Coverage for python/lsst/fgcmcal/fgcmCalibrateTract.py : 18%
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# See COPYRIGHT file at the top of the source tree. # # This file is part of fgcmcal. # # Developed for the LSST Data Management System. # This product includes software developed by the LSST Project # (https://www.lsst.org). # See the COPYRIGHT file at the top-level directory of this distribution # for details of code ownership. # # This program is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by # the Free Software Foundation, either version 3 of the License, or # (at your option) any later version. # # This program is distributed in the hope that it will be useful, # but WITHOUT ANY WARRANTY; without even the implied warranty of # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the # GNU General Public License for more details. # # You should have received a copy of the GNU General Public License # along with this program. If not, see <https://www.gnu.org/licenses/>.
"""
"""Config for FgcmCalibrateTract"""
target=FgcmBuildStarsTask, doc="Task to load and match stars for fgcm", ) dtype=FgcmFitCycleConfig, doc="Config to run a single fgcm fit cycle", ) target=FgcmOutputProductsTask, doc="Task to output fgcm products", ) doc="Tolerance on repeatability convergence (per band)", dtype=float, default=0.005, ) doc="Maximum number of fit cycles", dtype=int, default=5, ) doc="Make plots for debugging purposes?", dtype=bool, default=False, )
pexConfig.Config.setDefaults(self)
self.fgcmBuildStars.checkAllCcds = False self.fgcmBuildStars.densityCutMaxPerPixel = 10000 self.fgcmFitCycle.useRepeatabilityForExpGrayCuts = True self.fgcmFitCycle.quietMode = True self.fgcmOutputProducts.doReferenceCalibration = False self.fgcmOutputProducts.doRefcatOutput = False self.fgcmOutputProducts.cycleNumber = 0 self.fgcmOutputProducts.photoCal.applyColorTerms = False
"""Subclass of TaskRunner for FgcmCalibrateTractTask
fgcmCalibrateTractTask.run() takes a number of arguments, one of which is the butler (for persistence and mapper data), and a list of dataRefs extracted from the command line. This task runs on a constrained set of dataRefs, typically a single tract. This class transforms the process arguments generated by the ArgumentParser into the arguments expected by FgcmCalibrateTractTask.run(). This runner does not use any parallelization. """
def getTargetList(parsedCmd): """ Return a list with one element: a tuple with the butler and list of dataRefs """ # we want to combine the butler with any (or no!) dataRefs return [(parsedCmd.butler, parsedCmd.id.refList)]
""" Parameters ---------- args: `tuple` with (butler, dataRefList)
Returns ------- exitStatus: `list` with `lsst.pipe.base.Struct` exitStatus (0: success; 1: failure) """ butler, dataRefList = args
task = self.TaskClass(config=self.config, log=self.log)
exitStatus = 0 if self.doRaise: results = task.runDataRef(butler, dataRefList) else: try: results = task.runDataRef(butler, dataRefList) except Exception as e: exitStatus = 1 task.log.fatal("Failed: %s" % e) if not isinstance(e, pipeBase.TaskError): traceback.print_exc(file=sys.stderr)
task.writeMetadata(butler)
if self.doReturnResults: return [pipeBase.Struct(exitStatus=exitStatus, results=results)] else: return [pipeBase.Struct(exitStatus=exitStatus)]
""" Run the task, with no multiprocessing
Parameters ---------- parsedCmd: `lsst.pipe.base.ArgumentParser` parsed command line """
resultList = []
if self.precall(parsedCmd): targetList = self.getTargetList(parsedCmd) resultList = self(targetList[0])
return resultList
""" Calibrate a single tract using fgcmcal """
""" Instantiate an `FgcmCalibrateTractTask`.
Parameters ---------- butler : `lsst.daf.persistence.Butler` """
pipeBase.CmdLineTask.__init__(self, **kwargs)
def _makeArgumentParser(cls): """Create an argument parser"""
parser = pipeBase.ArgumentParser(name=cls._DefaultName) parser.add_id_argument("--id", "calexp", help="Data ID, e.g. --id visit=6789", ContainerClass=PerTractCcdDataIdContainer)
return parser
# no saving of metadata for now return None
def runDataRef(self, butler, dataRefs): """ Run full FGCM calibration on a single tract, including building star list, fitting multiple cycles, and making outputs.
Parameters ---------- butler: `lsst.daf.persistence.Butler` dataRefs: `list` of `lsst.daf.persistence.ButlerDataRef` Data references for the input visits. If this is an empty list, all visits with src catalogs in the repository are used. Only one individual dataRef from a visit need be specified and the code will find the other source catalogs from each visit.
