TransformObjectCatalogConfig

class lsst.pipe.tasks.postprocess.TransformObjectCatalogConfig

Bases: lsst.pipe.tasks.postprocess.TransformCatalogBaseConfig

Attributes Summary

camelCase Write per-band columns names with camelCase, else underscore For example: gPsFlux instead of g_PsFlux.
coaddName Name of coadd (str, default 'deep')
columnsFromDataId Columns to extract from the dataId (List, default None)
connections Configurations describing the connections of the PipelineTask to datatypes (Connections, default <class 'lsst.pipe.base.config.Connections'>)
filterMap Dictionary mapping full filter name to short one for column name munging.These filters determine the output columns no matter what filters the input data actually contain.
floatFillValue Fill value for float fields when populating empty tables.
functorFile Path to YAML file specifying Science Data Model functors to use when copying columns and computing calibrated values.
goodFlags List of ‘good’ flags that should be set False when populating empty tables.
history
integerFillValue Fill value for integer fields when populating empty tables.
multilevelOutput Whether results dataframe should have a multilevel column index (True) or be flat and name-munged (False).
outputBands These bands and only these bands will appear in the output, NaN-filled if the input does not include them.
primaryKey Name of column to be set as the DataFrame index.
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.

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.
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

camelCase

Write per-band columns names with camelCase, else underscore For example: gPsFlux instead of g_PsFlux. (bool, default False)

coaddName

Name of coadd (str, default 'deep')

columnsFromDataId

Columns to extract from the dataId (List, default None)

connections

Configurations describing the connections of the PipelineTask to datatypes (Connections, default <class 'lsst.pipe.base.config.Connections'>)

filterMap

Dictionary mapping full filter name to short one for column name munging.These filters determine the output columns no matter what filters the input data actually contain. Deprecated: Coadds are now identified by the band, so this transform is unused.Will be removed after v22. (Dict, default {})

floatFillValue

Fill value for float fields when populating empty tables. (float, default nan)

functorFile

Path to YAML file specifying Science Data Model functors to use when copying columns and computing calibrated values. (str, default None)

goodFlags

List of ‘good’ flags that should be set False when populating empty tables. All other flags are considered to be ‘bad’ flags and will be set to True. (List, default [])

history
integerFillValue

Fill value for integer fields when populating empty tables. (int, default -1)

multilevelOutput

Whether results dataframe should have a multilevel column index (True) or be flat and name-munged (False). (bool, default False)

outputBands

These bands and only these bands will appear in the output, NaN-filled if the input does not include them. If None, then use all bands found in the input. (List, default None)

primaryKey

Name of column to be set as the DataFrame index. If None, the indexwill be named id (str, default None)

saveLogOutput

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

saveMetadata

Flag to enable/disable metadata saving for a task, enabled by default. (bool, default True)

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 is True.

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 two lsst.pex.config.Config instances are equal. False if there is an inequality.

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:
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.

freeze()

Make this config, and all subconfigs, read-only.

items()

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

Returns:
items : dict_items

Iterator of tuples for each configuration. Tuple items are:

  1. Field name.
  2. Field value.
keys()

Get field names.

Returns:
names : dict_keys

List of lsst.pex.config.Field names.

See also

lsst.pex.config.Config.iterkeys
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 to 5.

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 to 5.

filename : str, optional

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

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)

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 to 5.

filename : str, optional

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

names()

Get all the field names in the config, recursively.

Returns:
names : list of str

Field names.

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).

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 include import statements in output, this is to support human-oriented output from pipetask where additional clutter is not useful.

saveToString(skipImports=False)

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

Parameters:
skipImports : bool, 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:
code : str

A code string readable by 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.

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:
values : dict_values

Iterator of field values.