Mercurial > repos > iuc > data_manager_snpeff
diff data_manager/data_manager_snpEff_download.py @ 7:a6400027d849 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_snpeff commit 9d2052269bfbca81a5f9cd10c3153e611358a329
author | iuc |
---|---|
date | Tue, 24 Oct 2017 07:27:38 -0400 |
parents | 3d9dd4b9fb09 |
children | d107d20dc6bd |
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--- a/data_manager/data_manager_snpEff_download.py Tue Apr 18 12:56:13 2017 -0400 +++ b/data_manager/data_manager_snpEff_download.py Tue Oct 24 07:27:38 2017 -0400 @@ -93,8 +93,6 @@ sys.exit( return_code ) # search data_dir/genome_version for files regulation_pattern = 'regulation_(.+).bin' - # annotation files that are included in SnpEff by a flag - annotations_dict = {'nextProt.bin': '-nextprot', 'motif.bin': '-motif', 'interactions.bin': '-interaction'} genome_path = os.path.join(data_dir, genome_version) snpeff_version = getSnpeffVersion() key = snpeff_version + '_' + genome_version @@ -112,11 +110,6 @@ name = m.groups()[0] data_table_entry = dict(key=key, version=snpeff_version, genome=genome_version, value=name, name=name) _add_data_table_entry( data_manager_dict, 'snpeffv_regulationdb', data_table_entry ) - elif fname in annotations_dict: - value = annotations_dict[fname] - name = value.lstrip('-') - data_table_entry = dict(key=key, version=snpeff_version, genome=genome_version, value=value, name=name) - _add_data_table_entry( data_manager_dict, 'snpeffv_annotations', data_table_entry ) return data_manager_dict