313 schema = SourceTable.makeMinimalSchema()
315 self.makeSubtask(
"background")
316 self.makeSubtask(
"installSimplePsf")
317 self.makeSubtask(
"repair")
318 if self.config.doMaskStreaks:
319 self.makeSubtask(
"maskStreaks")
320 self.makeSubtask(
"measurePsf", schema=self.
schema)
322 self.makeSubtask(
'detection', schema=self.
schema)
323 if self.config.doDeblend:
324 self.makeSubtask(
"deblend", schema=self.
schema)
325 self.makeSubtask(
'measurement', schema=self.
schema, algMetadata=self.
algMetadata)
326 if self.config.doApCorr:
327 self.makeSubtask(
'measureApCorr', schema=self.
schema)
328 self.makeSubtask(
'applyApCorr', schema=self.
schema)
329 self.makeSubtask(
'catalogCalculation', schema=self.
schema)
332 self.
schema.checkUnits(parse_strict=self.config.checkUnitsParseStrict)
336 inputs = butlerQC.get(inputRefs)
337 if 'idGenerator' not in inputs.keys():
338 inputs[
'idGenerator'] = self.config.idGenerator.apply(butlerQC.quantum.dataId)
339 outputs = self.
run(**inputs)
340 butlerQC.put(outputs, outputRefs)
343 def run(self, exposure, background=None, idGenerator=None):
344 """Characterize a science image.
346 Peforms the following operations:
347 - Iterate the following config.psfIterations times, or once if config.doMeasurePsf false:
348 - detect and measure sources and estimate PSF (see detectMeasureAndEstimatePsf for details)
349 - interpolate over cosmic rays
350 - perform final measurement
354 exposure : `lsst.afw.image.ExposureF`
355 Exposure to characterize.
356 background : `lsst.afw.math.BackgroundList`, optional
357 Initial model of background already subtracted from exposure.
358 idGenerator : `lsst.meas.base.IdGenerator`, optional
359 Object that generates source IDs and provides RNG seeds.
363 result : `lsst.pipe.base.Struct`
364 Results as a struct with attributes:
367 Characterized exposure (`lsst.afw.image.ExposureF`).
369 Detected sources (`lsst.afw.table.SourceCatalog`).
371 Model of subtracted background (`lsst.afw.math.BackgroundList`).
373 Spatial cells of PSF candidates (`lsst.afw.math.SpatialCellSet`).
375 Another reference to ``exposure`` for compatibility.
377 Another reference to ``background`` for compatibility.
382 Raised if PSF sigma is NaN.
386 if not self.config.doMeasurePsf
and not exposure.hasPsf():
387 self.log.info(
"CharacterizeImageTask initialized with 'simple' PSF.")
388 self.installSimplePsf.run(exposure=exposure)
390 if idGenerator
is None:
391 idGenerator = IdGenerator()
394 background = self.background.run(exposure).background
396 psfIterations = self.config.psfIterations
if self.config.doMeasurePsf
else 1
397 for i
in range(psfIterations):
400 idGenerator=idGenerator,
401 background=background,
404 psf = dmeRes.exposure.getPsf()
406 psfAvgPos = psf.getAveragePosition()
407 psfSigma = psf.computeShape(psfAvgPos).getDeterminantRadius()
408 psfDimensions = psf.computeImage(psfAvgPos).getDimensions()
409 medBackground = np.median(dmeRes.background.getImage().getArray())
410 self.log.info(
"iter %s; PSF sigma=%0.4f, dimensions=%s; median background=%0.2f",
411 i + 1, psfSigma, psfDimensions, medBackground)
412 if np.isnan(psfSigma):
413 raise RuntimeError(
"PSF sigma is NaN, cannot continue PSF determination.")
