def _validateImages(self):
errors = []
ih = ImageHandler()
for imgFn, _ in self.iterFiles():
if isdir(imgFn):
errors.append("Folders can not be selected.")
errors.append(' %s' % imgFn)
else:
# Check if images are correct by reading the header of the
# imported files:
# Exceptions:
# - Compressed movies (bz2 or tbz extensions)
# - Importing in streaming, since files may be incomplete
# - Bad characters in path [':' ,'%', '#']
if (not self.dataStreaming and
not (imgFn.endswith('bz2') or imgFn.endswith('tbz') or
imgFn.endswith('eer') or ih.isImageFile(imgFn))):
if not errors: # if empty add the first line
errors.append("Error reading the following images:")
errors.append(' %s' % imgFn)
errors += ProtImportImages.validatePath(imgFn)
break # validate just first image
return errors
def _validate(self):
ci = self.getImportClass()
if ci is None:
errors = ProtImportMicBase._validate(self)
for micFn, _ in self.iterFiles():
imgh = ImageHandler()
if imgh.isImageFile(micFn):
_, _, z, n = imgh.getDimensions(micFn)
if n > 1 or z > 1:
errors.append("The protocol not support micrographs "
"stored in stacks. If you want to "
"obtain your micrographs individually, "
"you can run the following command:\n"
"scipion run scipion_directory/scripts/"
"split_stacks.py --files *your files* "
"--ext *extension*")
# JMRT: only check the first image, for large dataset
# even reading the header can take a while
break
return errors
else:
return ci.validateMicrographs()