lsst.jointcal.testUtils Namespace Reference
Functions | |
| canRunTests () | |
| createTwoFakeCcdImages (num1=4, num2=4, seed=100, fakeDetectorId=12, photoCalibMean1=1e-2, photoCalibMean2=1.2e-2, fakeWcses=(None, None), fakeVisitInfos=(None, None)) | |
| createFakeCcdImage (butler, visit, num, fluxFieldName, photoCalibMean=1e-2, photoCalibErr=1.0, fakeDetectorId=12, fakeWcs=None, fakeVisitInfo=None) | |
| createFakeCatalog (num, bbox, fluxFieldName, skyWcs=None, refCat=False) | |
| fillCatalog (schema, num, bbox, centroidKey, xErrKey, yErrKey, shapeKey, fluxFieldName, skyWcs=None, fluxErrFraction=0.05, refCat=False) | |
| getMeasuredStarsFromCatalog (catalog, pixToFocal) | |
Detailed Description
Functions to help create jointcal tests by generating fake data.
Function Documentation
◆ canRunTests()
| lsst.jointcal.testUtils.canRunTests | ( | ) |
Returns True if the necessary packages and files are available. We need ``obs_cfht`` to load the test/data/cfht_minimal dataset, which includes the metadata that is used to build the fake catalogs.
Definition at line 39 of file testUtils.py.
39def canRunTests():
40 """Returns True if the necessary packages and files are available.
41
42 We need ``obs_cfht`` to load the test/data/cfht_minimal dataset, which
43 includes the metadata that is used to build the fake catalogs.
44 """
45 try:
46 import lsst.obs.cfht # noqa: F401
47 return True
48 except ImportError:
49 return False
50
51
◆ createFakeCatalog()
| lsst.jointcal.testUtils.createFakeCatalog | ( | num, | |
| bbox, | |||
| fluxFieldName, | |||
| skyWcs = None, | |||
| refCat = False ) |
Return a fake minimally-useful catalog for jointcal.
Parameters
----------
num : `int`
Number of sources to put in the catalogs. Should be
a square, to have sqrt(num) centroids on a grid.
bbox : `lsst.geom.Box2I`
Bounding Box of the detector to populate.
fluxFieldName : `str`
Name of the flux field to populate in the catalog, without `_instFlux`
(e.g. "slot_CalibFlux").
skyWcs : `lsst.afw.geom.SkyWcs` or None, optional
If supplied, use this to fill in coordinates from centroids.
refCat : `bool`, optional
Return a ``SimpleCatalog`` so that it behaves like a reference catalog?
Returns
-------
catalog : `lsst.afw.table.SourceCatalog`
A populated source catalog.
Definition at line 191 of file testUtils.py.
191def createFakeCatalog(num, bbox, fluxFieldName, skyWcs=None, refCat=False):
192 """Return a fake minimally-useful catalog for jointcal.
193
194 Parameters
195 ----------
196 num : `int`
197 Number of sources to put in the catalogs. Should be
198 a square, to have sqrt(num) centroids on a grid.
199 bbox : `lsst.geom.Box2I`
200 Bounding Box of the detector to populate.
201 fluxFieldName : `str`
202 Name of the flux field to populate in the catalog, without `_instFlux`
203 (e.g. "slot_CalibFlux").
204 skyWcs : `lsst.afw.geom.SkyWcs` or None, optional
205 If supplied, use this to fill in coordinates from centroids.
206 refCat : `bool`, optional
207 Return a ``SimpleCatalog`` so that it behaves like a reference catalog?
208
209 Returns
210 -------
211 catalog : `lsst.afw.table.SourceCatalog`
212 A populated source catalog.
213 """
214 schema = lsst.afw.table.SourceTable.makeMinimalSchema()
215 # centroid
216 centroidKey = lsst.afw.table.Point2DKey.addFields(schema, "centroid", "centroid", "pixels")
217 xErrKey = schema.addField("centroid_xErr", type="F")
218 yErrKey = schema.addField("centroid_yErr", type="F")
219 # coordinate erros
220 lsst.afw.table.CoordKey.addErrorFields(schema)
221 # shape
223 lsst.afw.table.CoordinateType.PIXEL)
224 # Put the fake sources in the minimal catalog.
