def run(display=False):
#
# Create the tasks
#
charImageConfig = CharacterizeImageTask.ConfigClass()
charImageTask = CharacterizeImageTask(config=charImageConfig)
config = CalibrateTask.ConfigClass()
config.astrometry.retarget(MyAstrometryTask)
calibrateTask = CalibrateTask(config=config)
# load the data
# Exposure ID and the number of bits required for exposure IDs are usually obtained from a data repo,
# but here we pick reasonable values (there are 64 bits to share between exposure IDs and source IDs).
exposure = loadData()
exposureIdInfo = ExposureIdInfo(expId=1, expBits=5)
# characterize the exposure to repair cosmic rays and fit a PSF model
# display now because CalibrateTask modifies the exposure in place
charRes = charImageTask.characterize(exposure=exposure,
exposureIdInfo=exposureIdInfo)
if display:
displayFunc(charRes.exposure, charRes.sourceCat, frame=1)
# calibrate the exposure
calRes = calibrateTask.calibrate(exposure=charRes.exposure,
exposureIdInfo=exposureIdInfo)
if display:
displayFunc(calRes.exposure, calRes.sourceCat, frame=2)
def processCCDs(image):
from lsst.pipe.tasks.calibrate import CalibrateTask, CalibrateConfig
from lsst.pipe.tasks.characterizeImage import CharacterizeImageTask
calibRes = None
# init tasks
charImage = CharacterizeImageTask()
calibrateConfig = CalibrateConfig(doPhotoCal=False,
doAstrometry=False,
doDeblend=False)
calibrateTask = CalibrateTask(config=calibrateConfig)
try:
# characterize image
charRes = charImage.characterize(image,
exposureIdInfo=None,
background=None)
# calibrate image
calibRes = calibrateTask.calibrate(charRes.exposure,
exposureIdInfo=None,
background=charRes.background,
icSourceCat=None)
except Exception as e:
print "failed to calibrate the image"
print str(e)
return calibRes
def run(display=False):
#
# Create the tasks
#
charImageConfig = CharacterizeImageTask.ConfigClass()
charImageTask = CharacterizeImageTask(config=charImageConfig)
config = CalibrateTask.ConfigClass()
config.astrometry.retarget(MyAstrometryTask)
calibrateTask = CalibrateTask(config=config)
# load the data
# Exposure ID and the number of bits required for exposure IDs are usually obtained from a data repo,
# but here we pick reasonable values (there are 64 bits to share between exposure IDs and source IDs).
exposure = loadData()
exposureIdInfo = ExposureIdInfo(expId=1, expBits=5)
# characterize the exposure to repair cosmic rays and fit a PSF model
# display now because CalibrateTask modifies the exposure in place
charRes = charImageTask.characterize(exposure=exposure, exposureIdInfo=exposureIdInfo)
if display:
displayFunc(charRes.exposure, charRes.sourceCat, frame=1)
# calibrate the exposure
calRes = calibrateTask.calibrate(exposure=charRes.exposure, exposureIdInfo=exposureIdInfo)
if display:
displayFunc(calRes.exposure, calRes.sourceCat, frame=2)
def run(display=False):
#
# Create the task using a butler constructed using the obs_test repo
#
butler = dafPersistence.Butler(os.path.join(lsst.utils.getPackageDir("obs_test"), "data", "input"))
charImageConfig = CharacterizeImageTask.ConfigClass()
charImageTask = CharacterizeImageTask(butler, config=charImageConfig)
config = CalibrateTask.ConfigClass()
config.astrometry.retarget(MyAstrometryTask)
calibrateTask = CalibrateTask(butler, config=config)
