LinearitySolveConfig¶

class lsst.cp.pipe.LinearitySolveConfig(*args, **kw)¶

Bases: PipelineTaskConfig

Configuration for solving the linearity from PTC dataset.

Attributes Summary

`applyPhotodiodeCorrection`	Calculate and apply a correction to the photodiode readings? (`bool`, default `False`)
`connections`	Field which refers to a dynamically added configuration class which is based on a PipelineTaskConnections class.
`doSplineFitOffset`	Fit a scattered light offset in the spline fit.
`doSplineFitTemperature`	Fit temperature coefficient in spline fit? (`bool`, default `False`)
`doSplineFitWeights`	Fit linearity weight parameters in the spline fit.
`history`
`ignorePtcMask`	Ignore the expIdMask set by the PTC solver? (`bool`, default `False`)
`linearityType`	Type of linearizer to construct.
`maxLinearAdu`	Maximum DN value to use to estimate linear term.
`maxLookupTableAdu`	Maximum DN value for a LookupTable linearizer.
`minLinearAdu`	Minimum DN value to use to estimate linear term.
`minPhotodiodeCurrent`	Minimum value to trust photodiode signals.
`nSigmaClipLinear`	Maximum deviation from linear solution for Poissonian noise.
`polynomialOrder`	Degree of polynomial to fit.
`saveLogOutput`	Flag to enable/disable saving of log output for a task, enabled by default.
`splineFitMaxIter`	Maximum number of iterations for spline fit.
`splineFitMaxRejectionPerIteration`	Maximum number of rejections per iteration for spline fit.
`splineFitMinIter`	Minimum number of iterations for spline fit.
`splineFitTemperatureColumn`	Name of the temperature column to use when fitting temperature coefficients in spline fit; this must not be None if doSplineFitTemperature is True.
`splineFitWeightParsStart`	Starting parameters for weight fit, if doSplineFitWeights=True.
`splineGroupingColumn`	Column to use for grouping together points for Spline mode, to allow for different proportionality constants.
`splineGroupingMinPoints`	Minimum number of linearity points to allow grouping together points for Spline mode with splineGroupingColumn.
`splineKnots`	Number of spline knots to use in fit.
`trimmedState`	Will this linearizer be used on trimmed data? (`bool`, default `True`)
`useLinearizerPtc`	Use a linearizer ptc in a single pipeline? (`bool`, default `False`)
`usePhotodiode`	Use the photodiode info instead of the raw expTimes? (`bool`, default `False`)

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

applyPhotodiodeCorrection¶: Calculate and apply a correction to the photodiode readings? (bool, default False)

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

doSplineFitOffset¶: Fit a scattered light offset in the spline fit. (bool, default True)

doSplineFitTemperature¶: Fit temperature coefficient in spline fit? (bool, default False)

doSplineFitWeights¶: Fit linearity weight parameters in the spline fit. (bool, default False)

history¶: Read-only history.

ignorePtcMask¶: Ignore the expIdMask set by the PTC solver? (bool, default False)

linearityType¶

Type of linearizer to construct. (str, default 'Squared')

Allowed values:

'LookupTable': Create a lookup table solution.
'Polynomial': Create an arbitrary polynomial solution.
'Squared': Create a single order squared solution.
'Spline': Create a spline based solution.
'None': Create a dummy solution.
'None': Field is optional

maxLinearAdu¶: Maximum DN value to use to estimate linear term. (float, default 20000.0)

maxLookupTableAdu¶: Maximum DN value for a LookupTable linearizer. (int, default 262144)

minLinearAdu¶: Minimum DN value to use to estimate linear term. (float, default 30.0)

minPhotodiodeCurrent¶: Minimum value to trust photodiode signals. (float, default 0.0)

nSigmaClipLinear¶: Maximum deviation from linear solution for Poissonian noise. (float, default 5.0)

polynomialOrder¶

Degree of polynomial to fit. Must be at least 2. (int, default 3)

Valid Range = [2,inf)

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

splineFitMaxIter¶: Maximum number of iterations for spline fit. (int, default 20)

splineFitMaxRejectionPerIteration¶: Maximum number of rejections per iteration for spline fit. (int, default 5)

splineFitMinIter¶: Minimum number of iterations for spline fit. (int, default 3)

splineFitTemperatureColumn¶: Name of the temperature column to use when fitting temperature coefficients in spline fit; this must not be None if doSplineFitTemperature is True. (str, default None)

splineFitWeightParsStart¶: Starting parameters for weight fit, if doSplineFitWeights=True. Parameters are such that sigma = sqrt(par[0]**2. + par[1]**2./mu).If doSplineFitWeights=False then these are used as-is; otherwise they are used as the initial values for fitting these parameters. (List, default [1.0, 0.0])

splineGroupingColumn¶: Column to use for grouping together points for Spline mode, to allow for different proportionality constants. If not set, no grouping will be done. (str, default None)

splineGroupingMinPoints¶: Minimum number of linearity points to allow grouping together points for Spline mode with splineGroupingColumn. This configuration is here to prevent misuse of the Spline code to avoid over-fitting. (int, default 100)

splineKnots¶: Number of spline knots to use in fit. (int, default 10)

trimmedState¶: Will this linearizer be used on trimmed data? (bool, default True)

useLinearizerPtc¶: Use a linearizer ptc in a single pipeline? (bool, default False)

usePhotodiode¶: Use the photodiode info instead of the raw expTimes? (bool, default False)

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

LinearitySolveConfig¶