INNER CODE UNIT · Python

run

MariaNattestad/assemblytics · assemblytics/cli.py:62

def run(args):
    delta = args.delta
    output_dir = args.output_dir
    unique_length = args.unique_length
    minimum_size = args.minimum_size
    maximum_size = args.maximum_size
    long_range = getattr(args, "long_range", False)

    print("Input delta file:", delta)
    print("Output directory:", output_dir)
    print("Unique anchor length:", unique_length)
    print("Minimum variant size to call:", minimum_size)
    print("Maximum variant size to call:", maximum_size)

    os.makedirs(output_dir, exist_ok=True)

    log_file = os.path.join(output_dir, "assemblytics_progress.log")
    print("Logging progress updates in", log_file)

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