225 schema.addField(fluxFieldName+"_instFlux", type="D", doc="post-ISR instFlux")
226 schema.addField(fluxFieldName+"_instFluxErr", type="D", doc="post-ISR instFlux stddev")
227 schema.addField(fluxFieldName+"_flux", type="D", doc="source flux (nJy)")
228 schema.addField(fluxFieldName+"_fluxErr", type="D", doc="flux stddev (nJy)")
229 schema.addField(fluxFieldName+"_mag", type="D", doc="magnitude")
230 schema.addField(fluxFieldName+"_magErr", type="D", doc="magnitude stddev")
231 return fillCatalog(schema, num, bbox,
232 centroidKey, xErrKey, yErrKey, shapeKey, fluxFieldName,
233 skyWcs=skyWcs, refCat=refCat)
234
235
static ErrorKey addErrorFields(Schema &schema)
Definition aggregates.cc:128
static QuadrupoleKey addFields(Schema &schema, std::string const &name, std::string const &doc, CoordinateType coordType=CoordinateType::PIXEL)
Add a set of quadrupole subfields to a schema and return a QuadrupoleKey that points to them.
Definition aggregates.cc:134
static Schema makeMinimalSchema()
Return a minimal schema for Source tables and records.
Definition Source.h:258
◆ createFakeCcdImage()
| lsst.jointcal.testUtils.createFakeCcdImage | ( | butler, | |
| visit, | |||
| num, | |||
| fluxFieldName, | |||
| photoCalibMean = 1e-2, | |||
| photoCalibErr = 1.0, | |||
| fakeDetectorId = 12, | |||
| fakeWcs = None, | |||
| fakeVisitInfo = None ) |
Create a fake CcdImage by making a fake catalog.
Parameters
----------
butler : `lsst.daf.butler.Butler`
Butler to load metadata from.
visit : `int`
Visit identifier to build a butler dataId.
num : `int`
Number of sources to put in the catalogs. Should be
a square, to have sqrt(num) centroids on a grid.
fluxFieldName : `str`
Name of the flux field to populate in the catalog, without `_instFlux`
(e.g. "slot_CalibFlux").
photoCalibMean : `float`, optional
Value to set for calibrationMean in the created PhotoCalib.
Note: this value is 1/instFluxMag0, so it should be less than 1.
photoCalibErr : `float`, optional
Value to set for calibrationErr in the created PhotoCalib.
fakeDetectorId : `int`, optional
Use this as the detectorId in the returned CcdImage.
fakeWcs : `lsst.afw.geom.SkyWcs`, optional
A SkyWcs to use instead of one read from disk.
fakeVisitInfo : `lsst.afw.image.VisitInfo`, optional
A VisitInfo to use instead of one read from disk.
Returns
-------
struct : `lsst.pipe.base.Struct`
Result struct with components:
- `catalog` : Catalogs containing fake sources
(`lsst.afw.table.SourceCatalog`).
- `ccdImage` : CcdImage containing the metadata and fake sources
(`lsst.jointcal.CcdImage`).
- `bbox` : Bounding Box of the image (`lsst.geom.Box2I`).
- `skyWcs` : SkyWcs of the image (`lsst.afw.geom.SkyWcs`).
Definition at line 133 of file testUtils.py.
135 fakeWcs=None, fakeVisitInfo=None):
136 """Create a fake CcdImage by making a fake catalog.
137
138 Parameters
139 ----------
140 butler : `lsst.daf.butler.Butler`
141 Butler to load metadata from.
142 visit : `int`
143 Visit identifier to build a butler dataId.
144 num : `int`
145 Number of sources to put in the catalogs. Should be
146 a square, to have sqrt(num) centroids on a grid.
147 fluxFieldName : `str`
148 Name of the flux field to populate in the catalog, without `_instFlux`
149 (e.g. "slot_CalibFlux").
