CompareWarpAssembleCoaddConfig¶
-
class
lsst.pipe.tasks.assembleCoadd.
CompareWarpAssembleCoaddConfig
¶ Bases:
lsst.pipe.tasks.assembleCoadd.AssembleCoaddConfig
Attributes Summary
assembleStaticSkyModel
Task to assemble an artifact-free, PSF-matched Coadd to serve as a naive/first-iteration model of the static sky. badMaskPlanes
Mask planes that, if set, the associated pixel should not be included in the coaddTempExp. brightObjectMaskName
Name of mask bit used for bright objects ( str
, default'BRIGHT_OBJECT'
)calcErrorFromInputVariance
Calculate coadd variance from input variance by stacking statistic.Passed to StatisticsControl.setCalcErrorFromInputVariance() ( bool
, defaultTrue
)clipIter
Number of iterations of outlier rejection; ignored if non-clipping statistic selected. coaddName
Coadd name: typically one of deep or goodSeeing. coaddPsf
Configuration for CoaddPsf ( CoaddPsfConfig
, default<class 'lsst.meas.algorithms.coaddPsf.coaddPsf.CoaddPsfConfig'>
)connections
Configurations describing the connections of the PipelineTask to datatypes ( Connections
, default<class 'lsst.pipe.base.config.Connections'>
)detect
Detect outlier sources on difference between each psfMatched warp and static sky model ( ConfigurableInstance
, default<class 'lsst.meas.algorithms.detection.SourceDetectionConfig'>
)detectTemplate
Detect sources on static sky model. doApplyExternalPhotoCalib
Whether to apply external photometric calibration via an lsst.afw.image.PhotoCalib
object.doApplyExternalSkyWcs
Whether to apply external astrometric calibration via an lsst.afw.geom.SkyWcs
object.doAttachTransmissionCurve
Attach a piecewise TransmissionCurve for the coadd? (requires all input Exposures to have TransmissionCurves). doFilterMorphological
Filter artifact candidates based on morphological criteria, i.g. doInputMap
Create a bitwise map of coadd inputs ( bool
, defaultFalse
)doInterp
Interpolate over NaN pixels? Also extrapolate, if necessary, but the results are ugly. doMaskBrightObjects
Set mask and flag bits for bright objects? ( bool
, defaultFalse
)doNImage
Create image of number of contributing exposures for each pixel ( bool
, defaultFalse
)doOnlineForMean
Perform online coaddition when statistic=”MEAN” to save memory? ( bool
, defaultFalse
)doPrefilterArtifacts
Ignore artifact candidates that are mostly covered by the bad pixel mask, because they will be excluded anyway. doPreserveContainedBySource
Rescue artifacts from clipping that completely lie within a footprint detectedon the PsfMatched Template Coadd. doPsfMatch
Match to modelPsf? Deprecated. doScaleWarpVariance
Rescale Warp variance plane using empirical noise? ( bool
, defaultTrue
)doSelectVisits
Coadd only visits selected by a SelectVisitsTask ( bool
, defaultFalse
)doSigmaClip
Perform sigma clipped outlier rejection with MEANCLIP statistic? (DEPRECATED) ( bool
, defaultFalse
)doUsePsfMatchedPolygons
Use ValidPolygons from shrunk Psf-Matched Calexps? Should be set to True by CompareWarp only. doWrite
Persist coadd? ( bool
, defaultTrue
)externalPhotoCalibName
Type of external PhotoCalib if doApplyExternalPhotoCalib
is True.externalSkyWcsName
Type of external SkyWcs if doApplyExternalSkyWcs
is True.growStreakFp
Grow streak footprints by this number multiplied by the PSF width ( float
, default5
)hasFakes
Should be set to True if fake sources have been inserted into the input data. history
includeCalibVar
Add photometric calibration variance to warp variance plane. inputMapper
Input map creation subtask. inputRecorder
Subtask that helps fill CoaddInputs catalogs added to the final Exposure ( ConfigurableInstance
, default<class 'lsst.pipe.tasks.coaddInputRecorder.CoaddInputRecorderConfig'>
)interpImage
Task to interpolate (and extrapolate) over NaN pixels ( ConfigurableInstance
, default<class 'lsst.pipe.tasks.interpImage.InterpImageConfig'>
)maskPropagationThresholds
