def get_extended_sbol(db, part_id, rule = "RFC10"):
user_part = db.getUserPart(part_id)
print user_part
table = user_part["part_type"]
model_param = None
if table != "Coding":
model_param = db.select_with_name(table, user_part["Number"])
component = json.loads(user_part["parts"])
sys_comp = filter(lambda x: x[0:3] == "BBa", component)
sys_comp = [find_file(x+".xml", ".") for x in sys_comp]
content = union(rule, sys_comp)
print content
cnt = 0
offset = 0
intermediat = len(getattr(__import__("component_union"), rule).intermediat)
for i in xrange(len(component)):
if component[i][0:3] == "BBa":
content[cnt]["seq"]["bioStart"] += offset
content[cnt]["seq"]["bioEnd"] += offset
cnt += 1
else:
offset += len(component[i])
if i > 0:
offset += intermediat
header = extend(user_part, model_param)
print component
dna_sequence = get_new_part_sequence(component, rule)
sbol = formatter_v11(content, dna_sequence, header)
return sbol
def test(): rule = "RFC25" content = component_union.union(rule, sys.argv[1:]) # path = 'F:/igemgit/project/Python27/web/test/BBa_E1010.xml' # content = component_union.union(rule, path) dna_sequence = component_union.connect(rule, content) sbol = component_union.formatter_v11(content, dna_sequence) print sbol print sequence_serializer.format_to_json(sbol)
