Coverage for python/lsst/pipe/tasks/coaddBase.py: 54%
57 statements
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« prev ^ index » next coverage.py v6.4.4, created at 2022-08-20 02:29 -0700
1#
2# LSST Data Management System
3# Copyright 2008-2015 AURA/LSST.
4#
5# This product includes software developed by the
6# LSST Project (http://www.lsst.org/).
7#
8# This program is free software: you can redistribute it and/or modify
9# it under the terms of the GNU General Public License as published by
10# the Free Software Foundation, either version 3 of the License, or
11# (at your option) any later version.
12#
13# This program is distributed in the hope that it will be useful,
14# but WITHOUT ANY WARRANTY; without even the implied warranty of
15# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
16# GNU General Public License for more details.
17#
18# You should have received a copy of the LSST License Statement and
19# the GNU General Public License along with this program. If not,
20# see <http://www.lsstcorp.org/LegalNotices/>.
21#
22import lsst.pex.config as pexConfig
23import lsst.afw.image as afwImage
24import lsst.pipe.base as pipeBase
25import lsst.meas.algorithms as measAlg
27from lsst.meas.algorithms import ScaleVarianceTask
28from .selectImages import PsfWcsSelectImagesTask
29from .coaddInputRecorder import CoaddInputRecorderTask
31__all__ = ["CoaddBaseTask", "getSkyInfo", "makeSkyInfo"]
34class CoaddBaseConfig(pexConfig.Config):
35 """!Configuration parameters for CoaddBaseTask
37 @anchor CoaddBaseConfig_
39 @brief Configuration parameters shared between MakeCoaddTempExp and AssembleCoadd
40 """
41 coaddName = pexConfig.Field(
42 doc="Coadd name: typically one of deep or goodSeeing.",
43 dtype=str,
44 default="deep",
45 )
46 select = pexConfig.ConfigurableField(
47 doc="Image selection subtask.",
48 target=PsfWcsSelectImagesTask,
49 )
50 badMaskPlanes = pexConfig.ListField(
51 dtype=str,
52 doc="Mask planes that, if set, the associated pixel should not be included in the coaddTempExp.",
53 default=("NO_DATA",),
54 )
55 inputRecorder = pexConfig.ConfigurableField(
56 doc="Subtask that helps fill CoaddInputs catalogs added to the final Exposure",
57 target=CoaddInputRecorderTask
58 )
59 doPsfMatch = pexConfig.Field(
60 dtype=bool,
61 doc="Match to modelPsf? Deprecated. Sets makePsfMatched=True, makeDirect=False",
62 default=False
63 )
64 modelPsf = measAlg.GaussianPsfFactory.makeField(doc="Model Psf factory")
65 doApplyExternalPhotoCalib = pexConfig.Field(
66 dtype=bool,
67 default=False,
68 doc=("Whether to apply external photometric calibration via an "
69 "`lsst.afw.image.PhotoCalib` object. Uses the "
70 "`externalPhotoCalibName` field to determine which calibration "
71 "to load.")
72 )
73 useGlobalExternalPhotoCalib = pexConfig.Field(
74 dtype=bool,
75 default=True,
76 doc=("When using doApplyExternalPhotoCalib, use 'global' calibrations "
77 "that are not run per-tract. When False, use per-tract photometric "
78 "calibration files.")
79 )
80 externalPhotoCalibName = pexConfig.ChoiceField(
81 # TODO: Remove this config with the removal of Gen2 in DM-20572.
82 dtype=str,
83 doc=("Type of external PhotoCalib if `doApplyExternalPhotoCalib` is True. "
84 "This field is only used for Gen2 middleware."),
85 default="jointcal",
86 allowed={
87 "jointcal": "Use jointcal_photoCalib",
88 "fgcm": "Use fgcm_photoCalib",
89 "fgcm_tract": "Use fgcm_tract_photoCalib"
90 },
91 deprecated="This configuration is no longer used, and will be removed after v25.0",
92 )
93 doApplyExternalSkyWcs = pexConfig.Field(
94 dtype=bool,
95 default=False,
96 doc=("Whether to apply external astrometric calibration via an "
97 "`lsst.afw.geom.SkyWcs` object. Uses `externalSkyWcsName` "
98 "field to determine which calibration to load.")
99 )
100 useGlobalExternalSkyWcs = pexConfig.Field(
101 dtype=bool,
102 default=False,
103 doc=("When using doApplyExternalSkyWcs, use 'global' calibrations "
104 "that are not run per-tract. When False, use per-tract wcs "
105 "files.")
106 )
107 externalSkyWcsName = pexConfig.ChoiceField(
108 # TODO: Remove this config with the removal of Gen2 in DM-20572.
109 dtype=str,
110 doc=("Type of external SkyWcs if `doApplyExternalSkyWcs` is True. "
111 "This field is only used for Gen2 middleware."),
112 default="jointcal",
113 allowed={
114 "jointcal": "Use jointcal_wcs"
115 },
116 deprecated="This configuration is no longer used, and will be removed after v25.0",
117 )
118 includeCalibVar = pexConfig.Field(
119 dtype=bool,
120 doc="Add photometric calibration variance to warp variance plane.",
121 default=False
122 )
123 matchingKernelSize = pexConfig.Field( 123 ↛ exitline 123 didn't jump to the function exit
124 dtype=int,
125 doc="Size in pixels of matching kernel. Must be odd.",
126 default=21,
127 check=lambda x: x % 2 == 1
128 )
131class CoaddBaseTask(pipeBase.PipelineTask):
132 """!Base class for coaddition.
