314 schema = SourceTable.makeMinimalSchema()
316 self.makeSubtask(
"background")
317 self.makeSubtask(
"installSimplePsf")
318 self.makeSubtask(
"repair")
319 if self.config.doMaskStreaks:
320 self.makeSubtask(
"maskStreaks")
321 self.makeSubtask(
"measurePsf", schema=self.
schema)
323 self.makeSubtask(
'detection', schema=self.
schema)
324 if self.config.doDeblend:
325 self.makeSubtask(
"deblend", schema=self.
schema)
326 self.makeSubtask(
'measurement', schema=self.
schema, algMetadata=self.
algMetadata)
327 if self.config.doApCorr:
328 self.makeSubtask(
'measureApCorr', schema=self.
schema)
329 self.makeSubtask(
'applyApCorr', schema=self.
schema)
330 self.makeSubtask(
'catalogCalculation', schema=self.
schema)
333 self.
schema.checkUnits(parse_strict=self.config.checkUnitsParseStrict)
337 inputs = butlerQC.get(inputRefs)
338 if 'idGenerator' not in inputs.keys():
339 inputs[
'idGenerator'] = self.config.idGenerator.apply(butlerQC.quantum.dataId)
340 outputs = self.
run(**inputs)
341 butlerQC.put(outputs, outputRefs)
344 def run(self, exposure, background=None, idGenerator=None):
345 """Characterize a science image.
347 Peforms the following operations:
348 - Iterate the following config.psfIterations times, or once if config.doMeasurePsf false:
349 - detect and measure sources and estimate PSF (see detectMeasureAndEstimatePsf for details)
350 - interpolate over cosmic rays
351 - perform final measurement
355 exposure : `lsst.afw.image.ExposureF`
356 Exposure to characterize.
357 background : `lsst.afw.math.BackgroundList`, optional
358 Initial model of background already subtracted from exposure.
359 idGenerator : `lsst.meas.base.IdGenerator`, optional
360 Object that generates source IDs and provides RNG seeds.
364 result : `lsst.pipe.base.Struct`
365 Results as a struct with attributes:
368 Characterized exposure (`lsst.afw.image.ExposureF`).
370 Detected sources (`lsst.afw.table.SourceCatalog`).
372 Model of subtracted background (`lsst.afw.math.BackgroundList`).
374 Spatial cells of PSF candidates (`lsst.afw.math.SpatialCellSet`).
376 Another reference to ``exposure`` for compatibility.
378 Another reference to ``background`` for compatibility.
383 Raised if PSF sigma is NaN.
387 if not self.config.doMeasurePsf
and not exposure.hasPsf():
388 self.log.info(
"CharacterizeImageTask initialized with 'simple' PSF.")
389 self.installSimplePsf.run(exposure=exposure)
391 if idGenerator
is None:
392 idGenerator = IdGenerator()
395 background = self.background.run(exposure).background
397 psfIterations = self.config.psfIterations
if self.config.doMeasurePsf
else 1
398 for i
in range(psfIterations):
401 idGenerator=idGenerator,
402 background=background,
405 psf = dmeRes.exposure.getPsf()
407 psfAvgPos = psf.getAveragePosition()
408 psfSigma = psf.computeShape(psfAvgPos).getDeterminantRadius()
409 psfDimensions = psf.computeImage(psfAvgPos).getDimensions()
410 medBackground = np.median(dmeRes.background.getImage().getArray())
411 self.log.info(
"iter %s; PSF sigma=%0.4f, dimensions=%s; median background=%0.2f",
412 i + 1, psfSigma, psfDimensions, medBackground)
413 if np.isnan(psfSigma):
414 raise RuntimeError(
"PSF sigma is NaN, cannot continue PSF determination.")