415 self.
display(
"psf", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
418 self.repair.run(exposure=dmeRes.exposure)
419 self.
display(
"repair", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
422 if self.config.doMaskStreaks:
423 _ = self.maskStreaks.run(dmeRes.exposure)
427 self.measurement.run(measCat=dmeRes.sourceCat, exposure=dmeRes.exposure,
428 exposureId=idGenerator.catalog_id)
429 if self.config.doApCorr:
431 apCorrMap = self.measureApCorr.run(
432 exposure=dmeRes.exposure,
433 catalog=dmeRes.sourceCat,
435 except MeasureApCorrError:
439 dmeRes.exposure.info.setApCorrMap(
None)
441 dmeRes.exposure.info.setApCorrMap(apCorrMap)
442 self.applyApCorr.run(catalog=dmeRes.sourceCat, apCorrMap=exposure.getInfo().getApCorrMap())
444 self.catalogCalculation.run(dmeRes.sourceCat)
446 self.
display(
"measure", exposure=dmeRes.exposure, sourceCat=dmeRes.sourceCat)
448 return pipeBase.Struct(
449 exposure=dmeRes.exposure,
450 sourceCat=dmeRes.sourceCat,
451 background=dmeRes.background,
452 psfCellSet=dmeRes.psfCellSet,
454 characterized=dmeRes.exposure,
455 backgroundModel=dmeRes.background
460 """Perform one iteration of detect, measure, and estimate PSF.
462 Performs the following operations:
464 - if config.doMeasurePsf or not exposure.hasPsf():
466 - install a simple PSF model (replacing the existing one, if need be)
468 - interpolate over cosmic rays with keepCRs=True
469 - estimate background and subtract it from the exposure
470 - detect, deblend and measure sources, and subtract a refined background model;
471 - if config.doMeasurePsf:
476 exposure : `lsst.afw.image.ExposureF`
477 Exposure to characterize.
478 idGenerator : `lsst.meas.base.IdGenerator`
479 Object that generates source IDs and provides RNG seeds.
480 background : `lsst.afw.math.BackgroundList`, optional
481 Initial model of background already subtracted from exposure.
485 result : `lsst.pipe.base.Struct`
486 Results as a struct with attributes:
489 Characterized exposure (`lsst.afw.image.ExposureF`).
491 Detected sources (`lsst.afw.table.SourceCatalog`).
493 Model of subtracted background (`lsst.afw.math.BackgroundList`).
495 Spatial cells of PSF candidates (`lsst.afw.math.SpatialCellSet`).
500 Raised if there are too many CR pixels.
503 if not exposure.hasPsf()
or (self.config.doMeasurePsf
and self.config.useSimplePsf):
504 self.log.info(
"PSF estimation initialized with 'simple' PSF")
505 self.installSimplePsf.run(exposure=exposure)
508 if self.config.requireCrForPsf:
509 self.repair.run(exposure=exposure, keepCRs=
True)
512 self.repair.run(exposure=exposure, keepCRs=
True)
514 self.log.warning(
"Skipping cosmic ray detection: Too many CR pixels (max %0.f)",
515 self.config.repair.cosmicray.nCrPixelMax)
517 self.
display(
"repair_iter", exposure=exposure)
519 if background
is None:
520 background = BackgroundList()
522 sourceIdFactory = idGenerator.make_table_id_factory()
523 table = SourceTable.make(self.
schema, sourceIdFactory)
526 detRes = self.detection.run(table=table, exposure=exposure, doSmooth=
True)
527 sourceCat = detRes.sources
528 if detRes.background:
529 for bg
in detRes.background:
530 background.append(bg)
532 if self.config.doDeblend:
533 self.deblend.run(exposure=exposure, sources=sourceCat)
535 if not sourceCat.isContiguous():
536 sourceCat = sourceCat.copy(deep=
True)
538 self.measurement.run(measCat=sourceCat, exposure=exposure, exposureId=idGenerator.catalog_id)
540 measPsfRes = pipeBase.Struct(cellSet=
None)
541 if self.config.doMeasurePsf:
542 measPsfRes = self.measurePsf.run(exposure=exposure, sources=sourceCat,
543 expId=idGenerator.catalog_id)
544 self.
display(
"measure_iter", exposure=exposure, sourceCat=sourceCat)
546 return pipeBase.Struct(
549 background=background,
550 psfCellSet=measPsfRes.cellSet,
553 def display(self, itemName, exposure, sourceCat=None):
554 """Display exposure and sources on next frame (for debugging).
559 Name of item in ``debugInfo``.
560 exposure : `lsst.afw.image.ExposureF`
562 sourceCat : `lsst.afw.table.SourceCatalog`, optional
563 Catalog of sources detected on the exposure.
565 val = getDebugFrame(self._display, itemName)
569 displayAstrometry(exposure=exposure, sourceCat=sourceCat, frame=self.
_frame, pause=
False)