Coverage for tests/test_loadDiaCatalogs.py : 19%
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1# This file is part of ap_association.
2#
3# Developed for the LSST Data Management System.
4# This product includes software developed by the LSST Project
5# (https://www.lsst.org).
6# See the COPYRIGHT file at the top-level directory of this distribution
7# for details of code ownership.
8#
9# This program is free software: you can redistribute it and/or modify
10# it under the terms of the GNU General Public License as published by
11# the Free Software Foundation, either version 3 of the License, or
12# (at your option) any later version.
13#
14# This program is distributed in the hope that it will be useful,
15# but WITHOUT ANY WARRANTY; without even the implied warranty of
16# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
17# GNU General Public License for more details.
18#
19# You should have received a copy of the GNU General Public License
20# along with this program. If not, see <https://www.gnu.org/licenses/>.
22import os
23import numpy as np
24import pandas as pd
25import tempfile
26import unittest
27import yaml
29from lsst.afw.cameraGeom.testUtils import DetectorWrapper
30import lsst.afw.geom as afwGeom
31import lsst.afw.image as afwImage
32from lsst.ap.association import LoadDiaCatalogsTask, LoadDiaCatalogsConfig
33import lsst.daf.base as dafBase
34from lsst.dax.apdb import ApdbSql, ApdbSqlConfig
35import lsst.geom as geom
36from lsst.utils import getPackageDir
37import lsst.utils.tests
40def _data_file_name(basename, module_name):
41 """Return path name of a data file.
43 Parameters
44 ----------
45 basename : `str`
46 Name of the file to add to the path string.
47 module_name : `str`
48 Name of lsst stack package environment variable.
50 Returns
51 -------
52 data_file_path : `str`
53 Full path of the file to load from the "data" directory in a given
54 repository.
55 """
56 return os.path.join(getPackageDir(module_name), "data", basename)
59def makeExposure(flipX=False, flipY=False):
60 """Create an exposure and flip the x or y (or both) coordinates.
62 Returns bounding boxes that are right or left handed around the bounding
63 polygon.
65 Parameters
66 ----------
67 flipX : `bool`
68 Flip the x coordinate in the WCS.
69 flipY : `bool`
70 Flip the y coordinate in the WCS.
72 Returns
73 -------
74 exposure : `lsst.afw.image.Exposure`
75 Exposure with a valid bounding box and wcs.
76 """
77 metadata = dafBase.PropertySet()
79 metadata.set("SIMPLE", "T")
80 metadata.set("BITPIX", -32)
81 metadata.set("NAXIS", 2)
82 metadata.set("NAXIS1", 1024)
83 metadata.set("NAXIS2", 1153)
84 metadata.set("RADECSYS", 'FK5')
85 metadata.set("EQUINOX", 2000.)
87 metadata.setDouble("CRVAL1", 215.604025685476)
88 metadata.setDouble("CRVAL2", 53.1595451514076)
89 metadata.setDouble("CRPIX1", 1109.99981456774)
90 metadata.setDouble("CRPIX2", 560.018167811613)
91 metadata.set("CTYPE1", 'RA---SIN')
92 metadata.set("CTYPE2", 'DEC--SIN')
94 xFlip = 1
95 if flipX:
96 xFlip = -1
97 yFlip = 1
98 if flipY:
99 yFlip = -1
100 metadata.setDouble("CD1_1", xFlip * 5.10808596133527E-05)
101 metadata.setDouble("CD1_2", yFlip * 1.85579539217196E-07)
102 metadata.setDouble("CD2_2", yFlip * -5.10281493481982E-05)
103 metadata.setDouble("CD2_1", xFlip * -8.27440751733828E-07)
105 wcs = afwGeom.makeSkyWcs(metadata)
106 exposure = afwImage.makeExposure(
107 afwImage.makeMaskedImageFromArrays(np.ones((1024, 1153))), wcs)
108 detector = DetectorWrapper(id=23, bbox=exposure.getBBox()).detector
109 visit = afwImage.VisitInfo(
110 exposureId=1234,
111 exposureTime=200.,
112 date=dafBase.DateTime("2014-05-13T17:00:00.000000000",
113 dafBase.DateTime.Timescale.TAI))
114 exposure.setDetector(detector)
115 exposure.getInfo().setVisitInfo(visit)
116 exposure.setFilterLabel(afwImage.FilterLabel(band='g'))
118 return exposure
121def makeDiaObjects(nObjects, exposure):
122 """Make a test set of DiaObjects.
