def _checkOutputs(self, outputs, random=False, errorthreshold=0.001):
""" Check that all output files are produced
and are equivalent to the ones in goldStandard folder.
"""
for out in outputs:
outFile = os.path.join(self._testDir, self.outputDir, out)
fileGoldStd = os.path.join(self.goldDir, out)
# Check the expect output file was produced
msg = "Missing expected output file:\n output: %s" % outFile
self.assertTrue(os.path.exists(outFile), msg)
if random:
print "WARNING: %s was created using a random seed, check skipped\n " % outFile
else:
fnGoldStd = xmipp.FileName(fileGoldStd)
if fnGoldStd.isImage():
im1 = xmipp.Image(fileGoldStd)
im2 = xmipp.Image(outFile)
msg = "Images are not equal (+-%f):\n output: %s\n gold: %s" % \
(errorthreshold, outFile, fileGoldStd)
self.assertTrue(im1.equal(im2, errorthreshold), msg)
elif fnGoldStd.isMetaData():
msg = "MetaDatas are not equal:\n output: %s\n gold: %s" % (
outFile, fileGoldStd)
self.assertTrue(
xmipp.compareTwoMetadataFiles(outFile, fileGoldStd),
msg)
else:
msg = "Files are not equal:\n output: %s\n gold: %s" % (
outFile, fileGoldStd)
self.assertTrue(
xmipp.compareTwoFiles(outFile, fileGoldStd, 0), msg)
def checkResult(self, testfiles, outDir, random):
error = ""
try:
from xmipp import FileName, Image, compareTwoFiles, compareTwoMetadataFiles
for file in testfiles:
file = join(outDir, file)
fileGoldStd = file.replace(self.fnDir, 'goldStandard')
result = True
if not exists(file):
error += file + " was NOT produced\n"
else:
if (random):
self.warning += file + " was created using a random seed, check skipped\n"
self.warningFlag = True
else:
fnGoldStd = FileName(fileGoldStd)
if fnGoldStd.isImage():
im1 = Image(fileGoldStd)
im2 = Image(file)
result = im1.equal(im2, 0.001)
elif fnGoldStd.isMetaData():
result = compareTwoMetadataFiles(file, fileGoldStd)
else:
result = compareTwoFiles(file, fileGoldStd, 0)
if not result:
error += " file '%s' and '%s' are NOT identical\n" % (file, fileGoldStd)
except KeyboardInterrupt:
raise
except Exception, ex:
error += " Error checking results: '%s'\n" % str(ex)
def checkResult(self, testfiles, outDir, random):
error = ""
try:
from xmipp import FileName, Image, compareTwoFiles, compareTwoMetadataFiles
for file in testfiles:
file = join(outDir, file)
fileGoldStd = file.replace(self.fnDir, 'goldStandard')
result = True
if not exists(file):
error += file + " was NOT produced\n"
else:
if (random):
self.warning += file + " was created using a random seed, check skipped\n"
self.warningFlag = True
else:
fnGoldStd = FileName(fileGoldStd)
if fnGoldStd.isImage():
im1 = Image(fileGoldStd)
im2 = Image(file)
result = im1.equal(im2, 0.001)
elif fnGoldStd.isMetaData():
result = compareTwoMetadataFiles(file, fileGoldStd)
else:
result = compareTwoFiles(file, fileGoldStd, 0)
if not result:
error += " file '%s' and '%s' are NOT identical\n" % (
file, fileGoldStd)
except KeyboardInterrupt:
raise
except Exception, ex:
error += " Error checking results: '%s'\n" % str(ex)
def _checkOutputs(self, outputs, random=False):
""" Check that all output files are produced
and are equivalent to the ones in goldStandard folder.
"""
for out in outputs:
outFile = os.path.join(self._testDir, self.outputDir, out)
fileGoldStd = os.path.join(self.goldDir, out)
# Check the expect output file was produced
msg = "Missing expected output file:\n output: %s" % outFile
self.assertTrue(os.path.exists(outFile), msg)
if random:
print "WARNING: %s was created using a random seed, check skipped\n " % outFile
else:
fnGoldStd = xmipp.FileName(fileGoldStd)
if fnGoldStd.isImage():
im1 = xmipp.Image(fileGoldStd)
im2 = xmipp.Image(outFile)
msg = "Images are not equal:\n output: %s\n gold: %s" % (outFile, fileGoldStd)
self.assertTrue(im1.equal(im2, 0.001), msg)
elif fnGoldStd.isMetaData():
msg = "MetaDatas are not equal:\n output: %s\n gold: %s" % (outFile, fileGoldStd)
self.assertTrue(xmipp.compareTwoMetadataFiles(outFile, fileGoldStd), msg)
else:
msg = "Files are not equal:\n output: %s\n gold: %s" % (outFile, fileGoldStd)
self.assertTrue(xmipp.compareTwoFiles(outFile, fileGoldStd, 0), msg)
