23 from __future__
import absolute_import, division, print_function
24 from builtins
import zip
25 from builtins
import range
29 from lsst.pipe.base import CmdLineTask, Struct, TaskRunner, ArgumentParser, ButlerInitializedTaskRunner
30 from lsst.pex.config import Config, Field, ListField, ConfigurableField, RangeField, ConfigField
32 from lsst.meas.base import SingleFrameMeasurementTask, ApplyApCorrTask, CatalogCalculationTask
49 * deepCoadd_det: detections from what used to be processCoadd (tract, patch, filter) 50 * deepCoadd_mergeDet: merged detections (tract, patch) 51 * deepCoadd_meas: measurements of merged detections (tract, patch, filter) 52 * deepCoadd_ref: reference sources (tract, patch) 53 All of these have associated *_schema catalogs that require no data ID and hold no records. 55 In addition, we have a schema-only dataset, which saves the schema for the PeakRecords in 56 the mergeDet, meas, and ref dataset Footprints: 57 * deepCoadd_peak_schema 61 def _makeGetSchemaCatalogs(datasetSuffix):
62 """Construct a getSchemaCatalogs instance method 64 These are identical for most of the classes here, so we'll consolidate 67 datasetSuffix: Suffix of dataset name, e.g., "src" for "deepCoadd_src" 70 def getSchemaCatalogs(self):
71 """Return a dict of empty catalogs for each catalog dataset produced by this task.""" 72 src = afwTable.SourceCatalog(self.schema)
73 if hasattr(self,
"algMetadata"):
74 src.getTable().setMetadata(self.algMetadata)
75 return {self.config.coaddName +
"Coadd_" + datasetSuffix: src}
76 return getSchemaCatalogs
79 def _makeMakeIdFactory(datasetName):
80 """Construct a makeIdFactory instance method 82 These are identical for all the classes here, so this consolidates 85 datasetName: Dataset name without the coadd name prefix, e.g., "CoaddId" for "deepCoaddId" 88 def makeIdFactory(self, dataRef):
89 """Return an IdFactory for setting the detection identifiers 91 The actual parameters used in the IdFactory are provided by 92 the butler (through the provided data reference. 94 expBits = dataRef.get(self.config.coaddName + datasetName +
"_bits")
95 expId = int(dataRef.get(self.config.coaddName + datasetName))
96 return afwTable.IdFactory.makeSource(expId, 64 - expBits)
101 """Given a longer, camera-specific filter name (e.g. "HSC-I") return its shorthand name ("i"). 105 return afwImage.Filter(name).getFilterProperty().getName()
112 \anchor DetectCoaddSourcesConfig_ 114 \brief Configuration parameters for the DetectCoaddSourcesTask 116 doScaleVariance = Field(dtype=bool, default=
True, doc=
"Scale variance plane using empirical noise?")
117 scaleVariance = ConfigurableField(target=ScaleVarianceTask, doc=
"Variance rescaling")
118 detection = ConfigurableField(target=DynamicDetectionTask, doc=
"Source detection")
119 coaddName = Field(dtype=str, default=
"deep", doc=
"Name of coadd")
120 doInsertFakes = Field(dtype=bool, default=
False,
121 doc=
"Run fake sources injection task")
122 insertFakes = ConfigurableField(target=BaseFakeSourcesTask,
123 doc=
"Injection of fake sources for testing " 124 "purposes (must be retargeted)")
127 Config.setDefaults(self)
128 self.
detection.thresholdType =
"pixel_stdev" 131 self.
detection.reEstimateBackground =
False 132 self.
detection.background.useApprox =
False 134 self.
detection.background.undersampleStyle =
'REDUCE_INTERP_ORDER' 135 self.
detection.doTempWideBackground =
True 147 \anchor DetectCoaddSourcesTask_ 149 \brief Detect sources on a coadd 151 \section pipe_tasks_multiBand_Contents Contents 153 - \ref pipe_tasks_multiBand_DetectCoaddSourcesTask_Purpose 154 - \ref pipe_tasks_multiBand_DetectCoaddSourcesTask_Initialize 155 - \ref pipe_tasks_multiBand_DetectCoaddSourcesTask_Run 156 - \ref pipe_tasks_multiBand_DetectCoaddSourcesTask_Config 157 - \ref pipe_tasks_multiBand_DetectCoaddSourcesTask_Debug 158 - \ref pipe_tasks_multiband_DetectCoaddSourcesTask_Example 160 \section pipe_tasks_multiBand_DetectCoaddSourcesTask_Purpose Description 162 Command-line task that detects sources on a coadd of exposures obtained with a single filter. 164 Coadding individual visits requires each exposure to be warped. This introduces covariance in the noise 165 properties across pixels. Before detection, we correct the coadd variance by scaling the variance plane 166 in the coadd to match the observed variance. This is an approximate approach -- strictly, we should 167 propagate the full covariance matrix -- but it is simple and works well in practice. 169 After scaling the variance plane, we detect sources and generate footprints by delegating to the \ref 170 SourceDetectionTask_ "detection" subtask. 173 deepCoadd{tract,patch,filter}: ExposureF 175 deepCoadd_det{tract,patch,filter}: SourceCatalog (only parent Footprints) 176 \n deepCoadd_calexp{tract,patch,filter}: Variance scaled, background-subtracted input 178 \n deepCoadd_calexp_background{tract,patch,filter}: BackgroundList 182 DetectCoaddSourcesTask delegates most of its work to the \ref SourceDetectionTask_ "detection" subtask. 183 You can retarget this subtask if you wish. 185 \section pipe_tasks_multiBand_DetectCoaddSourcesTask_Initialize Task initialization 187 \copydoc \_\_init\_\_ 189 \section pipe_tasks_multiBand_DetectCoaddSourcesTask_Run Invoking the Task 193 \section pipe_tasks_multiBand_DetectCoaddSourcesTask_Config Configuration parameters 195 See \ref DetectCoaddSourcesConfig_ "DetectSourcesConfig" 197 \section pipe_tasks_multiBand_DetectCoaddSourcesTask_Debug Debug variables 199 The \link lsst.pipe.base.cmdLineTask.CmdLineTask command line task\endlink interface supports a 200 flag \c -d to import \b debug.py from your \c PYTHONPATH; see \ref baseDebug for more about \b debug.py 203 DetectCoaddSourcesTask has no debug variables of its own because it relegates all the work to 204 \ref SourceDetectionTask_ "SourceDetectionTask"; see the documetation for 205 \ref SourceDetectionTask_ "SourceDetectionTask" for further information. 