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comparison data_manager/data_manager_snpEff_databases.py @ 2:6ad9205c1307

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Update to SnpEff version 3.3
author Jim Johnson <jj@umn.edu>
date Fri, 04 Oct 2013 09:09:29 -0500
parents e1d9f6a0ad53
children eb394dd65c98
comparison
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1:bea875f081e8 2:6ad9205c1307
44 fields = line.split('\t') 44 fields = line.split('\t')
45 if len(fields) >= 2: 45 if len(fields) >= 2:
46 genome_version = fields[0].strip() 46 genome_version = fields[0].strip()
47 if genome_version.startswith("Genome") or genome_version.startswith("-"): 47 if genome_version.startswith("Genome") or genome_version.startswith("-"):
48 continue 48 continue
49 description = fields[1].strip() 49 description = fields[1].strip() + ' : ' + genome_version
50 data_table_entries.append(dict(value=genome_version, name=description)) 50 data_table_entries.append(dict(value=genome_version, name=description))
51 data_manager_dict['data_tables']['snpeff_databases'] = data_table_entries 51 data_manager_dict['data_tables']['snpeff_databases'] = data_table_entries
52 except Exception, e: 52 except Exception, e:
53 stop_err( 'Error parsing %s %s\n' % (config,str( e )) ) 53 stop_err( 'Error parsing %s %s\n' % (config,str( e )) )
54 else: 54 else: