318 schema = SourceTable.makeMinimalSchema()
320 self.makeSubtask(
"background")
321 self.makeSubtask(
"installSimplePsf")
322 self.makeSubtask(
"repair")
323 if self.config.doMaskStreaks:
324 self.makeSubtask(
"maskStreaks")
325 self.makeSubtask(
"measurePsf", schema=self.
schema)
327 self.makeSubtask(
'detection', schema=self.
schema)
328 if self.config.doDeblend:
329 self.makeSubtask(
"deblend", schema=self.
schema)
330 self.makeSubtask(
'measurement', schema=self.
schema, algMetadata=self.
algMetadata)
331 if self.config.doApCorr:
332 self.makeSubtask(
'measureApCorr', schema=self.
schema)
333 self.makeSubtask(
'applyApCorr', schema=self.
schema)
334 self.makeSubtask(
'catalogCalculation', schema=self.
schema)
337 self.
schema.checkUnits(parse_strict=self.config.checkUnitsParseStrict)
341 inputs = butlerQC.get(inputRefs)
342 if 'idGenerator' not in inputs.keys():
343 inputs[
'idGenerator'] = self.config.idGenerator.apply(butlerQC.quantum.dataId)
344 outputs = self.
run(**inputs)
345 butlerQC.put(outputs, outputRefs)
348 def run(self, exposure, background=None, idGenerator=None):
349 """Characterize a science image.
351 Peforms the following operations:
352 - Iterate the following config.psfIterations times, or once if config.doMeasurePsf false:
353 - detect and measure sources and estimate PSF (see detectMeasureAndEstimatePsf for details)
354 - interpolate over cosmic rays
355 - perform final measurement
359 exposure : `lsst.afw.image.ExposureF`
360 Exposure to characterize.
361 background : `lsst.afw.math.BackgroundList`, optional
362 Initial model of background already subtracted from exposure.
363 idGenerator : `lsst.meas.base.IdGenerator`, optional
364 Object that generates source IDs and provides RNG seeds.
368 result : `lsst.pipe.base.Struct`
369 Results as a struct with attributes:
372 Characterized exposure (`lsst.afw.image.ExposureF`).
374 Detected sources (`lsst.afw.table.SourceCatalog`).
376 Model of subtracted background (`lsst.afw.math.BackgroundList`).
378 Spatial cells of PSF candidates (`lsst.afw.math.SpatialCellSet`).
380 Another reference to ``exposure`` for compatibility.
382 Another reference to ``background`` for compatibility.
387 Raised if PSF sigma is NaN.
391 if not self.config.doMeasurePsf
and not exposure.hasPsf():
392 self.log.info(
"CharacterizeImageTask initialized with 'simple' PSF.")
393 self.installSimplePsf.run(exposure=exposure)
395 if idGenerator
is None:
396 idGenerator = IdGenerator()
399 background = self.background.run(exposure).background
401 psfIterations = self.config.psfIterations
if self.config.doMeasurePsf
else 1
402 for i
in range(psfIterations):
405 idGenerator=idGenerator,
406 background=background,
409 psf = dmeRes.exposure.getPsf()
411 psfAvgPos = psf.getAveragePosition()
412 psfSigma = psf.computeShape(psfAvgPos).getDeterminantRadius()
413 psfDimensions = psf.computeImage(psfAvgPos).getDimensions()
414 medBackground = np.median(dmeRes.background.getImage().getArray())
415 self.log.info(
"iter %s; PSF sigma=%0.4f, dimensions=%s; median background=%0.2f",
416 i + 1, psfSigma, psfDimensions, medBackground)
417 if np.isnan(psfSigma):
418 raise RuntimeError(
"PSF sigma is NaN, cannot continue PSF determination.")
