def getTechMDXmlDataForParameterSets(self,
experiment,
parameterSets,
type="experiment"):
_xmlData = xmlData()
paramObj = ExperimentParameter
if type == "experiment":
elementName = "experiment"
paramObj = ExperimentParameter
elif type == "dataset":
elementName = "dataset"
paramObj = DatasetParameter
else:
elementName = "datafile"
paramObj = DatafileParameter
for parameterSet in parameterSets:
parameters = paramObj.objects.filter(
parameterset=parameterSet).select_related('name')
metadataDict = {}
for parameter in parameters:
# print parameter.name
if parameter.name.data_type is ParameterName.NUMERIC:
store_metadata_value(
metadataDict, parameter.name.name,
str(parameter.numerical_value) or 'None')
elif parameter.name.data_type is ParameterName.FILENAME and \
parameter.name.units.startswith('image') and \
self.export_images == True:
# encode image as b64
file_path = abspath(
join(experiment.get_or_create_directory(),
parameter.string_value))
try:
store_metadata_value(metadataDict, parameter.name.name,
b64encode(open(file_path).read()))
except:
logger.exception('b64encoding failed: %s' % file_path)
else:
try:
store_metadata_value(
metadataDict, parameter.name.name,
parameter.string_value.strip() or 'None')
except AttributeError:
store_metadata_value(metadataDict, parameter.name.name,
'None')
_xmlData.add_xsdAny_(
self.createXmlDataContentForParameterSets(
elementName=elementName,
schemaURI=parameterSet.schema.namespace,
metadataDict=metadataDict))
return _xmlData
def getTechMDXmlDataForParameterSets(self, experiment, parameterSets, type="experiment"):
_xmlData = xmlData()
paramObj = ExperimentParameter
if type == "experiment":
elementName = "experiment"
paramObj = ExperimentParameter
elif type == "dataset":
elementName = "dataset"
paramObj = DatasetParameter
else:
elementName = "datafile"
paramObj = DatafileParameter
for parameterSet in parameterSets:
parameters = paramObj.objects.filter(parameterset=parameterSet).select_related('name')
metadataDict = {}
for parameter in parameters:
# print parameter.name
if parameter.name.data_type is ParameterName.NUMERIC:
store_metadata_value(metadataDict, parameter.name.name,
str(parameter.numerical_value) or 'None')
elif parameter.name.data_type is ParameterName.FILENAME and \
parameter.name.units.startswith('image') and \
self.export_images == True:
# encode image as b64
file_path = abspath(join(experiment.get_or_create_directory(), parameter.string_value))
try:
store_metadata_value(metadataDict, parameter.name.name,
b64encode(open(file_path).read()))
except:
logger.exception('b64encoding failed: %s' % file_path)
else:
try:
store_metadata_value(metadataDict, parameter.name.name,
parameter.string_value.strip() or 'None')
except AttributeError:
store_metadata_value(metadataDict, parameter.name.name, 'None')
_xmlData.add_xsdAny_(self.createXmlDataContentForParameterSets(
elementName=elementName,
schemaURI=parameterSet.schema.namespace,
metadataDict=metadataDict))
return _xmlData
def characters(self, chars):
if self.processExperimentStruct:
# handle the different experiment fields
if self.grabTitle:
self.metsObject.title = chars
elif self.grabExperimentUrl:
self.metsObject.url = chars
elif self.grabAbstract:
self.metsObject.description += chars
elif self.grabMightBeAuthor:
self.mightBeAuthor = chars
elif self.grabStartTime:
self.metsObject.start_time = chars
elif self.grabEndTime:
self.metsObject.end_time = chars
# if it's really an author, add the mightBeAuthor into the
# experiment's author list
elif self.grabRoleTerm and chars == 'author':
self.metsObject.authors.append(self.mightBeAuthor)
elif self.grabInstitution:
self.institution = chars
elif self.processDatasetStruct:
if self.grabTitle:
self.metsObject.title = chars
elif self.customHandler is not None:
self.customHandler.characters(chars)
elif chars.strip() != '' and self.parameterName is not None and \
self.processMetadata:
# save the parameter values in the temporary metadata dictionary
store_metadata_value(self.tempMetadataHolder,
self.parameterName, chars)
def characters(self, chars):
if self.processExperimentStruct:
# handle the different experiment fields
if self.grabTitle:
self.metsObject.title = chars
elif self.grabExperimentUrl:
self.metsObject.url = chars
elif self.grabAbstract:
self.metsObject.description += chars
elif self.grabMightBeAuthor:
self.mightBeAuthor = chars
elif self.grabStartTime:
self.metsObject.start_time = chars
elif self.grabEndTime:
self.metsObject.end_time = chars
# if it's really an author, add the mightBeAuthor into the
# experiment's author list
elif self.grabRoleTerm and chars == 'author':
self.metsObject.authors.append(self.mightBeAuthor)
elif self.grabInstitution:
self.institution = chars
elif self.processDatasetStruct:
if self.grabTitle:
self.metsObject.title = chars
elif self.customHandler is not None:
self.customHandler.characters(chars)
elif chars.strip() != '' and self.parameterName is not None and \
self.processMetadata:
# save the parameter values in the temporary metadata dictionary
store_metadata_value(self.tempMetadataHolder,
self.parameterName, chars)