207 \section pipe_tasks_multiband_DetectCoaddSourcesTask_Example A complete example 208 of using DetectCoaddSourcesTask 210 DetectCoaddSourcesTask is meant to be run after assembling a coadded image in a given band. The purpose of 211 the task is to update the background, detect all sources in a single band and generate a set of parent 212 footprints. Subsequent tasks in the multi-band processing procedure will merge sources across bands and, 213 eventually, perform forced photometry. Command-line usage of DetectCoaddSourcesTask expects a data 214 reference to the coadd to be processed. A list of the available optional arguments can be obtained by 215 calling detectCoaddSources.py with the `--help` command line argument: 217 detectCoaddSources.py --help 220 To demonstrate usage of the DetectCoaddSourcesTask in the larger context of multi-band processing, we 221 will process HSC data in the [ci_hsc](https://github.com/lsst/ci_hsc) package. Assuming one has followed 222 steps 1 - 4 at \ref pipeTasks_multiBand, one may detect all the sources in each coadd as follows: 224 detectCoaddSources.py $CI_HSC_DIR/DATA --id patch=5,4 tract=0 filter=HSC-I 226 that will process the HSC-I band data. The results are written to 227 `$CI_HSC_DIR/DATA/deepCoadd-results/HSC-I`. 229 It is also necessary to run: 231 detectCoaddSources.py $CI_HSC_DIR/DATA --id patch=5,4 tract=0 filter=HSC-R 233 to generate the sources catalogs for the HSC-R band required by the next step in the multi-band 234 processing procedure: \ref MergeDetectionsTask_ "MergeDetectionsTask". 236 _DefaultName =
"detectCoaddSources" 237 ConfigClass = DetectCoaddSourcesConfig
238 getSchemaCatalogs = _makeGetSchemaCatalogs(
"det")
239 makeIdFactory = _makeMakeIdFactory(
"CoaddId")
242 def _makeArgumentParser(cls):
244 parser.add_id_argument(
"--id",
"deepCoadd", help=
"data ID, e.g. --id tract=12345 patch=1,2 filter=r",
245 ContainerClass=ExistingCoaddDataIdContainer)
250 \brief Initialize the task. Create the \ref SourceDetectionTask_ "detection" subtask. 252 Keyword arguments (in addition to those forwarded to CmdLineTask.__init__): 254 \param[in] schema: initial schema for the output catalog, modified-in place to include all 255 fields set by this task. If None, the source minimal schema will be used. 256 \param[in] **kwargs: keyword arguments to be passed to lsst.pipe.base.task.Task.__init__ 258 CmdLineTask.__init__(self, **kwargs)
260 schema = afwTable.SourceTable.makeMinimalSchema()
261 if self.config.doInsertFakes:
262 self.makeSubtask(
"insertFakes")
264 self.makeSubtask(
"detection", schema=self.
schema)
265 if self.config.doScaleVariance:
266 self.makeSubtask(
"scaleVariance")
270 \brief Run detection on a coadd. 272 Invokes \ref runDetection and then uses \ref write to output the 275 \param[in] patchRef: data reference for patch 277 exposure = patchRef.get(self.config.coaddName +
"Coadd", immediate=
True)
278 expId = int(patchRef.get(self.config.coaddName +
"CoaddId"))
280 self.
write(exposure, results, patchRef)
285 \brief Run detection on an exposure. 287 First scale the variance plane to match the observed variance 288 using \ref ScaleVarianceTask. Then invoke the \ref SourceDetectionTask_ "detection" subtask to 291 \param[in,out] exposure: Exposure on which to detect (may be backround-subtracted and scaled, 292 depending on configuration). 293 \param[in] idFactory: IdFactory to set source identifiers 294 \param[in] expId: Exposure identifier (integer) for RNG seed 296 \return a pipe.base.Struct with fields 297 - sources: catalog of detections 298 - backgrounds: list of backgrounds 300 if self.config.doScaleVariance:
301 varScale = self.scaleVariance.
run(exposure.maskedImage)
302 exposure.getMetadata().add(
"variance_scale", varScale)
303 backgrounds = afwMath.BackgroundList()
304 if self.config.doInsertFakes:
305 self.insertFakes.
run(exposure, background=backgrounds)
306 table = afwTable.SourceTable.make(self.
schema, idFactory)
307 detections = self.detection.makeSourceCatalog(table, exposure, expId=expId)
308 sources = detections.sources
309 fpSets = detections.fpSets
310 if hasattr(fpSets,
"background")
and fpSets.background:
311 backgrounds.append(fpSets.background)
312 return Struct(sources=sources, backgrounds=backgrounds)
314 def write(self, exposure, results, patchRef):
316 \brief Write out results from runDetection. 318 \param[in] exposure: Exposure to write out 319 \param[in] results: Struct returned from runDetection 320 \param[in] patchRef: data reference for patch 322 coaddName = self.config.coaddName +
"Coadd" 323 patchRef.put(results.backgrounds, coaddName +
"_calexp_background")
324 patchRef.put(results.sources, coaddName +
"_det")
325 patchRef.put(exposure, coaddName +
"_calexp")
332 \anchor MergeSourcesRunner_ 334 \brief Task runner for the \ref MergeSourcesTask_ "MergeSourcesTask". Required because the run method 335 requires a list of dataRefs rather than a single dataRef. 340 \brief Provide a butler to the Task constructor. 342 \param[in] parsedCmd the parsed command 343 \param[in] args tuple of a list of data references and kwargs (un-used) 344 \throws RuntimeError if both parsedCmd & args are None 346 if parsedCmd
is not None:
347 butler = parsedCmd.butler
348 elif args
is not None:
349 dataRefList, kwargs = args
350 butler = dataRefList[0].getButler()
352 raise RuntimeError(
"Neither parsedCmd or args specified")
353 return self.TaskClass(config=self.config, log=self.log, butler=butler)
358 \brief Provide a list of patch references for each patch. 360 The patch references within the list will have different filters. 362 \param[in] parsedCmd the parsed command 363 \param **kwargs key word arguments (unused) 364 \throws RuntimeError if multiple references are provided for the same combination of tract, patch and 368 for ref
in parsedCmd.id.refList:
369 tract = ref.dataId[
"tract"]
370 patch = ref.dataId[
"patch"]
371 filter = ref.dataId[
"filter"]
372 if tract
not in refList:
374 if patch
not in refList[tract]:
375 refList[tract][patch] = {}
376 if filter
in refList[tract][patch]:
377 raise RuntimeError(
"Multiple versions of %s" % (ref.dataId,))
378 refList[tract][patch][filter] = ref
379 return [(list(p.values()), kwargs)
for t
in refList.values()
for p
in t.values()]
384 \anchor MergeSourcesConfig_ 386 \brief Configuration for merging sources. 388 priorityList = ListField(dtype=str, default=[],
389 doc=
"Priority-ordered list of bands for the merge.")