Threshold (in fractional weight) of rejection at which we propagate a mask plane to the coadd; that is, we set the mask bit on the coadd if the fraction the rejected frames would have contributed exceeds this value. maskStreaks
Detect streaks on difference between each psfMatched warp and static sky model. matchingKernelSize
Size in pixels of matching kernel. maxFractionEpochsHigh
Fraction of local number of epochs (N) to use as effective maxNumEpochs for high N. maxFractionEpochsLow
Fraction of local number of epochs (N) to use as effective maxNumEpochs for low N. maxNumEpochs
Charactistic maximum local number of epochs/visits in which an artifact candidate can appear and still be masked. modelPsf
Model Psf factory ( ConfigurableInstance
, default<class 'lsst.meas.algorithms.gaussianPsfFactory.GaussianPsfFactory'>
)prefilterArtifactsMaskPlanes
Prefilter artifact candidates that are mostly covered by these bad mask planes. prefilterArtifactsRatio
Prefilter artifact candidates with less than this fraction overlapping good pixels ( float
, default0.05
)removeMaskPlanes
Mask planes to remove before coadding ( List
, default['NOT_DEBLENDED']
)saveLogOutput
Flag to enable/disable saving of log output for a task, enabled by default. saveMetadata
Flag to enable/disable metadata saving for a task, enabled by default. scaleWarpVariance
Rescale variance on warps ( ConfigurableInstance
, default<class 'lsst.meas.algorithms.scaleVariance.ScaleVarianceConfig'>
)scaleZeroPoint
Task to adjust the photometric zero point of the coadd temp exposures ( ConfigurableInstance
, default<class 'lsst.pipe.tasks.scaleZeroPoint.ScaleZeroPointConfig'>
)select
Image selection subtask. sigmaClip
Sigma for outlier rejection; ignored if non-clipping statistic selected. spatialThreshold
Unitless fraction of pixels defining how much of the outlier region has to meet the temporal criteria. statistic
Main stacking statistic for aggregating over the epochs. streakMaskName
Name of mask bit used for streaks ( str
, default'STREAK'
)subregionSize
Width, height of stack subregion size; make small enough that a full stack of images will fit into memory at once. useGlobalExternalPhotoCalib
When using doApplyExternalPhotoCalib, use ‘global’ calibrations that are not run per-tract. useGlobalExternalSkyWcs
When using doApplyExternalSkyWcs, use ‘global’ calibrations that are not run per-tract. warpType
Warp name: one of ‘direct’ or ‘psfMatched’ ( str
, default'direct'
)Methods Summary
compare
(other[, shortcut, rtol, atol, output])Compare this configuration to another Config
for equality.formatHistory
(name, **kwargs)Format a configuration field’s history to a human-readable format. freeze
()Make this config, and all subconfigs, read-only. items
()Get configurations as (field name, field value)
pairs.iteritems
()Iterate over (field name, field value) pairs. iterkeys
()Iterate over field names itervalues
()Iterate over field values. keys
()Get field names. load
(filename[, root])Modify this config in place by executing the Python code in a configuration file. loadFromStream
(stream[, root, filename])Modify this Config in place by executing the Python code in the provided stream. loadFromString
(code[, root, filename])Modify this Config in place by executing the Python code in the provided string. names
()Get all the field names in the config, recursively. save
(filename[, root])Save a Python script to the named file, which, when loaded, reproduces this config. saveToStream
(outfile[, root, skipImports])Save a configuration file to a stream, which, when loaded, reproduces this config. saveToString
([skipImports])Return the Python script form of this configuration as an executable string. setDefaults
()Subclass hook for computing defaults. toDict
()Make a dictionary of field names and their values. update
(**kw)Update values of fields specified by the keyword arguments. validate