150 photoCalibMean : `float`, optional
151 Value to set for calibrationMean in the created PhotoCalib.
152 Note: this value is 1/instFluxMag0, so it should be less than 1.
153 photoCalibErr : `float`, optional
154 Value to set for calibrationErr in the created PhotoCalib.
155 fakeDetectorId : `int`, optional
156 Use this as the detectorId in the returned CcdImage.
157 fakeWcs : `lsst.afw.geom.SkyWcs`, optional
158 A SkyWcs to use instead of one read from disk.
159 fakeVisitInfo : `lsst.afw.image.VisitInfo`, optional
160 A VisitInfo to use instead of one read from disk.
161
162 Returns
163 -------
164 struct : `lsst.pipe.base.Struct`
165 Result struct with components:
166
167 - `catalog` : Catalogs containing fake sources
168 (`lsst.afw.table.SourceCatalog`).
169 - `ccdImage` : CcdImage containing the metadata and fake sources
170 (`lsst.jointcal.CcdImage`).
171 - `bbox` : Bounding Box of the image (`lsst.geom.Box2I`).
172 - `skyWcs` : SkyWcs of the image (`lsst.afw.geom.SkyWcs`).
173 """
174 detectorId = 12 # we only have data for detector=12
175
176 dataId = dict(visit=visit, detector=detectorId, instrument="MegaPrime")
177 skyWcs = fakeWcs if fakeWcs is not None else butler.get('calexp.wcs', dataId=dataId)
178 visitInfo = fakeVisitInfo if fakeVisitInfo is not None else butler.get('calexp.visitInfo', dataId=dataId)
179 bbox = butler.get('calexp.bbox', dataId=dataId)
180 detector = butler.get('calexp.detector', dataId=dataId)
181 filt = butler.get("calexp.filter", dataId=dataId).bandLabel
182 photoCalib = lsst.afw.image.PhotoCalib(photoCalibMean, photoCalibErr)
183
184 catalog = createFakeCatalog(num, bbox, fluxFieldName, skyWcs=skyWcs)
185 ccdImage = lsst.jointcal.CcdImage(catalog, skyWcs, visitInfo, bbox, filt, photoCalib,
186 detector, visit, fakeDetectorId, fluxFieldName)
187
188 return lsst.pipe.base.Struct(catalog=catalog, ccdImage=ccdImage, bbox=bbox, skyWcs=skyWcs)
189
190
◆ createTwoFakeCcdImages()
| lsst.jointcal.testUtils.createTwoFakeCcdImages | ( | num1 = 4, | |
| num2 = 4, | |||
| seed = 100, | |||
| fakeDetectorId = 12, | |||
| photoCalibMean1 = 1e-2, | |||
| photoCalibMean2 = 1.2e-2, | |||
| fakeWcses = (None, None), | |||
| fakeVisitInfos = (None, None) ) |
Return two fake ccdImages built on CFHT Megacam metadata.
If ``num1 == num2``, the catalogs will align on-sky so each source will
have a match in the other catalog.
This uses the butler dataset stored in `tests/data/cfht_minimal` to
bootstrap the metadata.
Parameters
----------
num1, num2 : `int`, optional
Number of sources to put in the first and second catalogs. Should be
a square, to have sqrt(num) centroids on a grid.
seed : `int`, optional
Seed value for np.random.
fakeDetectorId : `int`, optional
Sensor identifier to use for both CcdImages. The wcs, bbox, photoCalib, etc.
will still be drawn from the CFHT ccd=12 files, as that is the only
testdata that is included in this simple test dataset.
photoCalibMean1, photoCalibMean2: `float`, optional
The mean photometric calibration to pass to each ccdImage construction.
Note: this value is 1/instFluxMag0, so it should be less than 1.
fakeWcses : `list` [`lsst.afw.geom.SkyWcs`], optional
The SkyWcses to use instead of the ones read from disk.
fakeWcses : `list` [`lsst.afw.image.VisitInfo`], optional
The VisitInfos to use instead of the ones read from disk.
