CalibrateConfig¶

class lsst.pipe.tasks.calibrate.CalibrateConfig(*args, **kw)¶

Bases: PipelineTaskConfig

Config for CalibrateTask.

Attributes Summary

`applyApCorr`	Subtask to apply aperture corrections (`ConfigurableInstance`, default `<class 'lsst.meas.base.applyApCorr.ApplyApCorrConfig'>`)
`astromRefObjLoader`	reference object loader for astrometric calibration (`LoadReferenceObjectsConfig`, default `<class 'lsst.meas.algorithms.loadReferenceObjects.LoadReferenceObjectsConfig'>`)
`astrometry`	Perform astrometric calibration to refine the WCS (`ConfigurableInstance`, default `<class 'lsst.meas.astrom.astrometry.AstrometryConfig'>`)
`catalogCalculation`	Subtask to run catalogCalculation plugins on catalog (`ConfigurableInstance`, default `<class 'lsst.meas.base.catalogCalculation.CatalogCalculationConfig'>`)
`checkUnitsParseStrict`	Strictness of Astropy unit compatibility check, can be 'raise', 'warn' or 'silent' (`str`, default `'raise'`)
`computeSummaryStats`	Subtask to run computeSummaryStats on exposure (`ConfigurableInstance`, default `<class 'lsst.pipe.tasks.computeExposureSummaryStats.ComputeExposureSummaryStatsConfig'>`)
`connections`	Field which refers to a dynamically added configuration class which is based on a PipelineTaskConnections class.
`createSummaryMetrics`	Subtask to create metrics from the summary stats.
`deblend`	Split blended sources into their components (`ConfigurableInstance`, default `<class 'lsst.meas.deblender.sourceDeblendTask.SourceDeblendConfig'>`)
`detection`	Detect sources (`ConfigurableInstance`, default `<class 'lsst.meas.algorithms.detection.SourceDetectionConfig'>`)
`doApCorr`	Run subtask to apply aperture correction (`bool`, default `True`)
`doAstrometry`	Perform astrometric calibration? (`bool`, default `True`)
`doComputeSummaryStats`	Run subtask to measure exposure summary statistics? (`bool`, default `True`)
`doCreateSummaryMetrics`	Run the subtask to create summary metrics, and then write those metrics.
`doDeblend`	Run deblender input exposure (`bool`, default `True`)
`doNormalizedCalibration`	Use normalized calibration flux (e.g.
`doPhotoCal`	Perform phometric calibration? (`bool`, default `True`)
`doSkySources`	Generate sky sources? (`bool`, default `True`)
`doWrite`	Save calibration results? (`bool`, default `True`)
`doWriteExposure`	Write the calexp? If fakes have been added then we do not want to write out the calexp as a normal calexp but as a fakes_calexp.
`doWriteHeavyFootprintsInSources`	Include HeavyFootprint data in source table? If false then heavy footprints are saved as normal footprints, which saves some space (`bool`, default `True`)
`doWriteMatches`	Write reference matches (ignored if doWrite or doAstrometry false)? (`bool`, default `True`)
`doWriteMatchesDenormalized`	Write reference matches in denormalized format? This format uses more disk space, but is more convenient to read for debugging.
`history`
`icSourceFieldsToCopy`	Fields to copy from the icSource catalog to the output catalog for matching sources Any missing fields will trigger a RuntimeError exception.
`idGenerator`	Configuration for how to generate catalog IDs from data IDs.
`matchRadiusPix`	Match radius for matching icSourceCat objects to sourceCat objects (pixels) (`float`, default `3`)
`measurement`	Measure sources (`ConfigurableInstance`, default `<class 'lsst.meas.base.sfm.SingleFrameMeasurementConfig'>`)
`normalizedCalibrationFlux`	Task to normalize the calibration flux (e.g.
`photoCal`	Perform photometric calibration (`ConfigurableInstance`, default `<class 'lsst.pipe.tasks.photoCal.PhotoCalConfig'>`)
`photoRefObjLoader`	reference object loader for photometric calibration (`LoadReferenceObjectsConfig`, default `<class 'lsst.meas.algorithms.loadReferenceObjects.LoadReferenceObjectsConfig'>`)
`postCalibrationMeasurement`	Second round of measurement for plugins that need to be run after photocal (`ConfigurableInstance`, default `<class 'lsst.meas.base.sfm.SingleFrameMeasurementConfig'>`)
`requireAstrometry`	Raise an exception if astrometry fails? Ignored if doAstrometry false.
`requirePhotoCal`	Raise an exception if photoCal fails? Ignored if doPhotoCal false.
`saveLogOutput`	Flag to enable/disable saving of log output for a task, enabled by default.
`setPrimaryFlags`	Set flags for primary source classification in single frame processing.
`skySources`	Generate sky sources (`ConfigurableInstance`, default `<class 'lsst.meas.algorithms.skyObjects.SkyObjectsConfig'>`)

