def __processRecord(self, record, container=None):
# Unlike property names, enforcing global ids for class types.
#
# Note - .title() turns PATIENT to Patient. Same is applied in .label
# of fileInfo but iffy as each doing it independently.
typeId = FileManInfo.normalizeLabel(record.fileTypeLabel.title(), False) + "-" + record.fileType
# crecords
if container != None:
if self.__idTypeCNodes: # can decide NOT to type/id cnodes
resource = OrderedDict([("id", record.id), ("type", typeId)])
else:
resource = OrderedDict()
container.append(resource)
# NOTE: for JLD - could do @list to indicate order but decided not to
else:
resource = OrderedDict([("_id" if self.__useMongoResourceId else "id", record.id), ("type", typeId)])
resource["label"] = record.label # only tops get label (may remove)
self.__json.append(resource)
# can't use generic record iterator as it separates simple and contained fields
for field in record.fields():
qpred = self.__qpred(field, record)
fieldInfo = record.fieldInfo(field)
if fieldInfo[1] != "cnodes": # TODO: encapsulate
fv = self.__processFieldValue(qpred, record[field])
# if invalid - skipping (None explicit as value could be <false>)
if fv != None:
resource[qpred] = fv
continue
# Won't be bothered by CSTOPs!
completeCRecords = [crecord for crecord in record[field] if crecord.isComplete]
if not len(completeCRecords):
continue
list = []
resource[qpred] = list
for crecord in completeCRecords:
# Apply Singleton Multiple Map
cRecordTypeId = (
FileManInfo.normalizeLabel(crecord.fileTypeLabel.title(), False) + "-" + crecord.fileType
)
if cRecordTypeId in self.__listMultiples:
# Instead of implicit: record.isSimpleList(field):
# get one and only field name - usually matches field itself but
# not always ex/ CHCS 100251_1 has "lab_tests" with "lab_test"
ccfield = crecord.fields()[0]
cfv = self.__processFieldValue(qpred, crecord[ccfield])
if cfv:
list.append(cfv)
continue
self.__processRecord(crecord, list)
def calculatePropertyId():
"""
Property name is unique in the file, lowercase
normalized (for JSON-LD etc) and in the context of the file
(ie/ not unique across all files so must suffix with fileId)
Note: only the quote and the equal sign are excluded, so anything, except " and = are acceptable BUT other schemes are stricter.
"""
if self.__fieldInfo.isNLabelOwner: # Not just name owner but normalized name owner
return FileManInfo.normalizeLabel(self.__fieldInfo.label) + "-" + self.__fieldInfo.fileId
# Not owner so must add the fieldId as well as the fileId to the name!
return FileManInfo.normalizeLabel(self.__fieldInfo.label) + "-" + self.__fieldInfo.id
def calculatePropertyId():
"""
Property name is unique in the file, lowercase
normalized (for JSON-LD etc) and in the context of the file
(ie/ not unique across all files so must suffix with fileId)
Note: only the quote and the equal sign are excluded, so anything, except " and = are acceptable BUT other schemes are stricter.
"""
if self.__fieldInfo.isNLabelOwner: # Not just name owner but normalized name owner
return FileManInfo.normalizeLabel(
self.__fieldInfo.label) + "-" + self.__fieldInfo.fileId
# Not owner so must add the fieldId as well as the fileId to the name!
return FileManInfo.normalizeLabel(
self.__fieldInfo.label) + "-" + self.__fieldInfo.id
def loadFileManInfoFromCache(cacheLocation, name, fmType, description=""):
# TODO: change to get name etc from about
fis = []
for replyFile in os.listdir(cacheLocation):
if not re.search(r'SCHEMA\_', replyFile):
continue
reply = json.loads(open(cacheLocation + replyFile).read())
fi = FileInfo(reply, fmType)
fis.append(fi)
fileManInfo = FileManInfo(fis, name, fmType, description)
if fileManInfo.size == 0:
raise Exception("No schemas in cache - exiting")
return fileManInfo
def id(self):
"""
ClassId, by default, is <upper case label - fileId>
This and label can be reset in order to make cleaner models
"""
try:
return self.__explicitId
except:
"""
Represents a Class or Type id for JSON serialization. FMQL JSON is based on these
ids.
Patient/2 -> Patient-2 ie/ upper case unlike field names -> property names
"""
return FileManInfo.normalizeLabel(self.__fileInfo.label, False) + "-" + self.__fileInfo.id
def id(self):
"""
ClassId, by default, is <upper case label - fileId>
This and label can be reset in order to make cleaner models
"""
try:
return self.__explicitId
except:
"""
Represents a Class or Type id for JSON serialization. FMQL JSON is based on these
ids.
Patient/2 -> Patient-2 ie/ upper case unlike field names -> property names
"""
return FileManInfo.normalizeLabel(self.__fileInfo.label,
False) + "-" + self.__fileInfo.id