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 get_atlas_xml():
# If > 100 atlases, we would need to get pagination pages here.
return get_json("http://neurovault.org/api/atlases/?format=json")["results"]
def get_cattell():
url = "https://raw.githubusercontent.com/vsoch/traits/master/data/json/cattell_personality_282.json"
return get_json(url)
def get_nif_json():
return get_json("http://matrix.neuinfo.org:9000/scigraph/graph/neighbors/NIFGA:birnlex_796?relationshipType=http://www.obofoundry.org/ro/ro.owl%23has_proper_part&direction=OUTGOING&depth=9")
