'path': '/repos/drosophila-anatomy-developmental-ontology/fbbt/releases/fbbt-simple.owl'
},
'fb_feature' :
{ 'url' : 'http://purl.obolibrary.org/obo/fbbt/vfb/fb_features.owl',
'path' : '/repos/VFB_owl/src/owl/fb_features.owl'
}
}
## Switch to owl_pdm_tools to deal with obsoletes?
for k, v in onts_2_learn.items():
b.learn(v[sys.argv[1]])
# Get all classes
sc = b.getSubClasses('Thing', 0)
# set constraints
# Add nodes
statements = []
for c in sc:
label = ''
try:
label = b.getLabel(c)
label = re.sub("'", "\\'", label)
except:
pass
is_obsolete = False
try:
#!/usr/bin/env jython
import json
from uk.ac.ebi.brain.core import Brain
import sys
"""Takes a list of ontology URIs as args, writes a JSON lookup of ID:name."""
out = {}
for path in sys.argv[1:]:
entities = []
o = Brain()
o.learn(path)
entities.extend(list(o.getSubClasses('Thing', 0)))
entities.extend(list(o.getInstances('Thing', 0)))
for e in entities:
# Need check for if label exists. Should be able to do that by iterating over all annotations on class to check. Will slow things down a lot...
out[e] = o.getLabel(e)
o.sleep()
OUT = open('id_name.json', 'w')
OUT.write(json.dumps(out))
from uk.ac.ebi.brain.core import Brain
import json
all_ont = Brain()
all_ont.learn = ("") # fbbi
all_ont.learn = ("") # fbbt
all_ont.learn = ("") # fbdv
classlist = all_ont.getSubClasses("Thing", 0)
id_name = {}
for c in classlist:
id_name[c] = all_ont.getLabel(c)
lookup = open("lookup", "w")
lookup.write(json.dump(id_name))