# load the data
# Exposure ID and the number of bits required for exposure IDs are usually obtained from a data repo,
# but here we pick reasonable values (there are 64 bits to share between exposure IDs and source IDs).
exposure = loadData()
exposureIdInfo = ExposureIdInfo(expId=1, expBits=5)
# characterize the exposure to repair cosmic rays and fit a PSF model
# display now because CalibrateTask modifies the exposure in place
charRes = charImageTask.characterize(exposure=exposure, exposureIdInfo=exposureIdInfo)
if display:
displayFunc(charRes.exposure, charRes.sourceCat, frame=1)
# calibrate the exposure
calRes = calibrateTask.calibrate(exposure=charRes.exposure, exposureIdInfo=exposureIdInfo)
if display:
displayFunc(calRes.exposure, calRes.sourceCat, frame=2)
def execute(self, dataRef):
"""!Characterize a science image
@param dataRef: butler data reference
@return a pipeBase Struct containing the results
"""
self.log.info("Performing Super Calibrate on sensor data ID %s" % (dataRef.dataId,))
self.log.info("Reading input data using dataRef")
inputData = self.read_input_data(dataRef)
self.log.info("Running operations. The run() method should not take anything Butler")
if self.config.doWrite and self.config.doAstrometry:
self.matchMeta = createMatchMetadata(inputData.getDict()['exposure'], border=self.pixelMargin)
else:
self.matchMeta = None
result = CalibrateTask.calibrate(CalibrateTask(config=self.config, log=self.log, icSourceSchema=self.icSourceSchema),
**inputData.getDict())
self.log.info("Writing output data using dataRef")
self.write_output_data(dataRef, result)
return result
except:
f = 0.0
input_lines.append(f)
########################
#### LSST Calib ########
########################
#reshape input_lines into a CCD image
nparray = np.asarray(input_lines, dtype=np.float32)
data = np.reshape(nparray, (4094, 2046)) #last param should reflect the chunk size
#process the image
maskedImage = bu.makeMaskedImageFromArrays(data, mask, variance)
image = afwImage.ExposureF(maskedImage)
image.setWcs(wcs)
charRes = charImage.characterize(image, exposureIdInfo=None, background=None)
calibRes = calibrateTask.calibrate(charRes.exposure, exposureIdInfo=None, background=charRes.background, icSourceCat=None)
#reshape it back to a single string
data_out = calibRes.exposure.getMaskedImage().getImage().getArray()
#persist to SciDB
print(num_lines)
for i in range(0,4094):
for j in range(0,2046):
print(data_out[i,j])
sys.stdout.flush()
else:
sys.stderr.write("=====> DFZ DEBUG: pid " + str(pid) + " finished at " + time.ctime() + "\n" )
sys.stderr.write("=====> DFZ DEBUG: total run time = " + str(datetime.datetime.now() - tm_start) + " seconds\n")
print(0)
#print("pid = " + pid + " finished in " + str(datetime.datetime.now() - tm_start) + " seconds")
def main():
# try out one exposure
#visits = ["0288935","0288976"] #,"0289893","0289913","0289931","0289614","0289818","0289820", "0289850","0289851","0289871","0289892", "0288935","0288976","0289016","0289056","0289161","0289202","0289243","0289284","0289368","0289409","0289450","0289493","0289573","0289656"]
visits = ["0288976", "0288935"]
ccds = []
exit(0)
for i in range(1, 61):
ccds.append(i)
filterName = 'g'
DATA_PATH = "/root/extra_home/lsst_data/"
#spathprefix = "/home/dongfang/download/lsst_data/"
spathprefix = DATA_PATH + "raw/"
#calexpsloc = "/home/dongfang/download/lsst_data/calexps/"
calexpsloc = DATA_PATH + "calexps/"
#coaddloc = "/home/dongfang/download/lsst_data/coadds/"
coaddloc = DATA_PATH + "coadds/"
#mergecoaddloc = "/home/dongfang/download/lsst_data/merge/"
mergecoaddloc = DATA_PATH + "merge/"
# Characterize Image
charImageConfig = CharacterizeImageConfig()
charImage = CharacterizeImageTask()
calibrateConfig = CalibrateConfig(doPhotoCal=False, doAstrometry=False)
calibrateTask = CalibrateTask(config=calibrateConfig)
makeCTEConfig = MakeCoaddTempExpConfig()
makeCTE = MakeCoaddTempExpTask(config=makeCTEConfig)
newSkyMapConfig = skymap.discreteSkyMap.DiscreteSkyMapConfig(
projection='STG',
decList=[-4.9325280994132905],
patchInnerDimensions=[2000, 2000],
radiusList=[4.488775723429071],
pixelScale=0.333,
rotation=0.0,
patchBorder=100,
raList=[154.10660740464786],
tractOverlap=0.0)
hits_skymap = skymap.discreteSkyMap.DiscreteSkyMap(config=newSkyMapConfig)
tract = hits_skymap[0]
coaddTempDict = {}
calibResDict = {}
f = open("log.txt", 'wb')
start = datetime.datetime.now()
#process CCDs to create calexps.