()Validate the Config, raising an exception if invalid. values
()Get field values. Attributes Documentation
-
assembleStaticSkyModel
¶ Task to assemble an artifact-free, PSF-matched Coadd to serve as a naive/first-iteration model of the static sky. (
ConfigurableInstance
, default<class 'lsst.pipe.tasks.assembleCoadd.AssembleCoaddConfig'>
)
-
badMaskPlanes
¶ Mask planes that, if set, the associated pixel should not be included in the coaddTempExp. (
List
, default('NO_DATA',)
)
-
calcErrorFromInputVariance
¶ Calculate coadd variance from input variance by stacking statistic.Passed to StatisticsControl.setCalcErrorFromInputVariance() (
bool
, defaultTrue
)
-
clipIter
¶ Number of iterations of outlier rejection; ignored if non-clipping statistic selected. (
int
, default2
)
-
coaddPsf
¶ Configuration for CoaddPsf (
CoaddPsfConfig
, default<class 'lsst.meas.algorithms.coaddPsf.coaddPsf.CoaddPsfConfig'>
)
-
connections
¶ Configurations describing the connections of the PipelineTask to datatypes (
Connections
, default<class 'lsst.pipe.base.config.Connections'>
)
-
detect
¶ Detect outlier sources on difference between each psfMatched warp and static sky model (
ConfigurableInstance
, default<class 'lsst.meas.algorithms.detection.SourceDetectionConfig'>
)
-
detectTemplate
¶ Detect sources on static sky model. Only used if doPreserveContainedBySource is True (
ConfigurableInstance
, default<class 'lsst.meas.algorithms.detection.SourceDetectionConfig'>
)
-
doApplyExternalPhotoCalib
¶ Whether to apply external photometric calibration via an
lsst.afw.image.PhotoCalib
object. Uses theexternalPhotoCalibName
field to determine which calibration to load. (bool
, defaultFalse
)
-
doApplyExternalSkyWcs
¶ Whether to apply external astrometric calibration via an
lsst.afw.geom.SkyWcs
object. UsesexternalSkyWcsName
field to determine which calibration to load. (bool
, defaultFalse
)
-
doAttachTransmissionCurve
¶ Attach a piecewise TransmissionCurve for the coadd? (requires all input Exposures to have TransmissionCurves). (
bool
, defaultFalse
)
-
doFilterMorphological
¶ Filter artifact candidates based on morphological criteria, i.g. those that appear to be streaks. (
bool
, defaultFalse
)
-
doInterp
¶ Interpolate over NaN pixels? Also extrapolate, if necessary, but the results are ugly. (
bool
, defaultTrue
)
-
doOnlineForMean
¶ Perform online coaddition when statistic=”MEAN” to save memory? (
bool
, defaultFalse
)
-
doPrefilterArtifacts
¶ Ignore artifact candidates that are mostly covered by the bad pixel mask, because they will be excluded anyway. This prevents them from contributing to the outlier epoch count image and potentially being labeled as persistant.’Mostly’ is defined by the config ‘prefilterArtifactsRatio’. (
bool
, defaultTrue
)
-
doPreserveContainedBySource
¶ Rescue artifacts from clipping that completely lie within a footprint detectedon the PsfMatched Template Coadd. Replicates a behavior of SafeClip. (
bool
, defaultTrue
)
-
doPsfMatch
¶ Match to modelPsf? Deprecated. Sets makePsfMatched=True, makeDirect=False (
bool
, defaultFalse
)
-
doSigmaClip
¶ Perform sigma clipped outlier rejection with MEANCLIP statistic? (DEPRECATED) (
bool
, defaultFalse
)
-
doUsePsfMatchedPolygons
¶ Use ValidPolygons from shrunk Psf-Matched Calexps? Should be set to True by CompareWarp only. (
bool
, defaultFalse
)
-
externalPhotoCalibName
¶ Type of external PhotoCalib if
doApplyExternalPhotoCalib
is True. This field is only used for Gen2 middleware. (str
, default'jointcal'
)Allowed values:
'jointcal'
- Use jointcal_photoCalib
'fgcm'
- Use fgcm_photoCalib
'fgcm_tract'
- Use fgcm_tract_photoCalib
'None'
- Field is optional
-
externalSkyWcsName
¶ Type of external SkyWcs if
doApplyExternalSkyWcs
is True. This field is only used for Gen2 middleware. (str
, default'jointcal'
)Allowed values:
'jointcal'
- Use jointcal_wcs
'None'
- Field is optional
-
hasFakes