Returns
-------
struct : `lsst.pipe.base.Struct`
Result struct with components:
- `camera` : Camera representing these catalogs
(`lsst.afw.cameraGeom.Camera`).
- `catalogs` : Catalogs containing fake sources
(`list` of `lsst.afw.table.SourceCatalog`).
- `ccdImageList` : CcdImages containing the metadata and fake sources
(`list` of `lsst.jointcal.CcdImage`).
- `bbox` : Bounding Box of the image (`lsst.geom.Box2I`).
- 'fluxFieldName' : name of the instFlux field in the catalogs ('str').
Definition at line 52 of file testUtils.py.
55 fakeVisitInfos=(None, None)):
56 """Return two fake ccdImages built on CFHT Megacam metadata.
57
58 If ``num1 == num2``, the catalogs will align on-sky so each source will
59 have a match in the other catalog.
60
61 This uses the butler dataset stored in `tests/data/cfht_minimal` to
62 bootstrap the metadata.
63
64 Parameters
65 ----------
66 num1, num2 : `int`, optional
67 Number of sources to put in the first and second catalogs. Should be
68 a square, to have sqrt(num) centroids on a grid.
69 seed : `int`, optional
70 Seed value for np.random.
71 fakeDetectorId : `int`, optional
72 Sensor identifier to use for both CcdImages. The wcs, bbox, photoCalib, etc.
73 will still be drawn from the CFHT ccd=12 files, as that is the only
74 testdata that is included in this simple test dataset.
75 photoCalibMean1, photoCalibMean2: `float`, optional
76 The mean photometric calibration to pass to each ccdImage construction.
77 Note: this value is 1/instFluxMag0, so it should be less than 1.
78 fakeWcses : `list` [`lsst.afw.geom.SkyWcs`], optional
79 The SkyWcses to use instead of the ones read from disk.
80 fakeWcses : `list` [`lsst.afw.image.VisitInfo`], optional
81 The VisitInfos to use instead of the ones read from disk.
82
83 Returns
84 -------
85 struct : `lsst.pipe.base.Struct`
86 Result struct with components:
87
88 - `camera` : Camera representing these catalogs
89 (`lsst.afw.cameraGeom.Camera`).
90 - `catalogs` : Catalogs containing fake sources
91 (`list` of `lsst.afw.table.SourceCatalog`).
92 - `ccdImageList` : CcdImages containing the metadata and fake sources
93 (`list` of `lsst.jointcal.CcdImage`).
94 - `bbox` : Bounding Box of the image (`lsst.geom.Box2I`).
95 - 'fluxFieldName' : name of the instFlux field in the catalogs ('str').
96 """
97 if not canRunTests():
98 msg = "Necessary packages not available to run tests that use the cfht_minimal dataset."
99 raise unittest.SkipTest(msg)
100
101 np.random.seed(seed)
102
103 visit1 = 849375
104 visit2 = 850587
105 fluxFieldName = "SomeFlux"
106
107 # Load or fake the necessary metadata for each CcdImage
108 dataDir = lsst.utils.getPackageDir('jointcal')
109 inputDir = os.path.join(dataDir, 'tests/data/cfht_minimal/repo')
110 # Ensure this butler is not writeable, so that we don't mess up the repo accidentally.
