comparison data_manager/bwameth_index_builder.py @ 3:d1c0b1f0c67e draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/data_managers/data_manager_bwameth_index_builder commit 8b77954efb8d46dfb3bec5421819076f3757ad06"

2:0beac6016b41

    os.symlink(os.path.abspath(args.fasta_filename), sym_linked_fasta_filename)
    cmd = ['bwameth.py', 'index', sym_linked_fasta_filename]
    proc = subprocess.Popen(args=cmd, shell=False, cwd=target_directory)
    return_code = proc.wait()
    if return_code:
        print >> sys.stderr, "Error building index."
        sys.exit( return_code )
    data_table_entry = dict(value=args.dbkey, dbkey=args.dbkey, name=args.name, path=sym_linked_fasta_filename)
    _add_data_table_entry(data_manager_dict, data_table_name, data_table_entry)

3:d1c0b1f0c67e

    os.symlink(os.path.abspath(args.fasta_filename), sym_linked_fasta_filename)
    cmd = ['bwameth.py', 'index', sym_linked_fasta_filename]
    proc = subprocess.Popen(args=cmd, shell=False, cwd=target_directory)
    return_code = proc.wait()
    if return_code:
        print("Error building index.", file=sys.stderr)
        sys.exit( return_code )
    data_table_entry = dict(value=args.dbkey, dbkey=args.dbkey, name=args.name, path=sym_linked_fasta_filename)
    _add_data_table_entry(data_manager_dict, data_table_name, data_table_entry)