¶ Should be set to True if fake sources have been inserted into the input data. (
bool
, defaultFalse
)
-
history
¶
-
inputMapper
¶ Input map creation subtask. (
ConfigurableInstance
, default<class 'lsst.pipe.tasks.healSparseMapping.HealSparseInputMapConfig'>
)
-
inputRecorder
¶ Subtask that helps fill CoaddInputs catalogs added to the final Exposure (
ConfigurableInstance
, default<class 'lsst.pipe.tasks.coaddInputRecorder.CoaddInputRecorderConfig'>
)
-
interpImage
¶ Task to interpolate (and extrapolate) over NaN pixels (
ConfigurableInstance
, default<class 'lsst.pipe.tasks.interpImage.InterpImageConfig'>
)
-
maskPropagationThresholds
¶ Threshold (in fractional weight) of rejection at which we propagate a mask plane to the coadd; that is, we set the mask bit on the coadd if the fraction the rejected frames would have contributed exceeds this value. (
Dict
, default{'SAT': 0.1}
)
-
maskStreaks
¶ Detect streaks on difference between each psfMatched warp and static sky model. Only used if doFilterMorphological is True. Adds a mask plane to an exposure, with the mask plane name set bystreakMaskName (
ConfigurableInstance
, default<class 'lsst.pipe.tasks.maskStreaks.MaskStreaksConfig'>
)
-
maxFractionEpochsHigh
¶ Fraction of local number of epochs (N) to use as effective maxNumEpochs for high N. Effective maxNumEpochs = min(maxFractionEpochsLow * N, maxNumEpochs + maxFractionEpochsHigh * N) (
float
, default0.03
)Valid Range = [0.0,1.0)
-
maxFractionEpochsLow
¶ Fraction of local number of epochs (N) to use as effective maxNumEpochs for low N. Effective maxNumEpochs = min(maxFractionEpochsLow * N, maxNumEpochs + maxFractionEpochsHigh * N) (
float
, default0.4
)Valid Range = [0.0,1.0)
-
maxNumEpochs
¶ Charactistic maximum local number of epochs/visits in which an artifact candidate can appear and still be masked. The effective maxNumEpochs is a broken linear function of local number of epochs (N): min(maxFractionEpochsLow*N, maxNumEpochs + maxFractionEpochsHigh*N). For each footprint detected on the image difference between the psfMatched warp and static sky model, if a significant fraction of pixels (defined by spatialThreshold) are residuals in more than the computed effective maxNumEpochs, the artifact candidate is deemed persistant rather than transient and not masked. (
int
, default2
)
-
modelPsf
¶ Model Psf factory (
ConfigurableInstance
, default<class 'lsst.meas.algorithms.gaussianPsfFactory.GaussianPsfFactory'>
)
-
prefilterArtifactsMaskPlanes
¶ Prefilter artifact candidates that are mostly covered by these bad mask planes. (
List
, default('NO_DATA', 'BAD', 'SAT', 'SUSPECT')
)
-
prefilterArtifactsRatio
¶ Prefilter artifact candidates with less than this fraction overlapping good pixels (
float
, default0.05
)
-
removeMaskPlanes
¶ Mask planes to remove before coadding (
List
, default['NOT_DEBLENDED']
)
-
saveLogOutput
¶ Flag to enable/disable saving of log output for a task, enabled by default. (
bool
, defaultTrue
)
-
saveMetadata
¶ Flag to enable/disable metadata saving for a task, enabled by default. (
bool
, defaultTrue
)
-
scaleWarpVariance
¶ Rescale variance on warps (
ConfigurableInstance
, default<class 'lsst.meas.algorithms.scaleVariance.ScaleVarianceConfig'>
)
-
scaleZeroPoint
¶ Task to adjust the photometric zero point of the coadd temp exposures (
ConfigurableInstance
, default<class 'lsst.pipe.tasks.scaleZeroPoint.ScaleZeroPointConfig'>
)
-
select
¶ Image selection subtask. (
ConfigurableInstance
, default<class 'lsst.pex.config.config.Config'>
)
-
sigmaClip
¶ Sigma for outlier rejection; ignored if non-clipping statistic selected. (
float
, default3.0
)
-
spatialThreshold
¶ Unitless fraction of pixels defining how much of the outlier region has to meet the temporal criteria. If 0, clip all. If 1, clip none. (
float
, default0.5
)Valid Range = [0.0,1.0]
-
subregionSize