Raises ------ RuntimeError: Raised if `config.fgcmBuildStars.doReferenceMatches` is not True, or if fgcmLookUpTable is not available. """
if not butler.datasetExists('fgcmLookUpTable'): raise RuntimeError("Must run FgcmCalibrateTract with an fgcmLookUpTable")
if not self.config.fgcmBuildStars.doReferenceMatches: raise RuntimeError("Must run FgcmCalibrateTract with fgcmBuildStars.doReferenceMatches") if self.config.fgcmBuildStars.checkAllCcds: raise RuntimeError("Cannot run FgcmCalibrateTract with fgcmBuildStars.checkAllCcds set to True")
self.makeSubtask("fgcmBuildStars", butler=butler) self.makeSubtask("fgcmOutputProducts", butler=butler)
# Run the build stars tasks tract = dataRefs[0].dataId['tract'] self.log.info("Running on tract %d" % (tract))
# Note that we will need visitCat at the end of the procedure for the outputs groupedDataRefs = self.fgcmBuildStars.findAndGroupDataRefs(butler, dataRefs) visitCat = self.fgcmBuildStars.fgcmMakeVisitCatalog(butler, groupedDataRefs) fgcmStarObservationCat = self.fgcmBuildStars.fgcmMakeAllStarObservations(groupedDataRefs, visitCat)
fgcmStarIdCat, fgcmStarIndicesCat, fgcmRefCat = \ self.fgcmBuildStars.fgcmMatchStars(butler, visitCat, fgcmStarObservationCat)
# Load the LUT lutCat = butler.get('fgcmLookUpTable') fgcmLut, lutIndexVals, lutStd = translateFgcmLut(lutCat, dict(self.config.fgcmFitCycle.filterMap)) del lutCat
# Translate the visit catalog into fgcm format fgcmExpInfo = translateVisitCatalog(visitCat)
camera = butler.get('camera') configDict = makeConfigDict(self.config.fgcmFitCycle, self.log, camera, self.config.fgcmFitCycle.maxIterBeforeFinalCycle, True, False, tract=tract) # Turn off plotting in tract mode configDict['doPlots'] = False
# Use the first orientation. # TODO: DM-21215 will generalize to arbitrary camera orientations ccdOffsets = computeCcdOffsets(camera, fgcmExpInfo['TELROT'][0]) del camera
# Set up the fit cycle task
noFitsDict = {'lutIndex': lutIndexVals, 'lutStd': lutStd, 'expInfo': fgcmExpInfo, 'ccdOffsets': ccdOffsets}
fgcmFitCycle = fgcm.FgcmFitCycle(configDict, useFits=False, noFitsDict=noFitsDict, noOutput=True)
# We determine the conversion from the native units (typically radians) to # degrees for the first star. This allows us to treat coord_ra/coord_dec as # numpy arrays rather than Angles, which would we approximately 600x slower. conv = fgcmStarObservationCat[0]['ra'].asDegrees() / float(fgcmStarObservationCat[0]['ra'])
# To load the stars, we need an initial parameter object fgcmPars = fgcm.FgcmParameters.newParsWithArrays(fgcmFitCycle.fgcmConfig, fgcmLut, fgcmExpInfo)
# Match star observations to visits # Only those star observations that match visits from fgcmExpInfo['VISIT'] will # actually be transferred into fgcm using the indexing below.
obsIndex = fgcmStarIndicesCat['obsIndex'] visitIndex = np.searchsorted(fgcmExpInfo['VISIT'], fgcmStarObservationCat['visit'][obsIndex])
fgcmStars = fgcm.FgcmStars(fgcmFitCycle.fgcmConfig) fgcmStars.loadStars(fgcmPars, fgcmStarObservationCat['visit'][obsIndex], fgcmStarObservationCat['ccd'][obsIndex], fgcmStarObservationCat['ra'][obsIndex] * conv, fgcmStarObservationCat['dec'][obsIndex] * conv, fgcmStarObservationCat['instMag'][obsIndex], fgcmStarObservationCat['instMagErr'][obsIndex], fgcmExpInfo['FILTERNAME'][visitIndex], fgcmStarIdCat['fgcm_id'][:], fgcmStarIdCat['ra'][:], fgcmStarIdCat['dec'][:], fgcmStarIdCat['obsArrIndex'][:], fgcmStarIdCat['nObs'][:], obsX=fgcmStarObservationCat['x'][obsIndex], obsY=fgcmStarObservationCat['y'][obsIndex], psfCandidate=fgcmStarObservationCat['psf_candidate'][obsIndex], refID=fgcmRefCat['fgcm_id'][:], refMag=fgcmRefCat['refMag'][:, :], refMagErr=fgcmRefCat['refMagErr'][:, :], flagID=None, flagFlag=None, computeNobs=True)
fgcmFitCycle.setLUT(fgcmLut) fgcmFitCycle.setStars(fgcmStars)
# Clear out some memory # del fgcmStarObservationCat del fgcmStarIdCat del fgcmStarIndicesCat del fgcmRefCat
converged = False cycleNumber = 0
previousReservedRawRepeatability = np.zeros(fgcmPars.nBands) + 1000.0 previousParInfo = None previousParams = None previousSuperStar = None