111 butler = lsst.daf.butler.Butler(inputDir, collections=["singleFrame"], writeable=False)
112
113 # so we can access parts of the camera later (e.g. focal plane)
114 camera = butler.get('camera', instrument="MegaPrime")
115
116 struct1 = createFakeCcdImage(butler, visit1, num1, fluxFieldName,
117 photoCalibMean=photoCalibMean1, photoCalibErr=1.0,
118 fakeDetectorId=fakeDetectorId,
119 fakeWcs=fakeWcses[0], fakeVisitInfo=fakeVisitInfos[0])
120 struct2 = createFakeCcdImage(butler, visit2, num2, fluxFieldName,
121 photoCalibMean=photoCalibMean2, photoCalibErr=5.0,
122 fakeDetectorId=fakeDetectorId,
123 fakeWcs=fakeWcses[1], fakeVisitInfo=fakeVisitInfos[1])
124
125 return lsst.pipe.base.Struct(camera=camera,
126 catalogs=[struct1.catalog, struct2.catalog],
127 ccdImageList=[struct1.ccdImage, struct2.ccdImage],
128 bbox=struct1.bbox,
129 skyWcs=[struct1.skyWcs, struct2.skyWcs],
130 fluxFieldName=fluxFieldName)
131
132
◆ fillCatalog()
| lsst.jointcal.testUtils.fillCatalog | ( | schema, | |
| num, | |||
| bbox, | |||
| centroidKey, | |||
| xErrKey, | |||
| yErrKey, | |||
| shapeKey, | |||
| fluxFieldName, | |||
| skyWcs = None, | |||
| fluxErrFraction = 0.05, | |||
| refCat = False ) |
Return a catalog populated with fake, but reasonable, sources.
Centroids are placed on a uniform grid, errors are normally distributed.
Parameters
----------
schema : `lsst.afw.table.Schema`
Pre-built schema to make the catalog from.
num : `int`
Number of sources to put in the catalog.
bbox : `lsst.geom.Box2I`
Bounding box of the ccd to put sources in.
centroidKey : `lsst.afw.table.Key`
Key for the centroid field to populate.
xErrKey : `lsst.afw.table.Key`
Key for the xErr field to populate.
yErrKey : `lsst.afw.table.Key`
Key for the yErr field to populate.
shapeKey : `lsst.afw.table.Key`
Key for the shape field to populate.
fluxFieldName : `str`
Name of the flux field to populate in the catalog, without `_instFlux`
(e.g. "slot_CalibFlux").
skyWcs : `lsst.afw.geom.SkyWcs` or None, optional
If supplied, use this to fill in coordinates from centroids.
fluxErrFraction : `float`, optional
Fraction of instFlux to use for the instFluxErr.
refCat : `bool`, optional
Return a ``SimpleCatalog`` so that it behaves like a reference catalog?
Returns
-------
catalog : `lsst.afw.table.SourceCatalog`
The filled catalog.
Definition at line 236 of file testUtils.py.
238 skyWcs=None, fluxErrFraction=0.05, refCat=False):
239 """Return a catalog populated with fake, but reasonable, sources.
240
241 Centroids are placed on a uniform grid, errors are normally distributed.
242
243 Parameters
244 ----------
245 schema : `lsst.afw.table.Schema`
246 Pre-built schema to make the catalog from.
247 num : `int`
248 Number of sources to put in the catalog.
249 bbox : `lsst.geom.Box2I`
250 Bounding box of the ccd to put sources in.
251 centroidKey : `lsst.afw.table.Key`
252 Key for the centroid field to populate.
253 xErrKey : `lsst.afw.table.Key`
254 Key for the xErr field to populate.
255 yErrKey : `lsst.afw.table.Key`
256 Key for the yErr field to populate.
257 shapeKey : `lsst.afw.table.Key`
258 Key for the shape field to populate.
259 fluxFieldName : `str`
260 Name of the flux field to populate in the catalog, without `_instFlux`
261 (e.g. "slot_CalibFlux").
