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added a-p analysis script to repo; some minor bug fixes to adjust tools to work with simulation data

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This commit is contained in:
P.M. Sutter 2012-11-02 08:19:23 -05:00
parent de6dbd3051
commit 21431f9a31
6 changed files with 41 additions and 1500 deletions
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18
GetQhull.cmake
View file

@ -1,18 +0,0 @@
SET(QHULL_BASE_PATH CACHE PATH "Qhull base path")
find_path(QHULL_INCLUDE_PATH qhull_a.h HINTS ${QHULL_BASE_PATH}/src/libqhull)
find_path(QHULL_CPP_INCLUDE_PATH Qhull.h HINTS ${QHULL_BASE_PATH}/src/libqhullcpp)
find_library(QHULL_LIBRARY qhull_p HINTS ${QHULL_BASE_PATH}/lib)
find_library(QHULL_CPP_LIBRARY qhullcpp HINTS ${QHULL_BASE_PATH}/lib)
find_library(QHULL_P_LIBRARY qhullstatic_p HINTS ${QHULL_BASE_PATH}/lib)
if ((NOT QHULL_INCLUDE_PATH) OR (NOT QHULL_CPP_LIBRARY))
message(SEND_ERROR "Qhull library not found")
endif((NOT QHULL_INCLUDE_PATH) OR (NOT QHULL_CPP_LIBRARY))
set(QHULL_INCLUDES ${QHULL_INCLUDE_PATH} ${QHULL_INCLUDE_PATH}/.. ${QHULL_CPP_INCLUDE_PATH} ${QHULL_BASE_PATH}/src)
set(QHULL_LIBRARIES ${QHULL_CPP_LIBRARY} ${QHULL_P_LIBRARY})
add_definitions(-Dqh_QHpointer)
mark_as_advanced(QHULL_INCLUDE_PATH QHULL_CPP_INCLUDE_PATH QHULL_LIBRARY QHULL_CPP_LIBRARY QHULL_P_LIBRARY)

1
c_tools/mock/generateMock.cpp
View file

@ -391,6 +391,7 @@ void makeBox(SimuData *simu, double *efac, SimuData *&boxed, generateMock_info&
f.add_att("range_y_max", ranges[1][1]);
f.add_att("range_z_min", ranges[2][0]);
f.add_att("range_z_max", ranges[2][1]);
f.add_att("mask_index", -1);
NcDim *NumPart_dim = f.add_dim("numpart_dim", boxed->NumPart);
NcVar *v = f.add_var("particle_ids", ncInt, NumPart_dim);

3
pipeline/generateCatalog.py
View file

@ -23,9 +23,8 @@ if (len(sys.argv) > 1):
filename = sys.argv[1]
print " Loading parameters from", filename
if not os.access(filename, os.F_OK):
print " Cannot find parameter file!"
print " Cannot find parameter file %s!" % filename
exit(-1)
#parms = __import__(filename[:-3], globals(), locals(), ['*'])
parms = imp.load_source("name", filename)
globals().update(vars(parms))
else:

6
pipeline/prepareCatalogs.py
View file

@ -196,8 +196,10 @@ newSample.addStack({zMin}, {zMax}, {minRadius}+18, {minRadius}+24, True, False)
mySubvolume = "%d%d" % (iX, iY)
sampleName = getSampleName(prefix, base, redshift, useVel,
iSlice=iSlice, iVol=mySubvolume)
sampleName = getSampleName(prefix, base, sliceMin, useVel,
iSlice=-1, iVol=mySubvolume)
#sampleName = getSampleName(prefix, base, redshift, useVel,
# iSlice=iSlice, iVol=mySubvolume)
scriptFile.write(sampleInfo.format(dataFile=dataFileName,
dataFormat=dataFormat,

1453
python_tools/void_python_tools/backend/backend.py
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File diff suppressed because it is too large Load diff

60
python_tools/void_python_tools/backend/launchers.py
View file

@ -150,6 +150,9 @@ def launchGenerate(sample, binPath, workDir=None, inputDataDir=None,
else:
print "already done!"
if os.access("comoving_distance.txt", os.F_OK):
os.system("mv %s %s" % ("comoving_distance.txt", zobovDir))
if os.access(parmFile, os.F_OK):
os.unlink(parmFile)
@ -460,34 +463,37 @@ def launchStack(sample, stack, binPath, thisDataPortion=None, logDir=None,
return
# figure out box volume and average density
maskFile = sample.maskFile
sulFunFile = sample.selFunFile
if sample.dataType == "observation":
maskFile = sample.maskFile
sulFunFile = sample.selFunFile
if not os.access(sample.selFunFile, os.F_OK) and not volumeLimited:
print " Cannot find", selFunFile, "!"
exit(-1)
if not os.access(sample.selFunFile, os.F_OK) and not sample.volumeLimited:
print " Cannot find", selFunFile, "!"
exit(-1)
sys.stdout = open(logFile, 'a')
sys.stderr = open(logFile, 'a')
zMin = sample.zRange[0]
zMax = sample.zRange[1]
if not sample.volumeLimited:
props = vp.getSurveyProps(maskFile, stack.zMin,
stack.zMax, zMin, zMax, "all",
selectionFuncFile=sample.selFunFile)
sys.stdout = open(logFile, 'a')
sys.stderr = open(logFile, 'a')
zMin = sample.zRange[0]
zMax = sample.zRange[1]
if not sample.volumeLimited:
props = vp.getSurveyProps(maskFile, stack.zMin,
stack.zMax, zMin, zMax, "all",
selectionFuncFile=sample.selFunFile)
else:
zMinForVol = sample.zBoundary[0]
zMaxForVol = sample.zBoundary[1]
props = vp.getSurveyProps(maskFile, zMinForVol,
zMaxForVol, zMin, zMax, "all")
sys.stdout = sys.__stdout__
sys.stderr = sys.__stderr__
boxVol = props[0]
nbar = props[1]
if sample.volumeLimited:
nbar = 1.0
else:
zMinForVol = sample.zBoundary[0]
zMaxForVol = sample.zBoundary[1]
props = vp.getSurveyProps(maskFile, zMinForVol,
zMaxForVol, zMin, zMax, "all")
sys.stdout = sys.__stdout__
sys.stderr = sys.__stderr__
boxVol = props[0]
nbar = props[1]
if sample.volumeLimited:
nbar = 1.0
boxVol = sample.boxLen**3
summaryLine = runSuffix + " " + \
thisDataPortion + " " + \
@ -1173,7 +1179,11 @@ def launchHubble(dataPortions=None, dataSampleList=None, logDir=None,
voidDir = sample.zobovDir+"/stacks_" + runSuffix
centersFile = voidDir+"/centers.txt"
if os.access(centersFile, os.F_OK):
voidRedshifts = np.loadtxt(centersFile)[:,5]
voidRedshifts = np.loadtxt(centersFile)
if voidRedshifts.ndim > 1:
voidRedshifts = voidRedshifts[:,5]
else:
voidRedshifts = voidRedshifts[5]
#fp.write(str(len(voidRedshifts))+" ")
np.savetxt(fp, voidRedshifts[None])
else: