def testBasic(self):
"""
Test basic log output with default configuration.
Since the default threshold is INFO, the DEBUG or TRACE
message is not emitted.
"""
with TestLog.StdoutCapture(self.outputFilename):
log.configure()
log.log(log.getDefaultLogger(), log.INFO, "This is INFO")
log.info(u"This is unicode INFO")
log.trace("This is TRACE")
log.debug("This is DEBUG")
log.warn("This is WARN")
log.error("This is ERROR")
log.fatal("This is FATAL")
log.critical("This is CRITICAL")
log.warning("Format %d %g %s", 3, 2.71828, "foo")
self.check("""
root INFO: This is INFO
root INFO: This is unicode INFO
root WARN: This is WARN
root ERROR: This is ERROR
root FATAL: This is FATAL
root FATAL: This is CRITICAL
root WARN: Format 3 2.71828 foo
""")
def getCcdImage(self, ccd, imageFactory=afwImage.ImageF, binSize=1, asMaskedImage=False):
"""Return an image of the specified ccd, and also the (possibly updated) ccd"""
log = _LOG.getChild("ButlerImage")
if self.isTrimmed:
bbox = ccd.getBBox()
else:
bbox = calcRawCcdBBox(ccd)
im = None
if self.butler is not None:
err = None
for dataId in [dict(detector=ccd.getId()), dict(ccd=ccd.getId()), dict(ccd=ccd.getName())]:
try:
im = self.butler.get(self.type, dataId, **self.kwargs)
except FitsError as e: # no point trying another dataId
err = IOError(e.args[0].split('\n')[0]) # It's a very chatty error
break
except Exception as e: # try a different dataId
if err is None:
err = e
continue
else:
ccd = im.getDetector() # possibly modified by assembleCcdTask
break
if im:
if asMaskedImage:
im = im.getMaskedImage()
else:
im = im.getMaskedImage().getImage()
else:
if self.verbose:
# Lost by jupyterlab.
print(f"Reading {ccd.getId()}: {err}")
log.warning("Reading %s: %s", ccd.getId(), err)
if im is None:
return self._prepareImage(ccd, imageFactory(*bbox.getDimensions()), binSize), ccd
if self.type == "raw":
if hasattr(im, 'convertF'):
im = im.convertF()
if False and self.callback is None: # we need to trim the raw image
self.callback = rawCallback
allowRotate = True
if self.callback:
try:
im = self.callback(im, ccd, imageSource=self)
except Exception as e:
if self.verbose:
log.error("callback failed: %s", e)
im = imageFactory(*bbox.getDimensions())
else:
allowRotate = False # the callback was responsible for any rotations
return self._prepareImage(ccd, im, binSize, allowRotate=allowRotate), ccd
def run(self, parsedCmd):
"""Run the task on all targets.
Parameters
----------
parsedCmd : `argparse.Namespace`
Parsed command `argparse.Namespace`.
Returns
-------
resultList : `list`
A list of results returned by `TaskRunner.__call__`, or an empty
list if `TaskRunner.__call__` is not called (e.g. if
`TaskRunner.precall` returns `False`). See `TaskRunner.__call__`
for details.
Notes
-----
The task is run under multiprocessing if `TaskRunner.numProcesses`
is more than 1; otherwise processing is serial.
"""
resultList = []
disableImplicitThreading() # To prevent thread contention
if self.numProcesses > 1:
import multiprocessing
self.prepareForMultiProcessing()
pool = multiprocessing.Pool(processes=self.numProcesses,
maxtasksperchild=1)
mapFunc = functools.partial(_runPool, pool, self.timeout)
else:
pool = None
mapFunc = map
if self.precall(parsedCmd):
profileName = parsedCmd.profile if hasattr(parsedCmd,
"profile") else None
log = parsedCmd.log
targetList = self.getTargetList(parsedCmd)
if len(targetList) > 0:
with profile(profileName, log):
# Run the task using self.__call__
resultList = list(mapFunc(self, targetList))
else:
log.warning(
"Not running the task because there is no data to process; "
'you may preview data using "--show data"')
if pool is not None:
pool.close()
pool.join()
return resultList
def runCrosstalkAlone(self):
"""Utility for crosstalk correction directly on a DECam MEF file.
"""
log = lsst.log.Log.getLogger('obs.decam.DecamCrosstalkIO')
parsed = self.parseCrosstalkIOArgs()
filename = parsed['filename']
outfile = parsed['outfile']
mef = fits.open(filename)
sources, coeffs = self.config.getSourcesAndCoeffs()
corrected = subtractCrosstalkIO(mef, sources, coeffs)
if outfile:
corrected.writeto(outfile, overwrite=True)
else:
log.warning(
'No outfile specified, not writing corrected image to disk')
def makeWcs(self, visitInfo, detector):
"""Create a SkyWcs from information about the exposure.
Overide the default which uses visit info
Return the metadata-based SkyWcs (always created, so that
the relevant metadata keywords are stripped).
Is geometry based WCS superior?
Parameters
----------
visitInfo : `~lsst.afw.image.VisitInfo`
The information about the telescope boresight and camera
orientation angle for this exposure.
detector : `~lsst.afw.cameraGeom.Detector`
The detector used to acquire this exposure.
Returns
-------
skyWcs : `~lsst.afw.geom.SkyWcs`
Reversible mapping from pixel coordinates to sky coordinates.
Raises
------
InitialSkyWcsError
Raised if there is an error generating the SkyWcs, chained from the
lower-level exception if available.
"""
#Setting this to True improves the WCS but is very slow due to downloading objs
useMetadataWcs=False
if not self.isOnSky():
# This is not an on-sky observation
return None
skyWcs = self._createSkyWcsFromMetadata()
if useMetadataWcs:
msg = "VIRCAM camera geom not used. Defaulting to metadata-based SkyWcs."
log.warning(msg)
if skyWcs is None:
raise InitialSkyWcsError("Failed to create both metadata and boresight-based SkyWcs."
"See warnings in log messages for details.")
return skyWcs
else:
return self.makeRawSkyWcsFromBoresight(visitInfo.getBoresightRaDec(),
visitInfo.getBoresightRotAngle(),
detector)
def testForwardToPythonContextManager(self):
"""Test that `lsst.log` log messages can be forwarded to `logging`
using context manager"""
log.configure()
# Without forwarding we only get python logger messages captured
with self.assertLogs(level="WARNING") as cm:
log.warning("lsst.log: not forwarded")
logging.warning("Python logging: captured")
self.assertEqual(len(cm.output), 1)
# Temporarily turn on forwarding
with log.UsePythonLogging():
with self.assertLogs(level="WARNING") as cm:
log.warn("lsst.log: forwarded")
logging.warning("Python logging: also captured")
self.assertEqual(len(cm.output), 2)
# Verify that forwarding is disabled
self.assertFalse(log.Log.UsePythonLogging)
def testForwardToPythonContextManager(self):
"""Test that `lsst.log` log messages can be forwarded to `logging`
using context manager"""
log.configure()
# Without forwarding we only get python logger messages captured
with self.assertLogs(level="WARNING") as cm:
log.warning("lsst.log: not forwarded")
logging.warning("Python logging: captured")
self.assertEqual(len(cm.output), 1)
# Temporarily turn on forwarding
with log.UsePythonLogging():
with self.assertLogs(level="WARNING") as cm:
log.warn("lsst.log: forwarded")
logging.warning("Python logging: also captured")
self.assertEqual(len(cm.output), 2)
# Verify that forwarding is disabled
self.assertFalse(log.Log.UsePythonLogging)
def testBasic(self):
"""
Test basic log output with default configuration.
Since the default threshold is INFO, the DEBUG or TRACE
message is not emitted.
"""
with TestLog.StdoutCapture(self.outputFilename):
log.configure()
log.log(log.getDefaultLogger(), log.INFO, "This is INFO")
log.info(u"This is unicode INFO")
log.trace("This is TRACE")
log.debug("This is DEBUG")
log.warn("This is WARN")
log.error("This is ERROR")
log.fatal("This is FATAL")
log.warning("Format %d %g %s", 3, 2.71828, "foo")
self.check("""
root INFO: This is INFO
root INFO: This is unicode INFO
root WARN: This is WARN
root ERROR: This is ERROR
root FATAL: This is FATAL
root WARN: Format 3 2.71828 foo
""")