¶ Width, height of stack subregion size; make small enough that a full stack of images will fit into memory at once. (
List
, default(2000, 2000)
)
-
useGlobalExternalPhotoCalib
¶ When using doApplyExternalPhotoCalib, use ‘global’ calibrations that are not run per-tract. When False, use per-tract photometric calibration files. (
bool
, defaultTrue
)
-
useGlobalExternalSkyWcs
¶ When using doApplyExternalSkyWcs, use ‘global’ calibrations that are not run per-tract. When False, use per-tract wcs files. (
bool
, defaultFalse
)
Methods Documentation
-
compare
(other, shortcut=True, rtol=1e-08, atol=1e-08, output=None)¶ Compare this configuration to another
Config
for equality.Parameters: - other :
lsst.pex.config.Config
Other
Config
object to compare against this config.- shortcut :
bool
, optional If
True
, return as soon as an inequality is found. Default isTrue
.- rtol :
float
, optional Relative tolerance for floating point comparisons.
- atol :
float
, optional Absolute tolerance for floating point comparisons.
- output : callable, optional
A callable that takes a string, used (possibly repeatedly) to report inequalities.
Returns: - isEqual :
bool
True
when the twolsst.pex.config.Config
instances are equal.False
if there is an inequality.
See also
Notes
Unselected targets of
RegistryField
fields and unselected choices ofConfigChoiceField
fields are not considered by this method.Floating point comparisons are performed by
numpy.allclose
.- other :
-
formatHistory
(name, **kwargs)¶ Format a configuration field’s history to a human-readable format.
Parameters: - name :
str
Name of a
Field
in this config.- kwargs
Keyword arguments passed to
lsst.pex.config.history.format
.
Returns: - history :
str
A string containing the formatted history.
See also
- name :
-
freeze
()¶ Make this config, and all subconfigs, read-only.
-
items
()¶ Get configurations as
(field name, field value)
pairs.Returns: - items :
list
List of tuples for each configuration. Tuple items are:
- Field name.
- Field value.
See also
- items :
-
iteritems
()¶ Iterate over (field name, field value) pairs.
Yields: - item :
tuple
Tuple items are:
- Field name.
- Field value.
See also
- item :
-
itervalues
()¶ Iterate over field values.
Yields: - value : obj
A field value.
See also
-
keys
()¶ Get field names.
Returns: - names :
list
List of
lsst.pex.config.Field
names.
See also
- names :
-
load
(filename, root='config')¶ Modify this config in place by executing the Python code in a configuration file.
Parameters: - filename :
str
Name of the configuration file. A configuration file is Python module.
- root :
str
, optional Name of the variable in file that refers to the config being overridden.
For example, the value of root is
"config"
and the file contains:config.myField = 5
Then this config’s field
myField
is set to5
.Deprecated: For backwards compatibility, older config files that use
root="root"
instead ofroot="config"
will be loaded with a warning printed tosys.stderr
. This feature will be removed at some point.
- filename :
-
loadFromStream
(stream, root='config', filename=None)¶ Modify this Config in place by executing the Python code in the provided stream.
Parameters: - stream : file-like object,
str
,bytes
, or compiled string Stream containing configuration override code. If this is a code object, it should be compiled with
mode="exec"
.- root :
str
, optional Name of the variable in file that refers to the config being overridden.
For example, the value of root is
"config"
and the file contains:config.myField = 5
Then this config’s field
myField
is set to5
.Deprecated: For backwards compatibility, older config files that use
root="root"
instead ofroot="config"
will be loaded with a warning printed tosys.stderr
. This feature will be removed at some point.- filename :
str
, optional Name of the configuration file, or
None
if unknown or contained in the stream. Used for error reporting.