for v in visits:
for ccd in ccds:
visit = int(v)
filename = "instcal" + v + "." + str(ccd) + ".fits"
calexpfn = calexpsloc + v + "/" + filename
source = spathprefix + v + "/" + filename
exposure = afwImg.ExposureF(source)
try:
# Characterize Image
charRes = charImage.characterize(exposure,
exposureIdInfo=None,
background=None)
except:
f.write("DFZ DEBUG at charRes: errors in visit " + v +
", ccd " + str(ccd) + "\n")
try:
# Caliberate Image
calibRes = calibrateTask.calibrate(
charRes.exposure,
exposureIdInfo=None,
background=charRes.background,
icSourceCat=None)
except:
f.write("DFZ DEBUG at calibRes: errors in visit " + v +
", ccd " + str(ccd) + "\n")
try:
#write out calexps
calibRes.exposure.writeFits(calexpfn)
#calbresDict.append((v,ccd),calibRes)
except:
f.write("DFZ DEBUG at calibRes.exposure: errors in visit " +
v + ", ccd " + str(ccd) + "\n")
end = datetime.datetime.now()
d = end - start
f.write("time for creating calexps: ")
f.write(str(d.total_seconds()))
f.write("\n")
#time for creating co-add tempexps.
start = datetime.datetime.now()
# map calexps to patch-ids
visit = visits[0]
ccdsPerPatch = []
for ccd in ccds:
filename = "instcal" + visit + "." + str(ccd) + ".fits"
source = calexpsloc + visit + "/" + filename
exposure = afwImg.ExposureF(source)
bbox = exposure.getBBox()
wcs = exposure.getWcs()
corners = bbox.getCorners()
xIndexMax, yIndexMax = tract.findPatch(
wcs.pixelToSky(corners[0][0], corners[0][1])).getIndex()
xIndexMin, yIndexMin = tract.findPatch(
wcs.pixelToSky(corners[2][0], corners[2][1])).getIndex()
yy = range(yIndexMin, yIndexMax + 1)
xx = range(xIndexMin, xIndexMax + 1)
for yIdx in yy:
for xIdx in xx:
ccdsPerPatch.append((ccd, (xIdx, yIdx)))
print len(ccdsPerPatch)
#import cPickle
#cPickle.dump(open("ccdsinpatch.p",'wb'),ccdsPerPatch)
# import cPickle
# f = open("ccdsInPatch.p",'wb')
# cPickle.dump(ccdsInPatch,f)
#import cPickle
#ccdsInPatch = cPickle.load(open("ccdsInPatch.p",'rb'))
df = pd.DataFrame(ccdsPerPatch)
dfgby = df.groupby(1)
makeCTEConfig = MakeCoaddTempExpConfig()
makeCTE = MakeCoaddTempExpTask(config=makeCTEConfig)
coaddTempExpDict = {}
for visit in visits:
for a in dfgby.indices:
coaddTempExpDict[a] = {}
xInd = a[0]
yInd = a[1]
skyInfo = getSkyInfo(hits_skymap, xInd, yInd)
v = int(visit)
coaddTempExp = afwImage.ExposureF(skyInfo.bbox, skyInfo.wcs)
coaddTempExp.getMaskedImage().set(
numpy.nan, afwImage.MaskU.getPlaneBitMask("NO_DATA"),
numpy.inf)
totGoodPix = 0
didSetMetadata = False
modelPsf = makeCTEConfig.modelPsf.apply(
) if makeCTEConfig.doPsfMatch else None
setInputRecorder = False
for b in dfgby.get_group(a)[0].ravel():
print a
print b
if not setInputRecorder:
ccdsinPatch = len(dfgby.get_group(a)[0].ravel())
try:
inputRecorder = makeCTE.inputRecorder.makeCoaddTempExpRecorder(
v, ccdsinPatch)
except:
f.write("DFZ DEBUG at inputRecorder\n")
setInputRecorder = True
numGoodPix = 0
ccd = b
filename = "instcal" + visit + "." + str(ccd) + ".fits"
source = calexpsloc + visit + "/" + filename
calExp = afwImg.ExposureF(source)
ccdId = calExp.getId()