Methods Summary

`applyConfigOverrides`(instrument, ...)	Apply config overrides to this config instance.
`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.
`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

applyApCorr¶: Subtask to apply aperture corrections (ConfigurableInstance, default <class 'lsst.meas.base.applyApCorr.ApplyApCorrConfig'>)

astromRefObjLoader¶: reference object loader for astrometric calibration (LoadReferenceObjectsConfig, default <class 'lsst.meas.algorithms.loadReferenceObjects.LoadReferenceObjectsConfig'>)

astrometry¶: Perform astrometric calibration to refine the WCS (ConfigurableInstance, default <class 'lsst.meas.astrom.astrometry.AstrometryConfig'>)

catalogCalculation¶: Subtask to run catalogCalculation plugins on catalog (ConfigurableInstance, default <class 'lsst.meas.base.catalogCalculation.CatalogCalculationConfig'>)

checkUnitsParseStrict¶: Strictness of Astropy unit compatibility check, can be ‘raise’, ‘warn’ or ‘silent’ (str, default 'raise')

computeSummaryStats¶: Subtask to run computeSummaryStats on exposure (ConfigurableInstance, default <class 'lsst.pipe.tasks.computeExposureSummaryStats.ComputeExposureSummaryStatsConfig'>)

connections: pexConfig.ConfigField¶: Field which refers to a dynamically added configuration class which is based on a PipelineTaskConnections class.

createSummaryMetrics¶: Subtask to create metrics from the summary stats. This must be retargeted, likely to ananalysis_tools task such as CalexpSummaryMetrics. (ConfigurableInstance, default <class 'lsst.pipe.base.config.PipelineTaskConfig'>)

deblend¶: Split blended sources into their components (ConfigurableInstance, default <class 'lsst.meas.deblender.sourceDeblendTask.SourceDeblendConfig'>)

detection¶: Detect sources (ConfigurableInstance, default <class 'lsst.meas.algorithms.detection.SourceDetectionConfig'>)

doApCorr¶: Run subtask to apply aperture correction (bool, default True)

doAstrometry¶: Perform astrometric calibration? (bool, default True)

doComputeSummaryStats¶: Run subtask to measure exposure summary statistics? (bool, default True)

doCreateSummaryMetrics¶: Run the subtask to create summary metrics, and then write those metrics. (bool, default False)

doDeblend¶: Run deblender input exposure (bool, default True)

doNormalizedCalibration¶: Use normalized calibration flux (e.g. compensated tophats)? (bool, default True)

doPhotoCal¶: Perform phometric calibration? (bool, default True)

doSkySources¶: Generate sky sources? (bool, default True)

doWrite¶: Save calibration results? (bool, default True)

doWriteExposure¶: Write the calexp? If fakes have been added then we do not want to write out the calexp as a normal calexp but as a fakes_calexp. (bool, default True)

doWriteHeavyFootprintsInSources¶: Include HeavyFootprint data in source table? If false then heavy footprints are saved as normal footprints, which saves some space (bool, default True)

doWriteMatches¶: Write reference matches (ignored if doWrite or doAstrometry false)? (bool, default True)

doWriteMatchesDenormalized¶: Write reference matches in denormalized format? This format uses more disk space, but is more convenient to read for debugging. Ignored if doWriteMatches=False or doWrite=False. (bool, default True)

history¶: Read-only history.