390 coaddName = Field(dtype=str, default=
"deep", doc=
"Name of coadd")
393 Config.validate(self)
395 raise RuntimeError(
"No priority list provided")
400 \anchor MergeSourcesTask_ 402 \brief A base class for merging source catalogs. 404 Merging detections (MergeDetectionsTask) and merging measurements (MergeMeasurementsTask) are 405 so similar that it makes sense to re-use the code, in the form of this abstract base class. 407 NB: Do not use this class directly. Instead use one of the child classes that inherit from 408 MergeSourcesTask such as \ref MergeDetectionsTask_ "MergeDetectionsTask" or \ref MergeMeasurementsTask_ 409 "MergeMeasurementsTask" 411 Sub-classes should set the following class variables: 412 * `_DefaultName`: name of Task 413 * `inputDataset`: name of dataset to read 414 * `outputDataset`: name of dataset to write 415 * `getSchemaCatalogs` to the result of `_makeGetSchemaCatalogs(outputDataset)` 417 In addition, sub-classes must implement the mergeCatalogs method. 420 ConfigClass = MergeSourcesConfig
421 RunnerClass = MergeSourcesRunner
424 getSchemaCatalogs =
None 427 def _makeArgumentParser(cls):
429 \brief Create a suitable ArgumentParser. 431 We will use the ArgumentParser to get a provide a list of data 432 references for patches; the RunnerClass will sort them into lists 433 of data references for the same patch 436 parser.add_id_argument(
"--id",
"deepCoadd_" + cls.
inputDataset,
437 ContainerClass=ExistingCoaddDataIdContainer,
438 help=
"data ID, e.g. --id tract=12345 patch=1,2 filter=g^r^i")
443 \brief Obtain the input schema either directly or froma butler reference. 445 \param[in] butler butler reference to obtain the input schema from 446 \param[in] schema the input schema 449 assert butler
is not None,
"Neither butler nor schema specified" 450 schema = butler.get(self.config.coaddName +
"Coadd_" + self.
inputDataset +
"_schema",
451 immediate=
True).schema
454 def __init__(self, butler=None, schema=None, **kwargs):
456 \brief Initialize the task. 458 Keyword arguments (in addition to those forwarded to CmdLineTask.__init__): 459 \param[in] schema the schema of the detection catalogs used as input to this one 460 \param[in] butler a butler used to read the input schema from disk, if schema is None 462 Derived classes should use the getInputSchema() method to handle the additional 463 arguments and retreive the actual input schema. 465 CmdLineTask.__init__(self, **kwargs)
467 def run(self, patchRefList):
469 \brief Merge coadd sources from multiple bands. Calls \ref mergeCatalogs which must be defined in 470 subclasses that inherit from MergeSourcesTask. 472 \param[in] patchRefList list of data references for each filter 474 catalogs = dict(self.
readCatalog(patchRef)
for patchRef
in patchRefList)
475 mergedCatalog = self.
mergeCatalogs(catalogs, patchRefList[0])
476 self.
write(patchRefList[0], mergedCatalog)
480 \brief Read input catalog. 482 We read the input dataset provided by the 'inputDataset' 485 \param[in] patchRef data reference for patch 486 \return tuple consisting of the filter name and the catalog 488 filterName = patchRef.dataId[
"filter"]
489 catalog = patchRef.get(self.config.coaddName +
"Coadd_" + self.
inputDataset, immediate=
True)
490 self.log.info(
"Read %d sources for filter %s: %s" % (len(catalog), filterName, patchRef.dataId))
491 return filterName, catalog
495 \brief Merge multiple catalogs. This function must be defined in all subclasses that inherit from 498 \param[in] catalogs dict mapping filter name to source catalog 500 \return merged catalog 502 raise NotImplementedError()
506 \brief Write the output. 508 \param[in] patchRef data reference for patch 509 \param[in] catalog catalog 511 We write as the dataset provided by the 'outputDataset' 514 patchRef.put(catalog, self.config.coaddName +
"Coadd_" + self.
outputDataset)
517 mergeDataId = patchRef.dataId.copy()
518 del mergeDataId[
"filter"]
519 self.log.info(
"Wrote merged catalog: %s" % (mergeDataId,))
523 \brief No metadata to write, and not sure how to write it for a list of dataRefs. 528 class CullPeaksConfig(Config):
530 \anchor CullPeaksConfig_ 532 \brief Configuration for culling garbage peaks after merging footprints. 534 Peaks may also be culled after detection or during deblending; this configuration object 535 only deals with culling after merging Footprints. 537 These cuts are based on three quantities: 538 - nBands: the number of bands in which the peak was detected 539 - peakRank: the position of the peak within its family, sorted from brightest to faintest. 540 - peakRankNormalized: the peak rank divided by the total number of peaks in the family. 542 The formula that identifie peaks to cull is: 544 nBands < nBandsSufficient 545 AND (rank >= rankSufficient) 546 AND (rank >= rankConsider OR rank >= rankNormalizedConsider) 548 To disable peak culling, simply set nBandsSufficient=1. 551 nBandsSufficient = RangeField(dtype=int, default=2, min=1,
552 doc=
"Always keep peaks detected in this many bands")
553 rankSufficient = RangeField(dtype=int, default=20, min=1,
554 doc=
"Always keep this many peaks in each family")
555 rankConsidered = RangeField(dtype=int, default=30, min=1,
556 doc=(
"Keep peaks with less than this rank that also match the " 557 "rankNormalizedConsidered condition."))
558 rankNormalizedConsidered = RangeField(dtype=float, default=0.7, min=0.0,
559 doc=(
"Keep peaks with less than this normalized rank that" 560 " also match the rankConsidered condition."))
565 \anchor MergeDetectionsConfig_ 567 \brief Configuration parameters for the MergeDetectionsTask. 569 minNewPeak = Field(dtype=float, default=1,
570 doc=
"Minimum distance from closest peak to create a new one (in arcsec).")
572 maxSamePeak = Field(dtype=float, default=0.3,
573 doc=
"When adding new catalogs to the merge, all peaks less than this distance " 574 " (in arcsec) to an existing peak will be flagged as detected in that catalog.")
575 cullPeaks = ConfigField(dtype=CullPeaksConfig, doc=
"Configuration for how to cull peaks.")