warpedCcdExp = makeCTE.warpAndPsfMatch.run(
calExp,
modelPsf=modelPsf,
wcs=skyInfo.wcs,
maxBBox=skyInfo.bbox).exposure
if didSetMetadata:
mimg = calExp.getMaskedImage()
mimg *= (coaddTempExp.getCalib().getFluxMag0()[0] /
calExp.getCalib().getFluxMag0()[0])
del mimg
numGoodPix = coaddUtils.copyGoodPixels(
coaddTempExp.getMaskedImage(),
warpedCcdExp.getMaskedImage(), makeCTE.getBadPixelMask())
totGoodPix += numGoodPix
if numGoodPix > 0 and not didSetMetadata:
coaddTempExp.setCalib(warpedCcdExp.getCalib())
coaddTempExp.setFilter(warpedCcdExp.getFilter())
didSetMetadata = True
inputRecorder.addCalExp(calExp, ccdId, numGoodPix)
##### End loop over ccds here:
inputRecorder.finish(coaddTempExp, totGoodPix)
if totGoodPix > 0 and didSetMetadata:
coaddTempExp.setPsf(
modelPsf if makeCTEConfig.doPsfMatch else CoaddPsf(
inputRecorder.coaddInputs.ccds, skyInfo.wcs))
coaddTempExpDict[a][v] = coaddTempExp
coaddfilename = coaddloc + visit + "/" + "instcal" + visit + "." + str(
xInd) + "_" + str(yInd) + ".fits"
coaddTempExp.writeFits(coaddfilename)
end = datetime.datetime.now()
d = end - start
f.write("time for creating co-add tempexps:\n ")
f.write(str(d.total_seconds()))
f.write("\n")
#DFZ: stop here
exit(0)
start = datetime.datetime.now()
config = AssembleCoaddConfig()
assembleTask = AssembleCoaddTask(config=config)
mergcoadds = {}
for a in dfgby.indices:
ccdsinPatch = len(dfgby.get_group(a)[0].ravel())
xInd = a[0]
yInd = a[1]
imageScalerRes = prepareInputs(coaddTempExpDict[a].values(),
coaddTempExpDict[a].keys(),
assembleTask)
mask = None
doClip = False
if mask is None:
mask = assembleTask.getBadPixelMask()
statsCtrl = afwMath.StatisticsControl()
statsCtrl.setNumSigmaClip(assembleTask.config.sigmaClip)
statsCtrl.setNumIter(assembleTask.config.clipIter)
statsCtrl.setAndMask(mask)
statsCtrl.setNanSafe(True)
statsCtrl.setWeighted(True)
statsCtrl.setCalcErrorFromInputVariance(True)
for plane, threshold in assembleTask.config.maskPropagationThresholds.items(
):
bit = afwImage.MaskU.getMaskPlane(plane)
statsCtrl.setMaskPropagationThreshold(bit, threshold)
if doClip:
statsFlags = afwMath.MEANCLIP
else:
statsFlags = afwMath.MEAN
coaddExposure = afwImage.ExposureF(skyInfo.bbox, skyInfo.wcs)
coaddExposure.setCalib(assembleTask.scaleZeroPoint.getCalib())
coaddExposure.getInfo().setCoaddInputs(
assembleTask.inputRecorder.makeCoaddInputs())
#remember to set metadata if you want any hope of running detection and measurement on this coadd:
#self.assembleMetadata(coaddExposure, tempExpRefList, weightList)
#most important thing is the psf
coaddExposure.setFilter(coaddTempExpDict[a].values()[0].getFilter())
coaddInputs = coaddExposure.getInfo().getCoaddInputs()
for tempExp, weight in zip(coaddTempExpDict[a].values(),
imageScalerRes.weightList):
assembleTask.inputRecorder.addVisitToCoadd(coaddInputs, tempExp,
weight)
#takes numCcds as argument
coaddInputs.ccds.reserve(ccdsinPatch)
coaddInputs.visits.reserve(len(imageScalerRes.dataIdList))
psf = measAlg.CoaddPsf(coaddInputs.ccds, coaddExposure.getWcs())