124 Parameters
125 ----------
126 nObjects : `int`
127 Number of objects to create.
128 exposure : `lsst.afw.image.Exposure`
129 Exposure to create objects over.
131 Returns
132 -------
133 diaObjects : `pandas.DataFrame`
134 DiaObjects generated across the exposure.
135 """
136 bbox = geom.Box2D(exposure.getBBox())
137 rand_x = np.random.uniform(bbox.getMinX(), bbox.getMaxX(), size=nObjects)
138 rand_y = np.random.uniform(bbox.getMinY(), bbox.getMaxY(), size=nObjects)
140 midPointTaiMJD = exposure.getInfo().getVisitInfo().getDate().get(
141 system=dafBase.DateTime.MJD)
143 wcs = exposure.getWcs()
145 data = []
146 for idx, (x, y) in enumerate(zip(rand_x, rand_y)):
147 coord = wcs.pixelToSky(x, y)
148 newObject = {"ra": coord.getRa().asDegrees(),
149 "decl": coord.getDec().asDegrees(),
150 "radecTai": midPointTaiMJD,
151 "diaObjectId": idx,
152 "pmParallaxNdata": 0,
153 "nearbyObj1": 0,
154 "nearbyObj2": 0,
155 "nearbyObj3": 0}
156 for f in ["u", "g", "r", "i", "z", "y"]:
157 newObject["%sPSFluxNdata" % f] = 0
158 data.append(newObject)
160 return pd.DataFrame(data=data)
163def makeDiaSources(nSources, diaObjectIds, exposure):
164 """Make a test set of DiaSources.
166 Parameters
167 ----------
168 nSources : `int`
169 Number of sources to create.
170 diaObjectIds : `numpy.ndarray`
171 Integer Ids of diaobjects to "associate" with the DiaSources.
172 exposure : `lsst.afw.image.Exposure`
173 Exposure to create sources over.
175 Returns
176 -------
177 diaSources : `pandas.DataFrame`
178 DiaSources generated across the exposure.
179 """
180 bbox = geom.Box2D(exposure.getBBox())
181 rand_x = np.random.uniform(bbox.getMinX(), bbox.getMaxX(), size=nSources)
182 rand_y = np.random.uniform(bbox.getMinY(), bbox.getMaxY(), size=nSources)
183 rand_ids = diaObjectIds[np.random.randint(len(diaObjectIds), size=nSources)]
185 midPointTaiMJD = exposure.getInfo().getVisitInfo().getDate().get(
186 system=dafBase.DateTime.MJD)
188 wcs = exposure.getWcs()
190 data = []
191 for idx, (x, y, objId) in enumerate(zip(rand_x, rand_y, rand_ids)):
192 coord = wcs.pixelToSky(x, y)
193 data.append({"ra": coord.getRa().asDegrees(),
194 "decl": coord.getDec().asDegrees(),
195 "diaObjectId": objId,
196 "diaSourceId": idx,
197 "midPointTai": midPointTaiMJD})
199 return pd.DataFrame(data=data)
202def makeDiaForcedSources(nForcedSources, diaObjectIds, exposure):
203 """Make a test set of DiaForcedSources.