577 skyFilterName = Field(dtype=str, default=
"sky",
578 doc=
"Name of `filter' used to label sky objects (e.g. flag merge_peak_sky is set)\n" 579 "(N.b. should be in MergeMeasurementsConfig.pseudoFilterList)")
580 skyObjects = ConfigurableField(target=SkyObjectsTask, doc=
"Generate sky objects")
583 MergeSourcesConfig.setDefaults(self)
597 \anchor MergeDetectionsTask_ 599 \brief Merge coadd detections from multiple bands. 601 \section pipe_tasks_multiBand_Contents Contents 603 - \ref pipe_tasks_multiBand_MergeDetectionsTask_Purpose 604 - \ref pipe_tasks_multiBand_MergeDetectionsTask_Init 605 - \ref pipe_tasks_multiBand_MergeDetectionsTask_Run 606 - \ref pipe_tasks_multiBand_MergeDetectionsTask_Config 607 - \ref pipe_tasks_multiBand_MergeDetectionsTask_Debug 608 - \ref pipe_tasks_multiband_MergeDetectionsTask_Example 610 \section pipe_tasks_multiBand_MergeDetectionsTask_Purpose Description 612 Command-line task that merges sources detected in coadds of exposures obtained with different filters. 614 To perform photometry consistently across coadds in multiple filter bands, we create a master catalog of 615 sources from all bands by merging the sources (peaks & footprints) detected in each coadd, while keeping 616 track of which band each source originates in. 618 The catalog merge is performed by \ref getMergedSourceCatalog. Spurious peaks detected around bright 619 objects are culled as described in \ref CullPeaksConfig_. 622 deepCoadd_det{tract,patch,filter}: SourceCatalog (only parent Footprints) 624 deepCoadd_mergeDet{tract,patch}: SourceCatalog (only parent Footprints) 628 MergeDetectionsTask subclasses \ref MergeSourcesTask_ "MergeSourcesTask". 630 \section pipe_tasks_multiBand_MergeDetectionsTask_Init Task initialisation 632 \copydoc \_\_init\_\_ 634 \section pipe_tasks_multiBand_MergeDetectionsTask_Run Invoking the Task 638 \section pipe_tasks_multiBand_MergeDetectionsTask_Config Configuration parameters 640 See \ref MergeDetectionsConfig_ 642 \section pipe_tasks_multiBand_MergeDetectionsTask_Debug Debug variables 644 The \link lsst.pipe.base.cmdLineTask.CmdLineTask command line task\endlink interface supports a flag \c -d 645 to import \b debug.py from your \c PYTHONPATH; see \ref baseDebug for more about \b debug.py files. 647 MergeDetectionsTask has no debug variables. 649 \section pipe_tasks_multiband_MergeDetectionsTask_Example A complete example of using MergeDetectionsTask 651 MergeDetectionsTask is meant to be run after detecting sources in coadds generated for the chosen subset 652 of the available bands. 653 The purpose of the task is to merge sources (peaks & footprints) detected in the coadds generated from the 654 chosen subset of filters. 655 Subsequent tasks in the multi-band processing procedure will deblend the generated master list of sources 656 and, eventually, perform forced photometry. 657 Command-line usage of MergeDetectionsTask expects data references for all the coadds to be processed. 658 A list of the available optional arguments can be obtained by calling mergeCoaddDetections.py with the 659 `--help` command line argument: 661 mergeCoaddDetections.py --help 664 To demonstrate usage of the DetectCoaddSourcesTask in the larger context of multi-band processing, we 665 will process HSC data in the [ci_hsc](https://github.com/lsst/ci_hsc) package. Assuming one has finished 666 step 5 at \ref pipeTasks_multiBand, one may merge the catalogs of sources from each coadd as follows: 668 mergeCoaddDetections.py $CI_HSC_DIR/DATA --id patch=5,4 tract=0 filter=HSC-I^HSC-R 670 This will merge the HSC-I & -R band parent source catalogs and write the results to 671 `$CI_HSC_DIR/DATA/deepCoadd-results/merged/0/5,4/mergeDet-0-5,4.fits`. 673 The next step in the multi-band processing procedure is 674 \ref MeasureMergedCoaddSourcesTask_ "MeasureMergedCoaddSourcesTask" 676 ConfigClass = MergeDetectionsConfig
677 _DefaultName =
"mergeCoaddDetections" 679 outputDataset =
"mergeDet" 680 makeIdFactory = _makeMakeIdFactory(
"MergedCoaddId")
682 def __init__(self, butler=None, schema=None, **kwargs):
684 \brief Initialize the merge detections task. 686 A \ref FootprintMergeList_ "FootprintMergeList" will be used to 687 merge the source catalogs. 689 Additional keyword arguments (forwarded to MergeSourcesTask.__init__): 690 \param[in] schema the schema of the detection catalogs used as input to this one 691 \param[in] butler a butler used to read the input schema from disk, if schema is None 692 \param[in] **kwargs keyword arguments to be passed to MergeSourcesTask.__init__ 694 The task will set its own self.schema attribute to the schema of the output merged catalog. 696 MergeSourcesTask.__init__(self, butler=butler, schema=schema, **kwargs)
697 self.makeSubtask(
"skyObjects")
701 filterNames += [self.config.skyFilterName]
706 \brief Merge multiple catalogs. 708 After ordering the catalogs and filters in priority order, 709 \ref getMergedSourceCatalog of the \ref FootprintMergeList_ "FootprintMergeList" created by 710 \ref \_\_init\_\_ is used to perform the actual merging. Finally, \ref cullPeaks is used to remove 711 garbage peaks detected around bright objects. 715 \param[out] mergedList 719 skyInfo =
getSkyInfo(coaddName=self.config.coaddName, patchRef=patchRef)
720 tractWcs = skyInfo.wcs
721 peakDistance = self.config.minNewPeak / tractWcs.getPixelScale().asArcseconds()
722 samePeakDistance = self.config.maxSamePeak / tractWcs.getPixelScale().asArcseconds()
725 orderedCatalogs = [catalogs[band]
for band
in self.config.priorityList
if band
in catalogs.keys()]
727 if band
in catalogs.keys()]
729 mergedList = self.
merged.getMergedSourceCatalog(orderedCatalogs, orderedBands, peakDistance,
736 skySeed = patchRef.get(self.config.coaddName +
"MergedCoaddId")
738 if skySourceFootprints:
739 key = mergedList.schema.find(
"merge_footprint_%s" % self.config.skyFilterName).key
740 for foot
in skySourceFootprints:
741 s = mergedList.addNew()
746 for record
in mergedList:
747 record.getFootprint().sortPeaks()
748 self.log.info(
"Merged to %d sources" % len(mergedList))
755 \brief Attempt to remove garbage peaks (mostly on the outskirts of large blends). 757 \param[in] catalog Source catalog 759 keys = [item.key
for item
in self.
merged.getPeakSchema().extract(
"merge_peak_*").values()]
760 assert len(keys) > 0,
"Error finding flags that associate peaks with their detection bands." 763 for parentSource
in catalog:
766 keptPeaks = parentSource.getFootprint().getPeaks()
767 oldPeaks = list(keptPeaks)
769 familySize = len(oldPeaks)
770 totalPeaks += familySize
771 for rank, peak
in enumerate(oldPeaks):
772 if ((rank < self.config.cullPeaks.rankSufficient)
or 773 (sum([peak.get(k)
for k
in keys]) >= self.config.cullPeaks.nBandsSufficient)
or 774 (rank < self.config.cullPeaks.rankConsidered
and 775 rank < self.config.cullPeaks.rankNormalizedConsidered * familySize)):
776 keptPeaks.append(peak)
779 self.log.info(
"Culled %d of %d peaks" % (culledPeaks, totalPeaks))
783 Return a dict of empty catalogs for each catalog dataset produced by this task. 785 \param[out] dictionary of empty catalogs 787 mergeDet = afwTable.SourceCatalog(self.
