Mercurial > repos > iuc > ivar_variants
view sanitize_bed.py @ 17:abbc8041e8ec draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ivar/ commit 32fbe8a14173afe0b39f1483afaba958dc6cd027
author | iuc |
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date | Fri, 21 Jun 2024 15:20:59 +0000 |
parents | 584beffa972b |
children |
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#!/usr/bin/env python import sys with open(sys.argv[1]) as i: bed_data = i.readlines() sanitized_data = [] try: for record in bed_data: if record.strip(): fields = record.split('\t') sanitized_data.append( '\t'.join(fields[:4] + ['60'] + fields[5:]) ) except IndexError: pass # leave column number issue to getmasked else: with open(sys.argv[1], 'w') as o: o.writelines(sanitized_data)