icSourceFieldsToCopy¶: Fields to copy from the icSource catalog to the output catalog for matching sources Any missing fields will trigger a RuntimeError exception. Ignored if icSourceCat is not provided. (List, default ('calib_psf_candidate', 'calib_psf_used', 'calib_psf_reserved'))

idGenerator¶: Configuration for how to generate catalog IDs from data IDs. (DetectorVisitIdGeneratorConfig, default <class 'lsst.meas.base._id_generator.DetectorVisitIdGeneratorConfig'>)

matchRadiusPix¶: Match radius for matching icSourceCat objects to sourceCat objects (pixels) (float, default 3)

measurement¶: Measure sources (ConfigurableInstance, default <class 'lsst.meas.base.sfm.SingleFrameMeasurementConfig'>)

normalizedCalibrationFlux¶: Task to normalize the calibration flux (e.g. compensated tophats). (ConfigurableInstance, default <class 'lsst.meas.algorithms.normalizedCalibrationFlux.NormalizedCalibrationFluxConfig'>)

photoCal¶: Perform photometric calibration (ConfigurableInstance, default <class 'lsst.pipe.tasks.photoCal.PhotoCalConfig'>)

photoRefObjLoader¶: reference object loader for photometric calibration (LoadReferenceObjectsConfig, default <class 'lsst.meas.algorithms.loadReferenceObjects.LoadReferenceObjectsConfig'>)

postCalibrationMeasurement¶: Second round of measurement for plugins that need to be run after photocal (ConfigurableInstance, default <class 'lsst.meas.base.sfm.SingleFrameMeasurementConfig'>)

requireAstrometry¶: Raise an exception if astrometry fails? Ignored if doAstrometry false. (bool, default True)

requirePhotoCal¶: Raise an exception if photoCal fails? Ignored if doPhotoCal false. (bool, default True)

saveLogOutput¶: Flag to enable/disable saving of log output for a task, enabled by default. (bool, default True)

setPrimaryFlags¶: Set flags for primary source classification in single frame processing. True if sources are not sky sources and not a parent. (ConfigurableInstance, default <class 'lsst.meas.algorithms.setPrimaryFlags.SetPrimaryFlagsConfig'>)

skySources¶: Generate sky sources (ConfigurableInstance, default <class 'lsst.meas.algorithms.skyObjects.SkyObjectsConfig'>)

Methods Documentation

applyConfigOverrides(instrument: Instrument | None, taskDefaultName: str, pipelineConfigs: Iterable[ConfigIR] | None, parameters: ParametersIR, label: str) → None¶

Apply config overrides to this config instance.

Parameters:

instrumentInstrument or None: An instance of the Instrument specified in a pipeline. If None then the pipeline did not specify and instrument.
taskDefaultNamestr: The default name associated with the Task class. This may be used with instrumental overrides.
pipelineConfigsIterable of ConfigIR: An iterable of ConfigIR objects that contain overrides to apply to this config instance.
parametersParametersIR: Parameters defined in a Pipeline which are used in formatting of config values across multiple Task in a pipeline.
labelstr: The label associated with this class’s Task in a pipeline.

compare(other, shortcut=True, rtol=1e-08, atol=1e-08, output=None)¶

Compare this configuration to another Config for equality.

Parameters:

otherlsst.pex.config.Config: Other Config object to compare against this config.
shortcutbool, optional: If True, return as soon as an inequality is found. Default is True.
rtolfloat, optional: Relative tolerance for floating point comparisons.
atolfloat, optional: Absolute tolerance for floating point comparisons.
outputcallable, optional: A callable that takes a string, used (possibly repeatedly) to report inequalities.

Returns:

isEqualbool: True when the two lsst.pex.config.Config instances are equal. False if there is an inequality.

See also

lsst.pex.config.compareConfigs

Notes

Unselected targets of RegistryField fields and unselected choices of ConfigChoiceField fields are not considered by this method.

Floating point comparisons are performed by numpy.allclose.

formatHistory(name, **kwargs)¶

Format a configuration field’s history to a human-readable format.

Parameters:

namestr: Name of a Field in this config.
**kwargs: Keyword arguments passed to lsst.pex.config.history.format.

Returns:

historystr: A string containing the formatted history.

See also

lsst.pex.config.history.format

freeze()¶: Make this config, and all subconfigs, read-only.

items()¶

Get configurations as (field name, field value) pairs.

Returns:

itemsItemsView

Iterator of tuples for each configuration. Tuple items are:

Field name.
Field value.

keys()¶

Get field names.

Returns:

namesKeysView: List of lsst.pex.config.Field names.

load(filename, root='config')¶

Modify this config in place by executing the Python code in a configuration file.

