halos_den"+str(haloDen)+"_z"+redshifts[iRedshift]
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outFileName = catalogDir+"/"+sampleName+".dat"
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outFile = open(outFileName, 'w')
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outFile.write("%f\n" %(lbox))
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outFile.write("%s\n" %(omegaM))
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outFile.write("%s\n" %(hubble))
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outFile.write("%s\n" %(redshift))
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outFile.write("%d\n" %(numPartExpect))
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outFile.close()
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if dataFormat == "sdf":
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idTag = "id"
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for line in open(dataFile):
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if "int64_t id" in line:
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idTag = "id"
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break
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if "int64_t ident" in line:
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idTag = "ident"
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break
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SDFcvt_PATH = "@CMAKE_BINARY_DIR@/external/libsdf/apps/SDFcvt/SDFcvt.x86_64"
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command = "%s -a 200000 %s mass %s x y z vz vy vx parent_id | sort -rg -k 1 | awk '{if ($9==-1 && NR < %d) print $2, $3, $4, $5, $6, $7, $8, $1}'>>%s" % (SDFcvt_PATH, dataFile, idTag, numPartExpect, outFileName )
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#os.system(command)
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subprocess.call(command, shell=True)
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outFile = open(outFileName, 'a')
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outFile.write("-99 -99 -99 -99 -99 -99 -99 -99\n")
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outFile.close()
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else:
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inFile = open(dataFile, 'r')
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haloList = []
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for (iHalo,line) in enumerate(inFile):
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if iHalo < haloFileNumComLines: continue
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line = line.split(haloFileColSep)
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x = float(line[haloFileXCol]) * haloFilePosRescale
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y = float(line[haloFileYCol]) * haloFilePosRescale
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z = float(line[haloFileZCol]) * haloFilePosRescale
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vz = float(line[haloFileVZCol])
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vy = float(line[haloFileVYCol])
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vx = float(line[haloFileVXCol])
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mass = float(line[haloFileMCol])
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haloList.append((x,y,z,vz,vy,vx,mass))
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inFile.close()
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haloList = np.array(haloList)
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haloMasses = haloList[:,6]
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haloList = haloList[np.argsort(haloMasses)[::-1]]
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outFile = open(outFileName, 'a')
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for iHalo in xrange(numPartExpect):
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x = haloList[iHalo,0]
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y = haloList[iHalo,1]
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z = haloList[iHalo,2]
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vz = haloList[iHalo,3]
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vy = haloList[iHalo,4]
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vx = haloList[iHalo,5]
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mass = haloList[iHalo,6]
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# write to output file
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outFile.write("%d %e %e %e %e %e %e %e\n" %(iHalo,x,y,z,
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vz,vy,vx,mass))
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outFile.write("-99 -99 -99 -99 -99 -99 -99 -99\n")
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outFile.close()
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# -----------------------------------------------------------------------------
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# now the HOD
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parFileText = """
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@ -754,27 +911,13 @@ if (args.script or args.all) and haloFileBase != "":
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print " ", thisHod['name']
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# estimate number of halos to get density
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if haloFileDummy == '':
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dataFile = catalogDir+haloFileBase+fileNums[0]
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numPart = thisHod['galDensFinal'] * lbox**3
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meanDen = lbox/numPart**(1./3.)
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if meanDen < 1:
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minRadius = 4
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else:
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dataFile = catalogDir+haloFileBase.replace(haloFileDummy,
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fileNums[0])
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if dataFormat == "sdf":
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numPart = 0
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SDFcvt_PATH = "@CMAKE_BINARY_DIR@/external/libsdf/apps/SDFcvt/SDFcvt.x86_64"
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command = "%s -a 200000 %s mass parent_id | awk '{if ($1>%g && $2==-1) print $1}' | wc" % (SDFcvt_PATH, dataFile, thisHod['Mcut'])
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numPart = subprocess.check_output(command, shell=True)
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numPart = int(numPart.split()[0])
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else:
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inFile = open(dataFile, 'r')
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for (iHalo,line) in enumerate(inFile):
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if iHalo < haloFileNumComLines: continue
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line = line.split(haloFileColSep)
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if float(line[haloFileMCol]) > thisHod['Mcut']: numPart += 1
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inFile.close()
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minRadius = int(np.ceil(float(lbox)/numPart**(1./3.)))
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minRadius = int(np.ceil(meanDen))
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setName = prefix+"hod_"+thisHod['name']
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writeScript(setName, prefix+"hod_"+thisHod['name']+"_z", "multidark",
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scriptDir, catalogDir, fileNums, redshifts,
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@ -824,6 +967,7 @@ if (args.hod or args.all) and haloFileBase != "":
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sigma_logM=thisHod['sigma_logM'],
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alpha=thisHod['alpha'],
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Mcut=thisHod['Mcut'],
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#galden=-1,
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galden=thisHod['galDens'],
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haloFile=haloFile,
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haloFileFormat=dataFormat,
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@ -857,9 +1001,46 @@ if (args.hod or args.all) and haloFileBase != "":
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print line
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exit(-1)
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outFileName = catalogDir+"/"+sampleName+".dat"
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os.system("mv %s/hod_%s.mock %s" % (catalogDir, sampleName, outFileName))
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os.system("rm %s/hod.*" % catalogDir)
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# now randomly subsample the galaxies to get desired density
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inFile = open(catalogDir+"/hod_"+sampleName+".mock")
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numPartExpect = thisHod['galDensFinal'] * lbox**3
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numPartActual = 0
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actualDen = 0
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for (iLine,line) in enumerate(inFile):
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numPartActual += 1
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inFile.close()
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if numPartActual < numPartExpect:
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print " ERROR: not enough halos to support that density! Maximum is %g" % (1.*numPartActual / lbox**3)
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exit(-1)
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actualDen = 1.*numPartActual / lbox**3
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keepFraction = float(thisHod['galDensFinal']) / actualDen
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inFile = open(catalogDir+"/hod_"+sampleName+".mock")
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outFile = open(catalogDir+"/"+sampleName+".dat", 'w')
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outFile.write("%f\n" %(lbox))
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outFile.write("%s\n" %(omegaM))
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outFile.write("%s\n" %(hubble))
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outFile.write("%s\n" %(redshift))
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outFile.write("%d\n" %(numPartExpect))
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numKept = 0
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for (iLine,line) in enumerate(inFile):
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if np.random.uniform() > keepFraction: continue
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outFile.write(line)
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numKept += 1
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inFile.close()
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os.unlink(catalogDir+"/hod_"+sampleName+".mock")
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outFile.write("-99 -99 -99 -99 -99 -99 -99 -99\n")
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outFile.close()
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#os.system("mv %s/hod_%s.mock %s" % (catalogDir, sampleName, outFileName))
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#os.system("rm %s/hod.*" % catalogDir)
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os.system("rm ./hod.par")
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os.system("rm ./hod-usedvalues")
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