comparison snippy_core_wrapper.py @ 15:bf6dbc4d4957 draft

planemo upload for repository https://github.com/tseemann/snippy commit 93b22331ca83a82fdfbe8f2b274577e21f9bf025-dirty

14:b102aece6b65

    parser.add_argument('-i', '--indirs', help='Comma-separated list of input datasets')
    args = parser.parse_args()

    snippy_core_command_line = ['snippy-core', '--ref', args.ref]

    for indir in args.indirs.split(','):
        base_name = os.path.basename(indir)
        copyfile(indir, base_name)
        subprocess.Popen(['tar', '-xf', base_name])

    extracted_dirs = [f for f in os.listdir('.') if os.path.isdir(f) ]

    for extracted_dir in extracted_dirs:

15:bf6dbc4d4957

    parser.add_argument('-i', '--indirs', help='Comma-separated list of input datasets')
    args = parser.parse_args()

    snippy_core_command_line = ['snippy-core', '--ref', args.ref]

    for input_datasets in args.input_datasets.split(','):
        base_name = os.path.basename(indir)
        copyfile(indir, '.')
        subprocess.Popen(['tar', '-xf', base_name])

    extracted_dirs = [f for f in os.listdir('.') if os.path.isdir(f) ]

    for extracted_dir in extracted_dirs: