| Previous changeset 10:1b0547d3c7bc (2016-03-29) Next changeset 12:3e1b66d58f94 (2016-04-12) |
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Commit message:
Uploaded |
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modified:
SAINT_preprocessing.py |
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| diff -r 1b0547d3c7bc -r b688d0dae86b SAINT_preprocessing.py --- a/SAINT_preprocessing.py Tue Mar 29 14:46:04 2016 -0400 +++ b/SAINT_preprocessing.py Tue Apr 12 12:54:38 2016 -0400 |
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| @@ -25,6 +25,7 @@ import sys import os.path +import re infile = sys.argv[1] @@ -197,8 +198,10 @@ for Scaffold_line in data: Scaffold_line[4] = Scaffold_line[4].split()[0] # Removes the (+##) that sometimes is attached. - for protein in data: - proteins.append(protein[prot_start]) + uniprot_re = re.compile("[OPQ][0-9][A-Z0-9]{3}[0-9]|[A-NR-Z][0-9]([A-Z][A-Z0-9]{2}[0-9]){1,2}") + for protein in data: + prot_id = uniprot_re.match(protein[prot_start]) + proteins.append(prot_id.group()) return ReturnValue2(data, proteins, header) |