comparison qualimap_bamqc.py @ 38:6b6e03e84a42 draft

planemo upload for repository https://github.com/scottx611x/qualimap2 commit dc78b7c4b1780b316ca4aba2be247969ac1100ec-dirty

37:407b6a65c867

    parser.add_argument('--out_genome_file')
    parser.add_argument('--out_dir')
    parser.add_argument('--java_mem_size')

    args = parser.parse_args()

    output_dir = os.path.dirname(args.out_genome_file)

    qualimap_bamqc(
        args.input_file,

        'zip',
        args.out_dir + '/raw_data_qualimapReport'
    )

    [
        shutil.move(os.path.join(output_dir, file_name), file_name)
        for file_name in [
            "genome_results.txt",
            "qualimapReport.html",
            "raw_data_qualimapReport.zip"
        ]

38:6b6e03e84a42

    parser.add_argument('--out_genome_file')
    parser.add_argument('--out_dir')
    parser.add_argument('--java_mem_size')

    args = parser.parse_args()
    print(args)

    output_dir = os.path.dirname(args.out_genome_file)

    qualimap_bamqc(
        args.input_file,

        'zip',
        args.out_dir + '/raw_data_qualimapReport'
    )

    [
        shutil.move(file_name, os.path.join(output_dir, file_name))
        for file_name in [
            "genome_results.txt",
            "qualimapReport.html",
            "raw_data_qualimapReport.zip"
        ]