def loadStudyEvents(self):
"""Extract a list of Study Event domain objects according to ODM from metadata XML
"""
studyEvents = []
# Check if file path is setup
if self.isFileLoaded:
documentTree = ET.ElementTree(file=self.filename)
# First obtain list of references (OIDs) to study events defined in ODM -> Study -> MetaDataVersion -> Protocol
studyEventRefs = []
for studyEventRef in documentTree.iterfind('.//odm:StudyEventRef', namespaces=nsmaps):
studyEventRefs.append(studyEventRef.attrib['StudyEventOID'])
# In case I need this information later
# print studyEventRef.attrib['Mandatory']
# print studyEventRef.attrib['OrderNumber']
# Now for each study event reference find study event definition
for eventRef in studyEventRefs:
for element in documentTree.iterfind('.//odm:StudyEventDef[@OID="' + eventRef + '"]', namespaces=nsmaps):
studyEvent = StudyEventDefinition()
studyEvent.setOid(element.attrib['OID'])
studyEvent.setName(element.attrib['Name'])
studyEvent.setRepeating(element.attrib['Repeating'])
studyEvent.setType(element.attrib['Type'])
studyEvents.append(studyEvent)
# Return resulting study event defintion elements
return studyEvents
def loadStudyEvents(self):
"""Extract a list of Study Event domain objects according to ODM from metadata XML
"""
studyEvents = []
# Check if file path is setup
if (self.isFileLoaded):
documentTree = ET.ElementTree(file=self.filename)
# First obtain list of references (OIDs) to study events defined in ODM -> Study -> MetaDataVersion -> Protocol
studyEventRefs = []
for studyEventRef in documentTree.iterfind('.//odm:StudyEventRef', namespaces=nsmaps):
studyEventRefs.append(studyEventRef.attrib['StudyEventOID'])
# # In case I need this information later
# print studyEventRef.attrib['Mandatory']
# print studyEventRef.attrib['OrderNumber']
# Now for each study event reference find study event definition
for eventRef in studyEventRefs:
for element in documentTree.iterfind('.//odm:StudyEventDef[@OID="' + eventRef + '"]', namespaces=nsmaps):
studyEvent = StudyEventDefinition()
studyEvent.setOid(element.attrib['OID'])
studyEvent.setName(element.attrib['Name'])
studyEvent.setRepeating(element.attrib['Repeating'])
studyEvent.setType(element.attrib['Type'])
studyEvents.append(studyEvent)
# Return resulting study event defintion elements
return studyEvents
def loadEventsFromMetadata(self, metadata):
"""Extract a list of Study Event domain objects according to ODM from metadata XML
"""
studyEvents = []
# Check if file path is setup
if (metadata):
documentTree = ET.ElementTree((ET.fromstring(str(metadata))))
# First obtain list of references (OIDs) to study events defined in ODM -> Study -> MetaDataVersion -> Protocol
studyEventRefs = []
for studyEventRef in documentTree.iterfind('.//odm:StudyEventRef', namespaces=nsmaps):
studyEventRefs.append(studyEventRef.attrib['StudyEventOID'])
# # In case I need this information later
# print studyEventRef.attrib['Mandatory']
# print studyEventRef.attrib['OrderNumber']
# Now for each study event reference find study event definition
for eventRef in studyEventRefs:
for element in documentTree.iterfind('.//odm:StudyEventDef[@OID="' + eventRef + '"]', namespaces=nsmaps):
studyEvent = StudyEventDefinition()
studyEvent.setOid(element.attrib['OID'])
studyEvent.setName(element.attrib['Name'])
studyEvent.setRepeating(element.attrib['Repeating'] == "Yes")
studyEvent.setType(element.attrib['Type'])
for eventElement in element:
if (str(eventElement.tag)).strip() == "{http://www.openclinica.org/ns/odm_ext_v130/v3.1}EventDefinitionDetails":
for detailsElement in eventElement:
if (str(detailsElement.tag)).strip() == "{http://www.openclinica.org/ns/odm_ext_v130/v3.1}Description":
studyEvent.description = detailsElement.text
elif (str(detailsElement.tag)).strip() == "{http://www.openclinica.org/ns/odm_ext_v130/v3.1}Category":
studyEvent.category = detailsElement.text
studyEvents.append(studyEvent)
# Return resulting study event defintion elements
return studyEvents