134 Subclasses must specify _DefaultName
135 """
136 ConfigClass = CoaddBaseConfig
138 def __init__(self, **kwargs):
139 super().__init__(**kwargs)
140 self.makeSubtask("select")
141 self.makeSubtask("inputRecorder")
143 def getSkyInfo(self, patchRef):
144 """!
145 @brief Use @ref coaddBase::getSkyInfo "getSkyInfo" to return the skyMap,
146 tract and patch information, wcs and the outer bbox
147 of the patch.
149 @param[in] patchRef data reference for sky map. Must include keys "tract" and "patch"
151 @return pipe_base Struct containing:
152 - skyMap: sky map
153 - tractInfo: information for chosen tract of sky map
154 - patchInfo: information about chosen patch of tract
155 - wcs: WCS of tract
156 - bbox: outer bbox of patch, as an geom Box2I
157 """
158 return getSkyInfo(coaddName=self.config.coaddName, patchRef=patchRef)
160 def getTempExpDatasetName(self, warpType="direct"):
161 """Return warp name for given warpType and task config
163 Parameters
164 ----------
165 warpType : string
166 Either 'direct' or 'psfMatched'
168 Returns
169 -------
170 WarpDatasetName : `string`
171 """
172 return self.config.coaddName + "Coadd_" + warpType + "Warp"
174 def getBadPixelMask(self):
175 """!
176 @brief Convenience method to provide the bitmask from the mask plane names
177 """
178 return afwImage.Mask.getPlaneBitMask(self.config.badMaskPlanes)
181def getSkyInfo(coaddName, patchRef):
182 """!
183 @brief Return the SkyMap, tract and patch information, wcs, and outer bbox of the patch to be coadded.
185 @param[in] coaddName coadd name; typically one of deep or goodSeeing
186 @param[in] patchRef data reference for sky map. Must include keys "tract" and "patch"
188 @return pipe_base Struct containing:
189 - skyMap: sky map
190 - tractInfo: information for chosen tract of sky map
191 - patchInfo: information about chosen patch of tract
192 - wcs: WCS of tract
193 - bbox: outer bbox of patch, as an geom Box2I
194 """
195 skyMap = patchRef.get(coaddName + "Coadd_skyMap")
196 return makeSkyInfo(skyMap, patchRef.dataId["tract"], patchRef.dataId["patch"])
199def makeSkyInfo(skyMap, tractId, patchId):
200 """Return SkyInfo Struct
202 Constructs SkyInfo used by coaddition tasks for multiple
203 patchId formats.
205 Parameters
206 ----------
207 skyMap : `lsst.skyMap.SkyMap`
208 tractId : int
209 patchId : str or int or tuple of int
210 Either Gen2-style comma delimited string (e.g. '4,5'),
211 tuple of integers (e.g (4, 5), Gen3-style integer.
212 """
213 tractInfo = skyMap[tractId]
215 if isinstance(patchId, str) and ',' in patchId:
216 # patch format is "xIndex,yIndex"
217 patchIndex = tuple(int(i) for i in patchId.split(","))
218 else:
219 patchIndex = patchId
221 patchInfo = tractInfo.getPatchInfo(patchIndex)
223 return pipeBase.Struct(
224 skyMap=skyMap,
225 tractInfo=tractInfo,
226 patchInfo=patchInfo,
227 wcs=tractInfo.getWcs(),
228 bbox=patchInfo.getOuterBBox(),
229 )
232def scaleVariance(maskedImage, maskPlanes, log=None):
233 """!
234 @brief Scale the variance in a maskedImage
236 The variance plane in a convolved or warped image (or a coadd derived
237 from warped images) does not accurately reflect the noise properties of
238 the image because variance has been lost to covariance. This function
239 attempts to correct for this by scaling the variance plane to match
240 the observed variance in the image. This is not perfect (because we're
241 not tracking the covariance) but it's simple and is often good enough.
243 @deprecated Use the ScaleVarianceTask instead.
245 @param maskedImage MaskedImage to operate on; variance will be scaled
246 @param maskPlanes List of mask planes for pixels to reject
247 @param log Log for reporting the renormalization factor; or None
248 @return renormalisation factor
249 """
250 config = ScaleVarianceTask.ConfigClass()
251 config.maskPlanes = maskPlanes
252 task = ScaleVarianceTask(config=config, name="scaleVariance", log=log)
253 return task.run(maskedImage)
256def reorderAndPadList(inputList, inputKeys, outputKeys, padWith=None):
257 """Match the order of one list to another, padding if necessary
259 Parameters
260 ----------
261 inputList : list
262 List to be reordered and padded. Elements can be any type.
263 inputKeys : iterable
264 Iterable of values to be compared with outputKeys.
265 Length must match `inputList`
266 outputKeys : iterable
267 Iterable of values to be compared with inputKeys.
268 padWith :
269 Any value to be inserted where inputKey not in outputKeys
271 Returns
272 -------
273 list
274 Copy of inputList reordered per outputKeys and padded with `padWith`
275 so that the length matches length of outputKeys.
276 """
277 outputList = []
278 for d in outputKeys:
279 if d in inputKeys:
280 outputList.append(inputList[inputKeys.index(d)])
281 else:
282 outputList.append(padWith)
283 return outputList