coaddExposure.setPsf(psf)
maskedImageList = afwImage.vectorMaskedImageF()
coaddMaskedImage = coaddExposure.getMaskedImage()
for dataId, imageScaler, exposure in zip(
imageScalerRes.dataIdList, imageScalerRes.imageScalerList,
coaddTempExpDict[a].values()):
print dataId, imageScaler, exposure
maskedImage = exposure.getMaskedImage()
imageScaler.scaleMaskedImage(maskedImage)
maskedImageList.append(maskedImage)
maskedImage = afwMath.statisticsStack(maskedImageList, statsFlags,
statsCtrl,
imageScalerRes.weightList)
coaddMaskedImage.assign(maskedImage, skyInfo.bbox)
coaddUtils.setCoaddEdgeBits(coaddMaskedImage.getMask(),
coaddMaskedImage.getVariance())
# write out Coadd!
mergefilename = mergecoaddloc + str(xInd) + "_" + str(yInd) + ".fits"
mergcoadds[a] = coaddExposure
coaddExposure.writeFits(mergefilename)
end = datetime.datetime.now()
d = end - start
f.write("time for creating merged co-adds:\n ")
f.write(str(d.total_seconds()))
f.write("\n")
start = datetime.datetime.now()
config = DetectCoaddSourcesConfig()
detectCoaddSources = DetectCoaddSourcesTask(config=config)
for a in dfgby.indices:
# Detect on Coadd
exp = mergcoadds[a]
detRes = detectCoaddSources.runDetection(exp, idFactory=None)
end = datetime.datetime.now()
d = end - start
f.write("time for detecting sources:\n ")
f.write(str(d.total_seconds()))
f.close()
def testComponents(self):
"""Test that we can run the first-level subtasks of ProcessCcdTasks.
This tests that we can run these subtasks from the command-line independently (they're all
CmdLineTasks) as well as directly from Python (without giving them access to a Butler).
Aside from verifying that no exceptions are raised, we simply tests that most persisted results are
present and equivalent to both in-memory results.
"""
outPath = tempfile.mkdtemp() if OutputName is None else "{}-Components".format(OutputName)
# We'll use an input butler to get data for the tasks we call from Python, but we won't ever give it
# to those tasks.
inputButler = lsst.daf.persistence.Butler(InputDir)
# Construct task instances we can use directly from Python
isrTask = IsrTask(
config=getObsTestConfig(IsrTask),
name="isr2"
)
# If we ever enable astrometry and photocal in obs_test, we'll need to pass a refObjLoader to these
# tasks. To maintain the spirit of these tests, we'd ideally have a LoadReferenceObjectsTask class
# that doesn't require a Butler. If we don't, we should construct a butler-based on outside these
# task constructors and pass the LoadReferenceObjectsTask instance to the task constructors.
charImageTask = CharacterizeImageTask(
config=getObsTestConfig(CharacterizeImageTask),
name="charImage2"
)
calibrateTask = CalibrateTask(
config=getObsTestConfig(CalibrateTask),
name="calibrate2",
icSourceSchema=charImageTask.schema
)
try:
dataId = dict(visit=1)
dataIdStrList = ["%s=%s" % (key, val) for key, val in dataId.items()]
isrResult1 = IsrTask.parseAndRun(
args=[InputDir, "--output", outPath, "--clobber-config", "--doraise", "--id"] + dataIdStrList,
doReturnResults=True,
)
