def extract_terms(output_dir):
if has_internet_connectivity():
terms = dict()
atlases = get_json("http://neurovault.org/api/atlases/?format=json")
for atlas in atlases:
label_description_file = "http://neurovault.org/media/images/291/Talairach-labels-2mm.xml"
print "Parsing %s" %(label_description_file)
xml_dict = read_xml_url(label_description_file)
atlas_name = xml_dict["atlas"]["header"]["name"]
atlas_name_label = atlas_name.replace(" ","_").lower()
atlas_labels = xml_dict["atlas"]["data"]["label"]
for l in range(len(atlas_labels)):
label = atlas_labels[l]
# We will use coordinate for unique ID
unique_id = "%s_%s" %(atlas_name_label,l)
terms[unique_id] = {"name":label["#text"],
"x":label["@x"],
"y":label["@y"],
"z":label["@z"]}
save_terms(terms,output_dir=output_dir)
else:
print "Cannot define fsl atlas terms, no internet connectivity."
def extract_terms(output_dir):
if has_internet_connectivity():
terms = get_terms()
save_terms(terms,output_dir=output_dir)
else:
print "Cannot define fma-nif region terms, no internet connectivity."
def extract_relations(output_dir):
if has_internet_connectivity():
tuples = []
terms = get_terms()
relations = get_nif_json()
for relation in relations["edges"]:
tup = (relation["obj"],relation["sub"],relation["pred"])
tuples.append(tup)
save_relations(terms,output_dir=output_dir,relationships=tuples)
else:
print "Cannot define fma-nif relationships, no internet connectivity."