schema)
788 peak = afwDetect.PeakCatalog(self.
merged.getPeakSchema())
789 return {self.config.coaddName +
"Coadd_mergeDet": mergeDet,
790 self.config.coaddName +
"Coadd_peak": peak}
794 \brief Return a list of Footprints of sky objects which don't overlap with anything in mergedList 796 \param mergedList The merged Footprints from all the input bands 797 \param skyInfo A description of the patch 798 \param seed Seed for the random number generator 800 mask = afwImage.Mask(skyInfo.patchInfo.getOuterBBox())
801 detected = mask.getPlaneBitMask(
"DETECTED")
803 s.getFootprint().spans.setMask(mask, detected)
805 footprints = self.skyObjects.
run(mask, seed)
810 schema = self.
merged.getPeakSchema()
811 mergeKey = schema.find(
"merge_peak_%s" % self.config.skyFilterName).key
813 for oldFoot
in footprints:
814 assert len(oldFoot.getPeaks()) == 1,
"Should be a single peak only" 815 peak = oldFoot.getPeaks()[0]
816 newFoot = afwDetect.Footprint(oldFoot.spans, schema)
817 newFoot.addPeak(peak.getFx(), peak.getFy(), peak.getPeakValue())
818 newFoot.getPeaks()[0].set(mergeKey,
True)
819 converted.append(newFoot)
826 \anchor MeasureMergedCoaddSourcesConfig_ 828 \brief Configuration parameters for the MeasureMergedCoaddSourcesTask 830 doDeblend = Field(dtype=bool, default=
True, doc=
"Deblend sources?")
831 deblend = ConfigurableField(target=SourceDeblendTask, doc=
"Deblend sources")
832 measurement = ConfigurableField(target=SingleFrameMeasurementTask, doc=
"Source measurement")
833 setPrimaryFlags = ConfigurableField(target=SetPrimaryFlagsTask, doc=
"Set flags for primary tract/patch")
834 doPropagateFlags = Field(
835 dtype=bool, default=
True,
836 doc=
"Whether to match sources to CCD catalogs to propagate flags (to e.g. identify PSF stars)" 838 propagateFlags = ConfigurableField(target=PropagateVisitFlagsTask, doc=
"Propagate visit flags to coadd")
839 doMatchSources = Field(dtype=bool, default=
True, doc=
"Match sources to reference catalog?")
840 match = ConfigurableField(target=DirectMatchTask, doc=
"Matching to reference catalog")
841 doWriteMatchesDenormalized = Field(
844 doc=(
"Write reference matches in denormalized format? " 845 "This format uses more disk space, but is more convenient to read."),
847 coaddName = Field(dtype=str, default=
"deep", doc=
"Name of coadd")
848 checkUnitsParseStrict = Field(
849 doc=
"Strictness of Astropy unit compatibility check, can be 'raise', 'warn' or 'silent'",
856 doc=
"Apply aperture corrections" 858 applyApCorr = ConfigurableField(
859 target=ApplyApCorrTask,
860 doc=
"Subtask to apply aperture corrections" 862 doRunCatalogCalculation = Field(
865 doc=
'Run catalogCalculation task' 867 catalogCalculation = ConfigurableField(
868 target=CatalogCalculationTask,
869 doc=
"Subtask to run catalogCalculation plugins on catalog" 873 Config.setDefaults(self)
874 self.
deblend.propagateAllPeaks =
True 875 self.
measurement.plugins.names |= [
'base_InputCount',
'base_Variance']
876 self.
measurement.plugins[
'base_PixelFlags'].masksFpAnywhere = [
'CLIPPED',
'SENSOR_EDGE',
878 self.
measurement.plugins[
'base_PixelFlags'].masksFpCenter = [
'CLIPPED',
'SENSOR_EDGE',
891 \anchor MeasureMergedCoaddSourcesTask_ 893 \brief Deblend sources from master catalog in each coadd seperately and measure. 895 \section pipe_tasks_multiBand_Contents Contents 897 - \ref pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Purpose 898 - \ref pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Initialize 899 - \ref pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Run 900 - \ref pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Config 901 - \ref pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Debug 902 - \ref pipe_tasks_multiband_MeasureMergedCoaddSourcesTask_Example 904 \section pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Purpose Description 906 Command-line task that uses peaks and footprints from a master catalog to perform deblending and 907 measurement in each coadd. 909 Given a master input catalog of sources (peaks and footprints), deblend and measure each source on the 910 coadd. Repeating this procedure with the same master catalog across multiple coadds will generate a 911 consistent set of child sources. 913 The deblender retains all peaks and deblends any missing peaks (dropouts in that band) as PSFs. Source 914 properties are measured and the \c is-primary flag (indicating sources with no children) is set. Visit 915 flags are propagated to the coadd sources. 917 Optionally, we can match the coadd sources to an external reference catalog. 920 deepCoadd_mergeDet{tract,patch}: SourceCatalog 921 \n deepCoadd_calexp{tract,patch,filter}: ExposureF 923 deepCoadd_meas{tract,patch,filter}: SourceCatalog 927 MeasureMergedCoaddSourcesTask delegates most of its work to a set of sub-tasks: 930 <DT> \ref SourceDeblendTask_ "deblend" 931 <DD> Deblend all the sources from the master catalog.</DD> 932 <DT> \ref SingleFrameMeasurementTask_ "measurement" 933 <DD> Measure source properties of deblended sources.</DD> 934 <DT> \ref SetPrimaryFlagsTask_ "setPrimaryFlags" 935 <DD> Set flag 'is-primary' as well as related flags on sources. 'is-primary' is set for sources that are 936 not at the edge of the field and that have either not been deblended or are the children of deblended 938 <DT> \ref PropagateVisitFlagsTask_ "propagateFlags" 939 <DD> Propagate flags set in individual visits to the coadd.</DD> 940 <DT> \ref DirectMatchTask_ "match" 941 <DD> Match input sources to a reference catalog (optional). 944 These subtasks may be retargeted as required. 946 \section pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Initialize Task initialization 948 \copydoc \_\_init\_\_ 950 \section pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Run Invoking the Task 954 \section pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Config Configuration parameters 956 See \ref MeasureMergedCoaddSourcesConfig_ 958 \section pipe_tasks_multiBand_MeasureMergedCoaddSourcesTask_Debug Debug variables 960 The \link lsst.pipe.base.cmdLineTask.CmdLineTask command line task\endlink interface supports a 961 flag \c -d to import \b debug.py from your \c PYTHONPATH; see \ref baseDebug for more about \b debug.py 964 MeasureMergedCoaddSourcesTask has no debug variables of its own because it delegates all the work to 965 the various sub-tasks. See the documetation for individual sub-tasks for more information. 