416 self.
display(
"psf", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
419 self.repair.run(exposure=dmeRes.exposure)
420 self.
display(
"repair", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
423 if self.config.doMaskStreaks:
424 _ = self.maskStreaks.run(dmeRes.exposure)
428 self.measurement.run(measCat=dmeRes.sourceCat, exposure=dmeRes.exposure,
429 exposureId=idGenerator.catalog_id)
430 if self.config.doApCorr:
432 apCorrMap = self.measureApCorr.run(
433 exposure=dmeRes.exposure,
434 catalog=dmeRes.sourceCat,
436 except MeasureApCorrError:
440 dmeRes.exposure.info.setApCorrMap(
None)
442 dmeRes.exposure.info.setApCorrMap(apCorrMap)
443 self.applyApCorr.run(catalog=dmeRes.sourceCat, apCorrMap=exposure.getInfo().getApCorrMap())
445 self.catalogCalculation.run(dmeRes.sourceCat)
447 self.
display(
"measure", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
449 return pipeBase.Struct(
450 exposure=dmeRes.exposure,
451 sourceCat=dmeRes.sourceCat,
452 background=dmeRes.background,
453 psfCellSet=dmeRes.psfCellSet,
455 characterized=dmeRes.exposure,
456 backgroundModel=dmeRes.background
461 """Perform one iteration of detect, measure, and estimate PSF.
463 Performs the following operations:
465 - if config.doMeasurePsf or not exposure.hasPsf():
467 - install a simple PSF model (replacing the existing one, if need be)
469 - interpolate over cosmic rays with keepCRs=True
470 - estimate background and subtract it from the exposure
471 - detect, deblend and measure sources, and subtract a refined background model;
472 - if config.doMeasurePsf:
477 exposure : `lsst.afw.image.ExposureF`
478 Exposure to characterize.
479 idGenerator : `lsst.meas.base.IdGenerator`
480 Object that generates source IDs and provides RNG seeds.
481 background : `lsst.afw.math.BackgroundList`, optional
482 Initial model of background already subtracted from exposure.
486 result : `lsst.pipe.base.Struct`
487 Results as a struct with attributes:
490 Characterized exposure (`lsst.afw.image.ExposureF`).
492 Detected sources (`lsst.afw.table.SourceCatalog`).
494 Model of subtracted background (`lsst.afw.math.BackgroundList`).
496 Spatial cells of PSF candidates (`lsst.afw.math.SpatialCellSet`).
501 Raised if there are too many CR pixels.
504 if not exposure.hasPsf()
or (self.config.doMeasurePsf
and self.config.useSimplePsf):
505 self.log.info(
"PSF estimation initialized with 'simple' PSF")
506 self.installSimplePsf.run(exposure=exposure)
509 if self.config.requireCrForPsf:
510 self.repair.run(exposure=exposure, keepCRs=
True)
513 self.repair.run(exposure=exposure, keepCRs=
True)
515 self.log.warning(
"Skipping cosmic ray detection: Too many CR pixels (max %0.f)",
516 self.config.repair.cosmicray.nCrPixelMax)
518 self.
display(
"repair_iter", exposure=exposure)
520 if background
is None:
521 background = BackgroundList()
523 sourceIdFactory = idGenerator.make_table_id_factory()
524 table = SourceTable.make(self.
schema, sourceIdFactory)
527 detRes = self.detection.run(table=table, exposure=exposure, doSmooth=
True)
528 sourceCat = detRes.sources
529 if detRes.background:
530 for bg
in detRes.background:
531 background.append(bg)
533 if self.config.doDeblend:
534 self.deblend.run(exposure=exposure, sources=sourceCat)
536 if not sourceCat.isContiguous():
537 sourceCat = sourceCat.copy(deep=
True)
539 self.measurement.run(measCat=sourceCat, exposure=exposure, exposureId=idGenerator.catalog_id)
541 measPsfRes = pipeBase.Struct(cellSet=
None)
542 if self.config.doMeasurePsf:
543 measPsfRes = self.measurePsf.run(exposure=exposure, sources=sourceCat,
544 expId=idGenerator.catalog_id)
545 self.
display(
"measure_iter", exposure=exposure, sourceCat=sourceCat)
547 return pipeBase.Struct(
550 background=background,
551 psfCellSet=measPsfRes.cellSet,
554 def display(self, itemName, exposure, sourceCat=None):
555 """Display exposure and sources on next frame (for debugging).
560 Name of item in ``debugInfo``.
561 exposure : `lsst.afw.image.ExposureF`
563 sourceCat : `lsst.afw.table.SourceCatalog`, optional
564 Catalog of sources detected on the exposure.
566 val = getDebugFrame(self._display, itemName)
570 displayAstrometry(exposure=exposure, sourceCat=sourceCat, frame=self.
_frame, pause=
False)