def uploadnii(server,token,nii_path,subject_id) :
# subject_id may be none : in this case, succeed only if nii already in database
common.lout('Asked to upload nii with path '+nii_path+' and parent '+str(subject_id) +'\n')
if not common.determine_file_type(nii_path)=='nii' :
raise Exception('Invalid nii path '+nii_path+' given')
niihashvalue=niihash(nii_path)
nii_parsed_xml=checkniiexistence(server,token,niihashvalue)
if not nii_parsed_xml is None :
common.lout('nii with path '+nii_path+' in database, not uploading')
return nii_parsed_xml
else :
common.lout('nii with path '+nii_path+' not in database, uploading')
try :
tmpdname=tempfile.mkdtemp()
zipfilename=os.sep.join([tmpdname,'nii.zip'])
zfile=zipnii(nii_path,zipfilename)
niidoc=niidocument(nii_path,subject_id,zfile.filename)
client=poauth.OAuthClient(token)
response=client.post(server+'/object.xml',
data={'object':niidoc.toxml()},
files={'file': open(zfile.filename,'rb')} )
return common.parse_xml_from_server(response.text)
finally:
shutil.rmtree(tmpdname,ignore_errors=True)
def upload_image_from_path(server,token,image_path,subject_id=None) :
"""path may be dicom, nii, or other type of path. If it is DICOM and no
subject is specified, infer subject"""
obj_xml=None
if os.path.isfile(image_path) :
# special case each supported image type
ft=common.determine_file_type(image_path)
if ft == 'nii' :
obj_xml=niiobject.uploadnii(server,token,image_path,parent_id=subject_id)
else :
print 'Warning : cannot upload image ' + image_path
if os.path.isdir(image_path) :
if isvaliddicom(image_path) :
if not subject_id is None :
print 'Warning : subject_id passed when using upload_image_from_path with DICOM image'
obj_xml=uploaddicom(server,token,image_path)
return obj_xml
