Mercurial > repos > jjohnson > snpeff
diff data_manager/data_manager_snpEff_databases.py @ 6:eb394dd65c98
Add mutli-select to data managers from Bjoern, filter unique database options in snpEff_download.xml snpEff.xml
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Thu, 28 Nov 2013 08:16:11 -0600 |
| parents | 6ad9205c1307 |
| children |
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--- a/data_manager/data_manager_snpEff_databases.py Wed Nov 27 09:11:32 2013 -0600 +++ b/data_manager/data_manager_snpEff_databases.py Thu Nov 28 08:16:11 2013 -0600 @@ -44,11 +44,14 @@ fields = line.split('\t') if len(fields) >= 2: genome_version = fields[0].strip() - if genome_version.startswith("Genome") or genome_version.startswith("-"): + if genome_version.startswith("Genome") or genome_version.startswith("-"): + continue + #snpeff test genome + if genome_version == '30c2c903' or fields[1].strip() == 'TestCase' or fields[1].strip().startswith('Test_'): continue description = fields[1].strip() + ' : ' + genome_version data_table_entries.append(dict(value=genome_version, name=description)) - data_manager_dict['data_tables']['snpeff_databases'] = data_table_entries + data_manager_dict['data_tables']['snpeff_databases'] = data_table_entries except Exception, e: stop_err( 'Error parsing %s %s\n' % (config,str( e )) ) else: