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get_go.py
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get_go.py
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from collections import defaultdict
accessions = []
valid_codes = ['EXP', 'IBA', 'IDA', 'IEP', 'IGC', 'IGI', 'IMP', 'IPI']
results = defaultdict(list)
with open('/scratch1/NOT_BACKED_UP/dbuchan/uniprot/'
'uniprot_trembl.dat') as uniprot:
# 'test.dat') as uniprot:
for line in uniprot:
line = line.rstrip()
if line.startswith("AC"):
accessions = line[5:].split("; ")
accessions = [s.strip(";") for s in accessions]
if line.startswith("DR GO;"):
entries = line[9:].split("; ")
code = entries[2].split(":")
# print(accessions)
# print(line)
if code[0] in valid_codes:
for accession in accessions:
results[accession].append(",".join([accession, entries[0], code[0]]))
for accession in results:
for line in results[accession]:
print(line)