967 \section pipe_tasks_multiband_MeasureMergedCoaddSourcesTask_Example A complete example of using 968 MeasureMergedCoaddSourcesTask 970 After MeasureMergedCoaddSourcesTask has been run on multiple coadds, we have a set of per-band catalogs. 971 The next stage in the multi-band processing procedure will merge these measurements into a suitable 972 catalog for driving forced photometry. 974 Command-line usage of MeasureMergedCoaddSourcesTask expects a data reference to the coadds 976 A list of the available optional arguments can be obtained by calling measureCoaddSources.py with the 977 `--help` command line argument: 979 measureCoaddSources.py --help 982 To demonstrate usage of the DetectCoaddSourcesTask in the larger context of multi-band processing, we 983 will process HSC data in the [ci_hsc](https://github.com/lsst/ci_hsc) package. Assuming one has finished 984 step 6 at \ref pipeTasks_multiBand, one may perform deblending and measure sources in the HSC-I band 987 measureCoaddSources.py $CI_HSC_DIR/DATA --id patch=5,4 tract=0 filter=HSC-I 989 This will process the HSC-I band data. The results are written in 990 `$CI_HSC_DIR/DATA/deepCoadd-results/HSC-I/0/5,4/meas-HSC-I-0-5,4.fits 992 It is also necessary to run 994 measureCoaddSources.py $CI_HSC_DIR/DATA --id patch=5,4 tract=0 filter=HSC-R 996 to generate the sources catalogs for the HSC-R band required by the next step in the multi-band 997 procedure: \ref MergeMeasurementsTask_ "MergeMeasurementsTask". 999 _DefaultName =
"measureCoaddSources" 1000 ConfigClass = MeasureMergedCoaddSourcesConfig
1001 RunnerClass = ButlerInitializedTaskRunner
1002 getSchemaCatalogs = _makeGetSchemaCatalogs(
"meas")
1003 makeIdFactory = _makeMakeIdFactory(
"MergedCoaddId")
1006 def _makeArgumentParser(cls):
1008 parser.add_id_argument(
"--id",
"deepCoadd_calexp",
1009 help=
"data ID, e.g. --id tract=12345 patch=1,2 filter=r",
1010 ContainerClass=ExistingCoaddDataIdContainer)
1013 def __init__(self, butler=None, schema=None, peakSchema=None, refObjLoader=None, **kwargs):
1015 \brief Initialize the task. 1017 Keyword arguments (in addition to those forwarded to CmdLineTask.__init__): 1018 \param[in] schema: the schema of the merged detection catalog used as input to this one 1019 \param[in] peakSchema: the schema of the PeakRecords in the Footprints in the merged detection catalog 1020 \param[in] refObjLoader: an instance of LoadReferenceObjectsTasks that supplies an external reference 1021 catalog. May be None if the loader can be constructed from the butler argument or all steps 1022 requiring a reference catalog are disabled. 1023 \param[in] butler: a butler used to read the input schemas from disk or construct the reference 1024 catalog loader, if schema or peakSchema or refObjLoader is None 1026 The task will set its own self.schema attribute to the schema of the output measurement catalog. 1027 This will include all fields from the input schema, as well as additional fields for all the 1030 CmdLineTask.__init__(self, **kwargs)
1032 assert butler
is not None,
"Neither butler nor schema is defined" 1033 schema = butler.get(self.config.coaddName +
"Coadd_mergeDet_schema", immediate=
True).schema
1038 if self.config.doDeblend:
1039 if peakSchema
is None:
1040 assert butler
is not None,
"Neither butler nor peakSchema is defined" 1041 peakSchema = butler.get(self.config.coaddName +
"Coadd_peak_schema", immediate=
True).schema
1042 self.makeSubtask(
"deblend", schema=self.
schema, peakSchema=peakSchema)
1043 self.makeSubtask(
"measurement", schema=self.
schema, algMetadata=self.
algMetadata)
1044 self.makeSubtask(
"setPrimaryFlags", schema=self.
schema)
1045 if self.config.doMatchSources:
1046 if refObjLoader
is None:
1047 assert butler
is not None,
"Neither butler nor refObjLoader is defined" 1048 self.makeSubtask(
"match", butler=butler, refObjLoader=refObjLoader)
1049 if self.config.doPropagateFlags:
1050 self.makeSubtask(
"propagateFlags", schema=self.
schema)
1051 self.
schema.checkUnits(parse_strict=self.config.checkUnitsParseStrict)
1052 if self.config.doApCorr:
1053 self.makeSubtask(
"applyApCorr", schema=self.
schema)
1054 if self.config.doRunCatalogCalculation:
1055 self.makeSubtask(
"catalogCalculation", schema=self.
schema)
1059 \brief Deblend and measure. 1061 \param[in] patchRef: Patch reference. 1063 Deblend each source in every coadd and measure. Set 'is-primary' and related flags. Propagate flags 1064 from individual visits. Optionally match the sources to a reference catalog and write the matches. 1065 Finally, write the deblended sources and measurements out. 1067 exposure = patchRef.get(self.config.coaddName +
"Coadd_calexp", immediate=
True)
1069 if self.config.doDeblend:
1070 self.deblend.
run(exposure, sources)
1072 bigKey = sources.schema[
"deblend_parentTooBig"].asKey()
1074 numBig = sum((s.get(bigKey)
for s
in sources))
1076 self.log.warn(
"Patch %s contains %d large footprints that were not deblended" %
1077 (patchRef.dataId, numBig))
1079 table = sources.getTable()
1082 self.measurement.
run(sources, exposure, exposureId=self.
getExposureId(patchRef))
1084 if self.config.doApCorr:
1085 self.applyApCorr.
run(
1087 apCorrMap=exposure.getInfo().getApCorrMap()
1090 if self.config.doRunCatalogCalculation:
1091 self.catalogCalculation.
run(sources)
1093 skyInfo =
getSkyInfo(coaddName=self.config.coaddName, patchRef=patchRef)
1094 self.setPrimaryFlags.
run(sources, skyInfo.skyMap, skyInfo.tractInfo, skyInfo.patchInfo,
1095 includeDeblend=self.config.doDeblend)
1096 if self.config.doPropagateFlags:
1097 self.propagateFlags.
run(patchRef.getButler(), sources, self.propagateFlags.getCcdInputs(exposure),
1099 if self.config.doMatchSources:
1101 self.
write(patchRef, sources)
1105 \brief Read input sources. 1107 \param[in] dataRef: Data reference for catalog of merged detections 1108 \return List of sources in merged catalog 1110 We also need to add columns to hold the measurements we're about to make 1111 so we can measure in-place. 1113 merged = dataRef.get(self.config.coaddName +
"Coadd_mergeDet", immediate=
True)
1114 self.log.info(
"Read %d detections: %s" % (len(merged), dataRef.dataId))
1117 idFactory.notify(s.getId())
1118 table = afwTable.SourceTable.make(self.
schema, idFactory)
1119 sources = afwTable.SourceCatalog(table)
1125 \brief Write matches of the sources to the astrometric reference catalog. 1127 We use the Wcs in the exposure to match sources. 1129 \param[in] dataRef: data reference 1130 \param[in] exposure: exposure with Wcs 1131 \param[in] sources: source catalog 1133 result = self.match.