while (not converged and cycleNumber < self.config.maxFitCycles):
fgcmFitCycle.fgcmConfig.updateCycleNumber(cycleNumber)
if cycleNumber > 0: # Use parameters from previous cycle fgcmPars = fgcm.FgcmParameters.loadParsWithArrays(fgcmFitCycle.fgcmConfig, fgcmExpInfo, previousParInfo, previousParams, previousSuperStar) # We need to reset the star magnitudes and errors for the next # cycle fgcmFitCycle.fgcmStars.reloadStarMagnitudes(fgcmStarObservationCat['instMag'][obsIndex], fgcmStarObservationCat['instMagErr'][obsIndex]) fgcmFitCycle.initialCycle = False
fgcmFitCycle.setPars(fgcmPars) fgcmFitCycle.finishSetup()
fgcmFitCycle.run()
# Grab the parameters for the next cycle previousParInfo, previousParams = fgcmFitCycle.fgcmPars.parsToArrays() previousSuperStar = fgcmFitCycle.fgcmPars.parSuperStarFlat.copy()
self.log.info("Raw repeatability after cycle number %d is:" % (cycleNumber)) for i, band in enumerate(fgcmFitCycle.fgcmPars.bands): rep = fgcmFitCycle.fgcmPars.compReservedRawRepeatability[i] * 1000.0 self.log.info(" Band %s, repeatability: %.2f mmag" % (band, rep))
# Check for convergence if np.alltrue((previousReservedRawRepeatability - fgcmFitCycle.fgcmPars.compReservedRawRepeatability) < self.config.convergenceTolerance): self.log.info("Raw repeatability has converged after cycle number %d." % (cycleNumber)) converged = True else: fgcmFitCycle.fgcmConfig.expGrayPhotometricCut[:] = fgcmFitCycle.updatedPhotometricCut fgcmFitCycle.fgcmConfig.expGrayHighCut[:] = fgcmFitCycle.updatedHighCut fgcmFitCycle.fgcmConfig.precomputeSuperStarInitialCycle = False fgcmFitCycle.fgcmConfig.freezeStdAtmosphere = False previousReservedRawRepeatability[:] = fgcmFitCycle.fgcmPars.compReservedRawRepeatability self.log.info("Setting exposure gray photometricity cuts to:") for i, band in enumerate(fgcmFitCycle.fgcmPars.bands): cut = fgcmFitCycle.updatedPhotometricCut[i] * 1000.0 self.log.info(" Band %s, photometricity cut: %.2f mmag" % (band, cut))
cycleNumber += 1
# Log warning if not converged if not converged: self.log.warn("Maximum number of fit cycles exceeded (%d) without convergence." % (cycleNumber))
# Do final clean-up iteration fgcmFitCycle.fgcmConfig.freezeStdAtmosphere = False fgcmFitCycle.fgcmConfig.resetParameters = False fgcmFitCycle.fgcmConfig.maxIter = 0 fgcmFitCycle.fgcmConfig.outputZeropoints = True fgcmFitCycle.fgcmConfig.outputStandards = True fgcmFitCycle.fgcmConfig.doPlots = self.config.doDebuggingPlots fgcmFitCycle.fgcmConfig.updateCycleNumber(cycleNumber) fgcmFitCycle.initialCycle = False
fgcmPars = fgcm.FgcmParameters.loadParsWithArrays(fgcmFitCycle.fgcmConfig, fgcmExpInfo, previousParInfo, previousParams, previousSuperStar) fgcmFitCycle.fgcmStars.reloadStarMagnitudes(fgcmStarObservationCat['instMag'][obsIndex], fgcmStarObservationCat['instMagErr'][obsIndex]) fgcmFitCycle.setPars(fgcmPars) fgcmFitCycle.finishSetup()
self.log.info("Running final clean-up fit cycle...") fgcmFitCycle.run()
self.log.info("Raw repeatability after clean-up cycle is:") for i, band in enumerate(fgcmFitCycle.fgcmPars.bands): rep = fgcmFitCycle.fgcmPars.compReservedRawRepeatability[i] * 1000.0 self.log.info(" Band %s, repeatability: %.2f mmag" % (band, rep))
# Do the outputs. Need to keep track of tract, blah.
if self.config.fgcmFitCycle.superStarSubCcd or self.config.fgcmFitCycle.ccdGraySubCcd: chebSize = fgcmFitCycle.fgcmZpts.zpStruct['FGCM_FZPT_CHEB'].shape[1] else: chebSize = 0
zptSchema = makeZptSchema(chebSize) zptCat = makeZptCat(zptSchema, fgcmFitCycle.fgcmZpts.zpStruct)
atmSchema = makeAtmSchema() atmCat = makeAtmCat(atmSchema, fgcmFitCycle.fgcmZpts.atmStruct)
stdSchema = makeStdSchema(fgcmFitCycle.fgcmPars.nBands) stdStruct = fgcmFitCycle.fgcmStars.retrieveStdStarCatalog(fgcmFitCycle.fgcmPars) stdCat = makeStdCat(stdSchema, stdStruct)
outStruct = self.fgcmOutputProducts.generateTractOutputProducts(butler, tract, visitCat, zptCat, atmCat, stdCat, self.config.fgcmBuildStars, self.config.fgcmFitCycle) outStruct.repeatability = fgcmFitCycle.fgcmPars.compReservedRawRepeatability
return outStruct |