# We'll just use the butler to get the original image and calibration frames; it's not clear
# extending the test coverage to include that is worth it.
dataRef = inputButler.dataRef("raw", dataId=dataId)
rawExposure = dataRef.get("raw", immediate=True)
isrData = isrTask.readIsrData(dataRef, rawExposure)
isrResult2 = isrTask.run(
rawExposure,
bias=isrData.bias,
linearizer=isrData.linearizer,
flat=isrData.flat,
defects=isrData.defects,
fringes=isrData.fringes,
bfKernel=isrData.bfKernel
)
self.assertMaskedImagesEqual(
isrResult1.parsedCmd.butler.get("postISRCCD", dataId, immediate=True).getMaskedImage(),
isrResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertMaskedImagesEqual(
isrResult2.exposure.getMaskedImage(),
isrResult1.resultList[0].result.exposure.getMaskedImage()
)
icResult1 = CharacterizeImageTask.parseAndRun(
args=[InputDir, "--output", outPath, "--clobber-config", "--doraise", "--id"] + dataIdStrList,
doReturnResults=True,
)
icResult2 = charImageTask.characterize(isrResult2.exposure)
self.assertMaskedImagesEqual(
icResult1.parsedCmd.butler.get("icExp", dataId, immediate=True).getMaskedImage(),
icResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertMaskedImagesEqual(
icResult2.exposure.getMaskedImage(),
icResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertCatalogsEqual(
icResult1.parsedCmd.butler.get("icSrc", dataId, immediate=True),
icResult1.resultList[0].result.sourceCat
)
self.assertCatalogsEqual(
icResult2.sourceCat,
icResult1.resultList[0].result.sourceCat,
skipCols=("id", "parent") # since we didn't want to pass in an ExposureIdInfo, IDs disagree
)
self.assertBackgroundListsEqual(
icResult1.parsedCmd.butler.get("icExpBackground", dataId, immediate=True),
icResult1.resultList[0].result.background
)
self.assertBackgroundListsEqual(
icResult2.background,
icResult1.resultList[0].result.background
)
calResult1 = CalibrateTask.parseAndRun(
args=[InputDir, "--output", outPath, "--clobber-config", "--doraise", "--id"] + dataIdStrList,
doReturnResults=True,
)
calResult2 = calibrateTask.calibrate(
icResult2.exposure,
background=icResult2.background,
icSourceCat=icResult2.sourceCat
)
self.assertMaskedImagesEqual(
calResult1.parsedCmd.butler.get("calexp", dataId, immediate=True).getMaskedImage(),
calResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertMaskedImagesEqual(
calResult2.exposure.getMaskedImage(),
calResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertCatalogsEqual(
calResult1.parsedCmd.butler.get("src", dataId, immediate=True),
calResult1.resultList[0].result.sourceCat
)
self.assertCatalogsEqual(
calResult2.sourceCat,
calResult1.resultList[0].result.sourceCat,
skipCols=("id", "parent")
)
self.assertBackgroundListsEqual(
calResult1.parsedCmd.butler.get("calexpBackground", dataId, immediate=True),
calResult1.resultList[0].result.background
)
self.assertBackgroundListsEqual(
calResult2.background,
calResult1.resultList[0].result.background
)
finally:
if OutputName is None:
shutil.rmtree(outPath)
else:
print("testProcessCcd.py's output data saved to %r" % (OutputName,))
def testComponents(self):
"""test that we can run the first-level subtasks of ProcessCcdTasks.
This tests that we can run these subtasks from the command-line independently (they're all
CmdLineTasks) as well as directly from Python (without giving them access to a Butler).
Aside from verifying that no exceptions are raised, we simply tests that most persisted results are
present and equivalent to both in-memory results.
"""
outPath = tempfile.mkdtemp() if OutputName is None else "{}-Components".format(OutputName)
# We'll use an input butler to get data for the tasks we call from Python, but we won't ever give it
# to those tasks.
inputButler = lsst.daf.persistence.Butler(InputDir)
# Construct task instances we can use directly from Python
isrTask = IsrTask(
config=getObsTestConfig(IsrTask),
name="isr2"
)