420 self.
display(
"psf", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
423 self.repair.run(exposure=dmeRes.exposure)
424 self.
display(
"repair", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
427 if self.config.doMaskStreaks:
428 _ = self.maskStreaks.run(dmeRes.exposure)
432 self.measurement.run(measCat=dmeRes.sourceCat, exposure=dmeRes.exposure,
433 exposureId=idGenerator.catalog_id)
434 if self.config.doApCorr:
436 apCorrMap = self.measureApCorr.run(
437 exposure=dmeRes.exposure,
438 catalog=dmeRes.sourceCat,
440 except MeasureApCorrError:
444 dmeRes.exposure.info.setApCorrMap(
None)
446 dmeRes.exposure.info.setApCorrMap(apCorrMap)
447 self.applyApCorr.run(catalog=dmeRes.sourceCat, apCorrMap=exposure.getInfo().getApCorrMap())
449 self.catalogCalculation.run(dmeRes.sourceCat)
451 self.
display(
"measure", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
453 return pipeBase.Struct(
454 exposure=dmeRes.exposure,
455 sourceCat=dmeRes.sourceCat,
456 background=dmeRes.background,
457 psfCellSet=dmeRes.psfCellSet,
459 characterized=dmeRes.exposure,
460 backgroundModel=dmeRes.background
465 """Perform one iteration of detect, measure, and estimate PSF.
467 Performs the following operations:
469 - if config.doMeasurePsf or not exposure.hasPsf():
471 - install a simple PSF model (replacing the existing one, if need be)
473 - interpolate over cosmic rays with keepCRs=True
474 - estimate background and subtract it from the exposure
475 - detect, deblend and measure sources, and subtract a refined background model;
476 - if config.doMeasurePsf:
481 exposure : `lsst.afw.image.ExposureF`
482 Exposure to characterize.
483 idGenerator : `lsst.meas.base.IdGenerator`
484 Object that generates source IDs and provides RNG seeds.
485 background : `lsst.afw.math.BackgroundList`, optional
486 Initial model of background already subtracted from exposure.
490 result : `lsst.pipe.base.Struct`
491 Results as a struct with attributes:
494 Characterized exposure (`lsst.afw.image.ExposureF`).
496 Detected sources (`lsst.afw.table.SourceCatalog`).
498 Model of subtracted background (`lsst.afw.math.BackgroundList`).
500 Spatial cells of PSF candidates (`lsst.afw.math.SpatialCellSet`).
505 Raised if there are too many CR pixels.
508 if not exposure.hasPsf()
or (self.config.doMeasurePsf
and self.config.useSimplePsf):
509 self.log.info(
"PSF estimation initialized with 'simple' PSF")
510 self.installSimplePsf.run(exposure=exposure)
513 if self.config.requireCrForPsf:
514 self.repair.run(exposure=exposure, keepCRs=
True)
517 self.repair.run(exposure=exposure, keepCRs=
True)
519 self.log.warning(
"Skipping cosmic ray detection: Too many CR pixels (max %0.f)",
520 self.config.repair.cosmicray.nCrPixelMax)
522 self.
display(
"repair_iter", exposure=exposure)
524 if background
is None:
525 background = BackgroundList()
527 sourceIdFactory = idGenerator.make_table_id_factory()
528 table = SourceTable.make(self.
schema, sourceIdFactory)
531 detRes = self.detection.run(table=table, exposure=exposure, doSmooth=
True)
532 sourceCat = detRes.sources
533 if detRes.background:
534 for bg
in detRes.background:
535 background.append(bg)
537 if self.config.doDeblend:
538 self.deblend.run(exposure=exposure, sources=sourceCat)
540 if not sourceCat.isContiguous():
541 sourceCat = sourceCat.copy(deep=
True)
543 self.measurement.run(measCat=sourceCat, exposure=exposure, exposureId=idGenerator.catalog_id)
545 measPsfRes = pipeBase.Struct(cellSet=
None)
546 if self.config.doMeasurePsf:
547 measPsfRes = self.measurePsf.run(exposure=exposure, sources=sourceCat,
548 expId=idGenerator.catalog_id)
549 self.
display(
"measure_iter", exposure=exposure, sourceCat=sourceCat)
551 return pipeBase.Struct(
554 background=background,
555 psfCellSet=measPsfRes.cellSet,
558 def display(self, itemName, exposure, sourceCat=None):
559 """Display exposure and sources on next frame (for debugging).
564 Name of item in ``debugInfo``.
565 exposure : `lsst.afw.image.ExposureF`
567 sourceCat : `lsst.afw.table.SourceCatalog`, optional
568 Catalog of sources detected on the exposure.
570 val = getDebugFrame(self._display, itemName)
574 displayAstrometry(exposure=exposure, sourceCat=sourceCat, frame=self.
_frame, pause=
False)