run(sources, exposure.getInfo().getFilter().getName())
1135 matches = afwTable.packMatches(result.matches)
1136 matches.table.setMetadata(result.matchMeta)
1137 dataRef.put(matches, self.config.coaddName +
"Coadd_measMatch")
1138 if self.config.doWriteMatchesDenormalized:
1139 denormMatches = denormalizeMatches(result.matches, result.matchMeta)
1140 dataRef.put(denormMatches, self.config.coaddName +
"Coadd_measMatchFull")
1144 \brief Write the source catalog. 1146 \param[in] dataRef: data reference 1147 \param[in] sources: source catalog 1149 dataRef.put(sources, self.config.coaddName +
"Coadd_meas")
1150 self.log.info(
"Wrote %d sources: %s" % (len(sources), dataRef.dataId))
1153 return int(dataRef.get(self.config.coaddName +
"CoaddId"))
1158 \anchor MergeMeasurementsConfig_ 1160 \brief Configuration parameters for the MergeMeasurementsTask 1162 pseudoFilterList = ListField(dtype=str, default=[
"sky"],
1163 doc=
"Names of filters which may have no associated detection\n" 1164 "(N.b. should include MergeDetectionsConfig.skyFilterName)")
1165 snName = Field(dtype=str, default=
"base_PsfFlux",
1166 doc=
"Name of flux measurement for calculating the S/N when choosing the reference band.")
1167 minSN = Field(dtype=float, default=10.,
1168 doc=
"If the S/N from the priority band is below this value (and the S/N " 1169 "is larger than minSNDiff compared to the priority band), use the band with " 1170 "the largest S/N as the reference band.")
1171 minSNDiff = Field(dtype=float, default=3.,
1172 doc=
"If the difference in S/N between another band and the priority band is larger " 1173 "than this value (and the S/N in the priority band is less than minSN) " 1174 "use the band with the largest S/N as the reference band")
1175 flags = ListField(dtype=str, doc=
"Require that these flags, if available, are not set",
1176 default=[
"base_PixelFlags_flag_interpolatedCenter",
"base_PsfFlux_flag",
1177 "ext_photometryKron_KronFlux_flag",
"modelfit_CModel_flag", ])
1189 \anchor MergeMeasurementsTask_ 1191 \brief Merge measurements from multiple bands 1193 \section pipe_tasks_multiBand_Contents Contents 1195 - \ref pipe_tasks_multiBand_MergeMeasurementsTask_Purpose 1196 - \ref pipe_tasks_multiBand_MergeMeasurementsTask_Initialize 1197 - \ref pipe_tasks_multiBand_MergeMeasurementsTask_Run 1198 - \ref pipe_tasks_multiBand_MergeMeasurementsTask_Config 1199 - \ref pipe_tasks_multiBand_MergeMeasurementsTask_Debug 1200 - \ref pipe_tasks_multiband_MergeMeasurementsTask_Example 1202 \section pipe_tasks_multiBand_MergeMeasurementsTask_Purpose Description 1204 Command-line task that merges measurements from multiple bands. 1206 Combines consistent (i.e. with the same peaks and footprints) catalogs of sources from multiple filter 1207 bands to construct a unified catalog that is suitable for driving forced photometry. Every source is 1208 required to have centroid, shape and flux measurements in each band. 1211 deepCoadd_meas{tract,patch,filter}: SourceCatalog 1213 deepCoadd_ref{tract,patch}: SourceCatalog 1217 MergeMeasurementsTask subclasses \ref MergeSourcesTask_ "MergeSourcesTask". 1219 \section pipe_tasks_multiBand_MergeMeasurementsTask_Initialize Task initialization 1221 \copydoc \_\_init\_\_ 1223 \section pipe_tasks_multiBand_MergeMeasurementsTask_Run Invoking the Task 1227 \section pipe_tasks_multiBand_MergeMeasurementsTask_Config Configuration parameters 1229 See \ref MergeMeasurementsConfig_ 1231 \section pipe_tasks_multiBand_MergeMeasurementsTask_Debug Debug variables 1233 The \link lsst.pipe.base.cmdLineTask.CmdLineTask command line task\endlink interface supports a 1234 flag \c -d to import \b debug.py from your \c PYTHONPATH; see \ref baseDebug for more about \b debug.py 1237 MergeMeasurementsTask has no debug variables. 1239 \section pipe_tasks_multiband_MergeMeasurementsTask_Example A complete example 1240 of using MergeMeasurementsTask 1242 MergeMeasurementsTask is meant to be run after deblending & measuring sources in every band. 1243 The purpose of the task is to generate a catalog of sources suitable for driving forced photometry in 1244 coadds and individual exposures. 1245 Command-line usage of MergeMeasurementsTask expects a data reference to the coadds to be processed. A list 1246 of the available optional arguments can be obtained by calling mergeCoaddMeasurements.py with the `--help` 1247 command line argument: 1249 mergeCoaddMeasurements.py --help 1252 To demonstrate usage of the DetectCoaddSourcesTask in the larger context of multi-band processing, we 1253 will process HSC data in the [ci_hsc](https://github.com/lsst/ci_hsc) package. Assuming one has finished 1254 step 7 at \ref pipeTasks_multiBand, one may merge the catalogs generated after deblending and measuring 1257 mergeCoaddMeasurements.py $CI_HSC_DIR/DATA --id patch=5,4 tract=0 filter=HSC-I^HSC-R 1259 This will merge the HSC-I & HSC-R band catalogs. The results are written in 1260 `$CI_HSC_DIR/DATA/deepCoadd-results/`. 1262 _DefaultName =
"mergeCoaddMeasurements" 1263 ConfigClass = MergeMeasurementsConfig
1264 inputDataset =
"meas" 1265 outputDataset =
"ref" 1266 getSchemaCatalogs = _makeGetSchemaCatalogs(
"ref")
1268 def __init__(self, butler=None, schema=None, **kwargs):
1270 Initialize the task. 1272 Additional keyword arguments (forwarded to MergeSourcesTask.__init__): 1273 \param[in] schema: the schema of the detection catalogs used as input to this one 1274 \param[in] butler: a butler used to read the input schema from disk, if schema is None 1276 The task will set its own self.schema attribute to the schema of the output merged catalog. 1278 MergeSourcesTask.__init__(self, butler=butler, schema=schema, **kwargs)
1282 self.
fluxKey = inputSchema.find(self.config.snName +
"_flux").getKey()
1283 self.
fluxErrKey = inputSchema.find(self.config.snName +
"_fluxSigma").getKey()
1284 self.
fluxFlagKey = inputSchema.find(self.config.snName +
"_flag").getKey()
1287 for band
in self.config.priorityList:
1289 outputKey = self.