205 Parameters
206 ----------
207 nForcedSources : `int`
208 Number of sources to create.
209 diaObjectIds : `numpy.ndarray`
210 Integer Ids of diaobjects to "associate" with the DiaSources.
211 exposure : `lsst.afw.image.Exposure`
212 Exposure to create sources over.
214 Returns
215 -------
216 diaForcedSources : `pandas.DataFrame`
217 DiaForcedSources generated across the exposure.
218 """
219 rand_ids = diaObjectIds[
220 np.random.randint(len(diaObjectIds), size=nForcedSources)]
222 midPointTaiMJD = exposure.getInfo().getVisitInfo().getDate().get(
223 system=dafBase.DateTime.MJD)
225 data = []
226 for idx, objId in enumerate(rand_ids):
227 data.append({"diaObjectId": objId,
228 "diaForcedSourceId": idx,
229 "ccdVisitId": idx,
230 "midPointTai": midPointTaiMJD})
232 return pd.DataFrame(data=data)
235class TestLoadDiaCatalogs(unittest.TestCase):
237 def setUp(self):
238 np.random.seed(1234)
240 self.db_file_fd, self.db_file = tempfile.mkstemp(
241 dir=os.path.dirname(__file__))
243 self.apdbConfig = ApdbSqlConfig()
244 self.apdbConfig.db_url = "sqlite:///" + self.db_file
245 self.apdbConfig.dia_object_index = "baseline"
246 self.apdbConfig.dia_object_columns = []
247 self.apdbConfig.schema_file = _data_file_name(
248 "apdb-schema.yaml", "dax_apdb")
249 self.apdbConfig.extra_schema_file = _data_file_name(
250 "apdb-ap-pipe-schema-extra.yaml", "ap_association")
252 self.apdb = ApdbSql(config=self.apdbConfig)
253 self.apdb.makeSchema()
255 self.exposure = makeExposure(False, False)
257 self.diaObjects = makeDiaObjects(20, self.exposure)
258 self.diaSources = makeDiaSources(
259 100,
260 self.diaObjects["diaObjectId"].to_numpy(),
261 self.exposure)
262 self.diaForcedSources = makeDiaForcedSources(
263 200,
264 self.diaObjects["diaObjectId"].to_numpy(),
265 self.exposure)
267 self.dateTime = self.exposure.getInfo().getVisitInfo().getDate()
268 self.apdb.store(self.dateTime,
269 self.diaObjects,
270 self.diaSources,
271 self.diaForcedSources)
273 # These columns are not in the DPDD, yet do appear in DiaSource.yaml.
274 # We don't need to check them against the default APDB schema.
275 self.ignoreColumns = ["filterName", "bboxSize", "isDipole"]
277 def tearDown(self):
278 os.close(self.db_file_fd)
279 os.remove(self.db_file)
281 def testRun(self):
282 """Test the full run method for the loader.
283 """
284 diaLoader = LoadDiaCatalogsTask()
285 result = diaLoader.run(self.exposure, self.apdb)
287 self.assertEqual(len(result.diaObjects), len(self.diaObjects))
288 self.assertEqual(len(result.diaSources), len(self.diaSources))
289 self.assertEqual(len(result.diaForcedSources),
290 len(self.diaForcedSources))
292 def testLoadDiaObjects(self):
293 """Test that the correct number of diaObjects are loaded.
294 """
295 diaLoader = LoadDiaCatalogsTask()
296 region = diaLoader._getRegion(self.exposure)
297 diaObjects = diaLoader.loadDiaObjects(region,
298 self.apdb)
299 self.assertEqual(len(diaObjects), len(self.diaObjects))
301 def testLoadDiaForcedSources(self):
302 """Test that the correct number of diaForcedSources are loaded.
303 """
304 diaLoader = LoadDiaCatalogsTask()
305 region = diaLoader._getRegion(self.exposure)
306 diaForcedSources = diaLoader.loadDiaForcedSources(
307 self.diaObjects,
308 region,
309 self.dateTime,
310 self.apdb)
311 self.assertEqual(len(diaForcedSources), len(self.diaForcedSources))
313 def testLoadDiaSources(self):
314 """Test that the correct number of diaSources are loaded.
316 Also check that they can be properly loaded both by location and
317 ``diaObjectId``.
318 """
319 diaConfig = LoadDiaCatalogsConfig()
320 diaLoader = LoadDiaCatalogsTask(config=diaConfig)
322 region = diaLoader._getRegion(self.exposure)
323 diaSources = diaLoader.loadDiaSources(self.diaObjects,
324 region,
325 self.dateTime,
326 self.apdb)
327 self.assertEqual(len(diaSources), len(self.diaSources))
329 def test_apdbSchema(self):
330 """Test that the default DiaSource schema from dax_apdb agrees with the
331 column names defined here in ap_association/data/DiaSource.yaml.
332 """
333 functorFile = _data_file_name("DiaSource.yaml", "ap_association")
334 apdbSchemaFile = _data_file_name("apdb-schema.yaml", "dax_apdb")
335 with open(apdbSchemaFile) as yaml_stream:
336 table_list = list(yaml.safe_load_all(yaml_stream))
337 for table in table_list:
338 if table['table'] == 'DiaSource':
339 apdbSchemaColumns = [column['name'] for column in table['columns']]
340 break
341 with open(functorFile) as yaml_stream:
342 diaSourceFunctor = yaml.safe_load_all(yaml_stream)
343 for functor in diaSourceFunctor:
344 diaSourceColumns = [column for column in list(functor['funcs'].keys())
345 if column not in self.ignoreColumns]
346 self.assertLess(set(diaSourceColumns), set(apdbSchemaColumns))
349class MemoryTester(lsst.utils.tests.MemoryTestCase):
350 pass
353def setup_module(module):
354 lsst.utils.tests.init()
357if __name__ == "__main__": 357 ↛ 358line 357 didn't jump to line 358, because the condition on line 357 was never true
358 lsst.utils.tests.init()
359 unittest.main()