See also
Notes
For backwards compatibility reasons, this method accepts strings, bytes and code objects as well as file-like objects. New code should use
loadFromString
instead for most of these types.- stream : file-like object,
-
loadFromString
(code, root='config', filename=None)¶ Modify this Config in place by executing the Python code in the provided string.
Parameters: - code :
str
,bytes
, or compiled string Stream containing configuration override code.
- root :
str
, optional Name of the variable in file that refers to the config being overridden.
For example, the value of root is
"config"
and the file contains:config.myField = 5
Then this config’s field
myField
is set to5
.Deprecated: For backwards compatibility, older config files that use
root="root"
instead ofroot="config"
will be loaded with a warning printed tosys.stderr
. This feature will be removed at some point.- filename :
str
, optional Name of the configuration file, or
None
if unknown or contained in the stream. Used for error reporting.
- code :
-
names
()¶ Get all the field names in the config, recursively.
Returns:
-
save
(filename, root='config')¶ Save a Python script to the named file, which, when loaded, reproduces this config.
Parameters: - filename :
str
Desination filename of this configuration.
- root :
str
, optional Name to use for the root config variable. The same value must be used when loading (see
lsst.pex.config.Config.load
).
- filename :
-
saveToStream
(outfile, root='config', skipImports=False)¶ Save a configuration file to a stream, which, when loaded, reproduces this config.
Parameters: - outfile : file-like object
Destination file object write the config into. Accepts strings not bytes.
- root
Name to use for the root config variable. The same value must be used when loading (see
lsst.pex.config.Config.load
).- skipImports :
bool
, optional If
True
then do not includeimport
statements in output, this is to support human-oriented output frompipetask
where additional clutter is not useful.
-
saveToString
(skipImports=False)¶ Return the Python script form of this configuration as an executable string.
Parameters: Returns: - code :
str
A code string readable by
loadFromString
.
- code :
-
setDefaults
()¶ Subclass hook for computing defaults.
Notes
Derived
Config
classes that must compute defaults rather than using theField
instances’s defaults should do so here. To correctly use inherited defaults, implementations ofsetDefaults
must call their base class’ssetDefaults
.
-
toDict
()¶ Make a dictionary of field names and their values.
Returns: See also
Notes
This method uses the
toDict
method of individual fields. Subclasses ofField
may need to implement atoDict
method for this method to work.
-
update
(**kw)¶ Update values of fields specified by the keyword arguments.
Parameters: - kw
Keywords are configuration field names. Values are configuration field values.
Notes
The
__at
and__label
keyword arguments are special internal keywords. They are used to strip out any internal steps from the history tracebacks of the config. Do not modify these keywords to subvert aConfig
instance’s history.Examples
This is a config with three fields:
>>> from lsst.pex.config import Config, Field >>> class DemoConfig(Config): ... fieldA = Field(doc='Field A', dtype=int, default=42) ... fieldB = Field(doc='Field B', dtype=bool, default=True) ... fieldC = Field(doc='Field C', dtype=str, default='Hello world') ... >>> config = DemoConfig()
These are the default values of each field:
>>> for name, value in config.iteritems(): ... print(f"{name}: {value}") ... fieldA: 42 fieldB: True fieldC: 'Hello world'
Using this method to update
fieldA
andfieldC
:>>> config.update(fieldA=13, fieldC='Updated!')
Now the values of each field are:
>>> for name, value in config.iteritems(): ... print(f"{name}: {value}") ... fieldA: 13 fieldB: True fieldC: 'Updated!'
-
validate
()¶ Validate the Config, raising an exception if invalid.
Raises: - lsst.pex.config.FieldValidationError
Raised if verification fails.
Notes
The base class implementation performs type checks on all fields by calling their
validate
methods.Complex single-field validation can be defined by deriving new Field types. For convenience, some derived
lsst.pex.config.Field
-types (ConfigField
andConfigChoiceField
) are defined inlsst.pex.config
that handle recursing into subconfigs.Inter-field relationships should only be checked in derived
Config
classes after calling this method, and base validation is complete.
-