diff data_manager/rnastar_index_builder.py @ 9:ccb7ce1ad9b3 draft

planemo upload for repository https://github.com/pvanheus/data_manager_rnastar_index_builder commit fbd0bba2d1b19756849695e02e17d86076ca74a1

--- a/data_manager/rnastar_index_builder.py	Thu Feb 11 06:56:21 2016 -0500
+++ b/data_manager/rnastar_index_builder.py	Fri Feb 12 03:30:43 2016 -0500
@@ -56,12 +56,13 @@
 parser.add_argument('--fasta_filename')
 parser.add_argument('--fasta_dbkey')
 parser.add_argument('--fasta_description', default=None)
-parser.add_argument('--data_table_name', default='rnastar_index')
+parser.add_argument('--data_table_name', default='rnastar_indexes')
 args = parser.parse_args()
 
 filename = args.output_filename
 
 params = load(open(filename, 'rb'))
+print(params)
 output_directory = params[ 'output_data' ][0]['extra_files_path']
 makedirs( output_directory )
 data_manager_dict = {}
@@ -70,6 +71,5 @@
 (sequence_id, sequence_name) = get_id_name(params, args.fasta_dbkey, args.fasta_description)
 data_table_entry = dict(value=sequence_id, dbkey=args.fasta_dbkey, name=sequence_name, path=output_directory)
 
-#dt_tables = {args.data_table_name : [data_table_entry]}
 output_datatable_dict = dict(data_tables={args.data_table_name : [data_table_entry]})
-open( filename, 'wb' ).write( dumps( output_datatable_dict ) )
\ No newline at end of file
+open( filename, 'wb' ).write( dumps( output_datatable_dict ) )