Parameters:

filenamestr

Name of the configuration file. A configuration file is Python module.

rootstr, 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 to 5.

See also

lsst.pex.config.Config.loadFromStream
lsst.pex.config.Config.loadFromString
lsst.pex.config.Config.save
lsst.pex.config.Config.saveToStream
lsst.pex.config.Config.saveToString

loadFromStream(stream, root='config', filename=None, extraLocals=None)¶

Modify this Config in place by executing the Python code in the provided stream.

Parameters:

streamfile-like object, str, bytes, or CodeType

Stream containing configuration override code. If this is a code object, it should be compiled with mode="exec".

rootstr, 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 to 5.

filenamestr, optional

Name of the configuration file, or None if unknown or contained in the stream. Used for error reporting.

extraLocalsdict of str to object, optional

Any extra variables to include in local scope when loading.

See also

lsst.pex.config.Config.load
lsst.pex.config.Config.loadFromString
lsst.pex.config.Config.save
lsst.pex.config.Config.saveToStream
lsst.pex.config.Config.saveToString

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.

loadFromString(code, root='config', filename=None, extraLocals=None)¶

Modify this Config in place by executing the Python code in the provided string.

Parameters:

codestr, bytes, or CodeType

Stream containing configuration override code.

rootstr, 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 to 5.

filenamestr, optional

Name of the configuration file, or None if unknown or contained in the stream. Used for error reporting.

extraLocalsdict of str to object, optional

Any extra variables to include in local scope when loading.

Raises:

ValueError: Raised if a key in extraLocals is the same value as the value of the root argument.

See also

lsst.pex.config.Config.load
lsst.pex.config.Config.loadFromStream
lsst.pex.config.Config.save
lsst.pex.config.Config.saveToStream
lsst.pex.config.Config.saveToString

names()¶

Get all the field names in the config, recursively.

Returns:

nameslist of str: Field names.

save(filename, root='config')¶

Save a Python script to the named file, which, when loaded, reproduces this config.

Parameters:

filenamestr: Desination filename of this configuration.
rootstr, optional: Name to use for the root config variable. The same value must be used when loading (see lsst.pex.config.Config.load).

See also

lsst.pex.config.Config.saveToStream
lsst.pex.config.Config.saveToString
lsst.pex.config.Config.load
lsst.pex.config.Config.loadFromStream
lsst.pex.config.Config.loadFromString

saveToStream(outfile, root='config', skipImports=False)¶

Save a configuration file to a stream, which, when loaded, reproduces this config.

Parameters:

outfilefile-like object: Destination file object write the config into. Accepts strings not bytes.
rootstr, optional: Name to use for the root config variable. The same value must be used when loading (see lsst.pex.config.Config.load).
skipImportsbool, optional: If True then do not include import statements in output, this is to support human-oriented output from pipetask where additional clutter is not useful.

See also

lsst.pex.config.Config.save
lsst.pex.config.Config.saveToString
lsst.pex.config.Config.load
lsst.pex.config.Config.loadFromStream
lsst.pex.config.Config.loadFromString

saveToString(skipImports=False)¶

Return the Python script form of this configuration as an executable string.

Parameters:

skipImportsbool, optional: If True then do not include import statements in output, this is to support human-oriented output from pipetask where additional clutter is not useful.

Returns:

codestr: A code string readable by loadFromString.

See also

lsst.pex.config.Config.save
lsst.pex.config.Config.saveToStream
lsst.pex.config.Config.load
lsst.pex.config.Config.loadFromStream
lsst.pex.config.Config.loadFromString

setDefaults()¶

Subclass hook for computing defaults.

Notes

Derived Config classes that must compute defaults rather than using the Field instances’s defaults should do so here. To correctly use inherited defaults, implementations of setDefaults must call their base class’s setDefaults.

toDict()¶

Make a dictionary of field names and their values.

Returns:

dict_dict: Dictionary with keys that are Field names. Values are Field values.

See also

lsst.pex.config.Field.toDict

Notes

This method uses the toDict method of individual fields. Subclasses of Field may need to implement a toDict 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 a Config 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 and fieldC:

>>> 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 and ConfigChoiceField) are defined in lsst.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.

values()¶

Get field values.

Returns:

valuesValuesView: Iterator of field values.

Navigation

CalibrateConfig¶