262 skyWcs : `lsst.afw.geom.SkyWcs` or None, optional
263 If supplied, use this to fill in coordinates from centroids.
264 fluxErrFraction : `float`, optional
265 Fraction of instFlux to use for the instFluxErr.
266 refCat : `bool`, optional
267 Return a ``SimpleCatalog`` so that it behaves like a reference catalog?
268
269 Returns
270 -------
271 catalog : `lsst.afw.table.SourceCatalog`
272 The filled catalog.
273 """
274 table = lsst.afw.table.SourceTable.make(schema)
275 table.defineCentroid('centroid')
276 table.defineShape('shape')
277 table.defineCalibFlux(fluxFieldName)
278 if refCat:
279 catalog = lsst.afw.table.SimpleCatalog(table)
280 else:
281 catalog = lsst.afw.table.SourceCatalog(table)
282
283 instFlux = np.random.random(num)*10000
284 instFluxErr = np.abs(instFlux * np.random.normal(fluxErrFraction, scale=0.1, size=num))
285 xx = np.linspace(bbox.getMinX(), bbox.getMaxX(), int(np.sqrt(num)))
286 yy = np.linspace(bbox.getMinY(), bbox.getMaxY(), int(np.sqrt(num)))
287 xv, yv = np.meshgrid(xx, yy)
288 vx = np.random.normal(scale=0.1, size=num)
289 vy = np.random.normal(scale=0.1, size=num)
290
291 # make all the sources perfectly spherical, for simplicity.
292 mxx = 1
293 myy = 1
294 mxy = 0
295
296 for i, (x, y) in enumerate(zip(xv.ravel(), yv.ravel())):
297 record = catalog.addNew()
298 record.set('id', i)
299 record.set(centroidKey, lsst.geom.Point2D(x, y))
300 record.set(shapeKey, lsst.afw.geom.ellipses.Quadrupole(mxx, myy, mxy))
301
302 if skyWcs is not None:
303 lsst.afw.table.updateSourceCoords(skyWcs, catalog)
304
305 catalog[xErrKey] = vx
306 catalog[yErrKey] = vy
307 catalog[fluxFieldName + '_instFlux'] = instFlux
308 catalog[fluxFieldName + '_instFluxErr'] = instFluxErr
309
310 return catalog
311
312
An ellipse core with quadrupole moments as parameters.
Definition Quadrupole.h:47
Custom catalog class for record/table subclasses that are guaranteed to have an ID,...
Definition SortedCatalog.h:42
static std::shared_ptr< SourceTable > make(Schema const &schema, std::shared_ptr< IdFactory > const &idFactory)
Construct a new table.
Definition Source.cc:400
void updateSourceCoords(geom::SkyWcs const &wcs, SourceCollection &sourceList, bool include_covariance=true)
Update sky coordinates in a collection of source objects.
Definition wcsUtils.cc:125
◆ getMeasuredStarsFromCatalog()
| lsst.jointcal.testUtils.getMeasuredStarsFromCatalog | ( | catalog, | |
| pixToFocal ) |
Return a list of measuredStars built from a catalog.
Parameters
----------
catalog : `lsst.afw.table.SourceCatalog`
The table to get sources from.
pixToFocal : `lsst.afw.geom.TransformPoint2ToPoint2`
Transform that goes from pixel to focal plane coordinates, to set the
MeasuredStar x/y focal points.
Returns
-------
stars : `list` of `lsst.jointcal.MeasuredStar`
MeasuredStars built from the catalog sources.
Definition at line 313 of file testUtils.py.
313def getMeasuredStarsFromCatalog(catalog, pixToFocal):
314 """Return a list of measuredStars built from a catalog.
315
316 Parameters
317 ----------
318 catalog : `lsst.afw.table.SourceCatalog`
319 The table to get sources from.
320 pixToFocal : `lsst.afw.geom.TransformPoint2ToPoint2`
321 Transform that goes from pixel to focal plane coordinates, to set the
322 MeasuredStar x/y focal points.
323
324 Returns
325 -------
326 stars : `list` of `lsst.jointcal.MeasuredStar`
327 MeasuredStars built from the catalog sources.
328 """
329 stars = []
330 for record in catalog:
331 star = lsst.jointcal.MeasuredStar()
332 star.x = record.getX()
333 star.y = record.getY()
334 star.setInstFluxAndErr(record.getCalibInstFlux(), record.getCalibInstFluxErr())
335 # TODO: cleanup after DM-4044
336 point = lsst.geom.Point2D(star.x, star.y)
337 pointFocal = pixToFocal.applyForward(point)
338 star.setXFocal(pointFocal.getX())
339 star.setYFocal(pointFocal.getY())
340 stars.append(star)
341
342 return stars
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