# If we ever enable astrometry and photocal in obs_test, we'll need to pass a refObjLoader to these
# tasks. To maintain the spirit of these tests, we'd ideally have a LoadReferenceObjectsTask class
# that doesn't require a Butler. If we don't, we should construct a butler-based on outside these
# task constructors and pass the LoadReferenceObjectsTask instance to the task constructors.
charImageTask = CharacterizeImageTask(
config=getObsTestConfig(CharacterizeImageTask),
name="charImage2"
)
calibrateTask = CalibrateTask(
config=getObsTestConfig(CalibrateTask),
name="calibrate2",
icSourceSchema=charImageTask.schema
)
try:
dataId = dict(visit=1)
dataIdStrList = ["%s=%s" % (key, val) for key, val in dataId.iteritems()]
isrResult1 = IsrTask.parseAndRun(
args=[InputDir, "--output", outPath, "--clobber-config", "--doraise", "--id"] + dataIdStrList,
doReturnResults=True,
)
# We'll just use the butler to get the original image and calibration frames; it's not clear
# extending the test coverage to include that is worth it.
dataRef = inputButler.dataRef("raw", dataId=dataId)
rawExposure = dataRef.get("raw", immediate=True)
isrData = isrTask.readIsrData(dataRef, rawExposure)
isrResult2 = isrTask.run(
rawExposure,
bias=isrData.bias,
linearizer=isrData.linearizer,
flat=isrData.flat,
defects=isrData.defects,
fringes=isrData.fringes,
bfKernel=isrData.bfKernel
)
self.assertMaskedImagesEqual(
isrResult1.parsedCmd.butler.get("postISRCCD", dataId, immediate=True).getMaskedImage(),
isrResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertMaskedImagesEqual(
isrResult2.exposure.getMaskedImage(),
isrResult1.resultList[0].result.exposure.getMaskedImage()
)
icResult1 = CharacterizeImageTask.parseAndRun(
args=[InputDir, "--output", outPath, "--clobber-config", "--doraise", "--id"] + dataIdStrList,
doReturnResults=True,
)
icResult2 = charImageTask.characterize(isrResult2.exposure)
self.assertMaskedImagesEqual(
icResult1.parsedCmd.butler.get("icExp", dataId, immediate=True).getMaskedImage(),
icResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertMaskedImagesEqual(
icResult2.exposure.getMaskedImage(),
icResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertCatalogsEqual(
icResult1.parsedCmd.butler.get("icSrc", dataId, immediate=True),
icResult1.resultList[0].result.sourceCat
)
self.assertCatalogsEqual(
icResult2.sourceCat,
icResult1.resultList[0].result.sourceCat,
skipCols=("id", "parent") # since we didn't want to pass in an ExposureIdInfo, IDs disagree
)
self.assertBackgroundListsEqual(
icResult1.parsedCmd.butler.get("icExpBackground", dataId, immediate=True),
icResult1.resultList[0].result.background
)
self.assertBackgroundListsEqual(
icResult2.background,
icResult1.resultList[0].result.background
)
calResult1 = CalibrateTask.parseAndRun(
args=[InputDir, "--output", outPath, "--clobber-config", "--doraise", "--id"] + dataIdStrList,
doReturnResults=True,
)
calResult2 = calibrateTask.calibrate(
icResult2.exposure,
background=icResult2.background,
icSourceCat=icResult2.sourceCat
)
self.assertMaskedImagesEqual(
calResult1.parsedCmd.butler.get("calexp", dataId, immediate=True).getMaskedImage(),
calResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertMaskedImagesEqual(
calResult2.exposure.getMaskedImage(),
calResult1.resultList[0].result.exposure.getMaskedImage()
)
self.assertCatalogsEqual(
calResult1.parsedCmd.butler.get("src", dataId, immediate=True),
calResult1.resultList[0].result.sourceCat
)
self.assertCatalogsEqual(
calResult2.sourceCat,
calResult1.resultList[0].result.sourceCat,
skipCols=("id", "parent")
)
self.assertBackgroundListsEqual(
calResult1.parsedCmd.butler.get("calexpBackground", dataId, immediate=True),
calResult1.resultList[0].result.background
)
self.assertBackgroundListsEqual(
calResult2.background,
calResult1.resultList[0].result.background
)
finally:
if OutputName is None:
shutil.rmtree(outPath)
else:
print("testProcessCcd.py's output data saved to %r" % (OutputName,))