schemaMapper.editOutputSchema().addField(
1290 "merge_measurement_%s" % short,
1292 doc=
"Flag field set if the measurements here are from the %s filter" % band
1294 peakKey = inputSchema.find(
"merge_peak_%s" % short).key
1295 footprintKey = inputSchema.find(
"merge_footprint_%s" % short).key
1296 self.
flagKeys[band] = Struct(peak=peakKey, footprint=footprintKey, output=outputKey)
1300 for filt
in self.config.pseudoFilterList:
1304 self.log.warn(
"merge_peak is not set for pseudo-filter %s" % filt)
1307 for flag
in self.config.flags:
1310 except KeyError
as exc:
1311 self.log.warn(
"Can't find flag %s in schema: %s" % (flag, exc,))
1315 Merge measurement catalogs to create a single reference catalog for forced photometry 1317 \param[in] catalogs: the catalogs to be merged 1318 \param[in] patchRef: patch reference for data 1320 For parent sources, we choose the first band in config.priorityList for which the 1321 merge_footprint flag for that band is is True. 1323 For child sources, the logic is the same, except that we use the merge_peak flags. 1326 orderedCatalogs = [catalogs[band]
for band
in self.config.priorityList
if band
in catalogs.keys()]
1327 orderedKeys = [self.
flagKeys[band]
for band
in self.config.priorityList
if band
in catalogs.keys()]
1329 mergedCatalog = afwTable.SourceCatalog(self.
schema)
1330 mergedCatalog.reserve(len(orderedCatalogs[0]))
1332 idKey = orderedCatalogs[0].table.getIdKey()
1333 for catalog
in orderedCatalogs[1:]:
1334 if numpy.any(orderedCatalogs[0].get(idKey) != catalog.get(idKey)):
1335 raise ValueError(
"Error in inputs to MergeCoaddMeasurements: source IDs do not match")
1339 for orderedRecords
in zip(*orderedCatalogs):
1342 maxSNFlagKeys =
None 1344 priorityRecord =
None 1345 priorityFlagKeys =
None 1347 hasPseudoFilter =
False 1351 for inputRecord, flagKeys
in zip(orderedRecords, orderedKeys):
1352 parent = (inputRecord.getParent() == 0
and inputRecord.get(flagKeys.footprint))
1353 child = (inputRecord.getParent() != 0
and inputRecord.get(flagKeys.peak))
1355 if not (parent
or child):
1357 if inputRecord.get(pseudoFilterKey):
1358 hasPseudoFilter =
True 1359 priorityRecord = inputRecord
1360 priorityFlagKeys = flagKeys
1365 isBad = any(inputRecord.get(flag)
for flag
in self.
badFlags)
1370 if numpy.isnan(sn)
or sn < 0.:
1372 if (parent
or child)
and priorityRecord
is None:
1373 priorityRecord = inputRecord
1374 priorityFlagKeys = flagKeys
1377 maxSNRecord = inputRecord
1378 maxSNFlagKeys = flagKeys
1391 bestRecord = priorityRecord
1392 bestFlagKeys = priorityFlagKeys
1393 elif (prioritySN < self.config.minSN
and (maxSN - prioritySN) > self.config.minSNDiff
and 1394 maxSNRecord
is not None):
1395 bestRecord = maxSNRecord
1396 bestFlagKeys = maxSNFlagKeys
1397 elif priorityRecord
is not None:
1398 bestRecord = priorityRecord
1399 bestFlagKeys = priorityFlagKeys
1401 if bestRecord
is not None and bestFlagKeys
is not None:
1402 outputRecord = mergedCatalog.addNew()
1404 outputRecord.set(bestFlagKeys.output,
True)
1406 raise ValueError(
"Error in inputs to MergeCoaddMeasurements: no valid reference for %s" %
1407 inputRecord.getId())
1410 for inputCatalog
in orderedCatalogs:
1411 if len(mergedCatalog) != len(inputCatalog):
1412 raise ValueError(
"Mismatch between catalog sizes: %s != %s" %
1413 (len(mergedCatalog), len(orderedCatalogs)))
1415 return mergedCatalog
def getSkySourceFootprints(self, mergedList, skyInfo, seed)
Return a list of Footprints of sky objects which don't overlap with anything in mergedList.
Merge coadd detections from multiple bands.
def makeTask(self, parsedCmd=None, args=None)
Provide a butler to the Task constructor.
def getInputSchema(self, butler=None, schema=None)
Obtain the input schema either directly or froma butler reference.
def getSchemaCatalogs(self)
Return a dict of empty catalogs for each catalog dataset produced by this task.
def runDetection(self, exposure, idFactory, expId)
Run detection on an exposure.
def cullPeaks(self, catalog)
Attempt to remove garbage peaks (mostly on the outskirts of large blends).
def run(self, patchRef)
Deblend and measure.
Task runner for the MergeSourcesTask. Required because the run method requires a list of dataRefs rat...
def write(self, exposure, results, patchRef)
Write out results from runDetection.
def __init__(self, butler=None, schema=None, kwargs)
Initialize the task.
def __init__(self, butler=None, schema=None, kwargs)
Initialize the task.
Configuration parameters for the DetectCoaddSourcesTask.
def __init__(self, schema=None, kwargs)
Initialize the task.
Merge measurements from multiple bands.
def run(self, patchRefList)
Merge coadd sources from multiple bands.
Deblend sources from master catalog in each coadd seperately and measure.
def writeMatches(self, dataRef, exposure, sources)
Write matches of the sources to the astrometric reference catalog.
def getShortFilterName(name)
def run(self, patchRef)
Run detection on a coadd.
def mergeCatalogs(self, catalogs, patchRef)
Merge measurement catalogs to create a single reference catalog for forced photometry.
def mergeCatalogs(self, catalogs, patchRef)
Merge multiple catalogs.
Configuration parameters for the MergeMeasurementsTask.
def readSources(self, dataRef)
Read input sources.
def getExposureId(self, dataRef)
Configuration parameters for the MergeDetectionsTask.
Configuration for merging sources.
def write(self, patchRef, catalog)
Write the output.
def mergeCatalogs(self, catalogs, patchRef)
Merge multiple catalogs.
A base class for merging source catalogs.
def write(self, dataRef, sources)
Write the source catalog.
def readCatalog(self, patchRef)
Read input catalog.
Configuration parameters for the MeasureMergedCoaddSourcesTask.
def getSkyInfo(coaddName, patchRef)
Return the SkyMap, tract and patch information, wcs, and outer bbox of the patch to be coadded...
def writeMetadata(self, dataRefList)
No metadata to write, and not sure how to write it for a list of dataRefs.
def __init__(self, butler=None, schema=None, peakSchema=None, refObjLoader=None, kwargs)
Initialize the task.
Detect sources on a coadd.
def __init__(self, butler=None, schema=None, kwargs)
Initialize the merge detections task.
def getTargetList(parsedCmd, kwargs)
Provide a list of patch references for each patch.