__init__.py 文件源码

def main(args, outs):

    # Write read_chunk for consumption by Rust
    with open("chunk_args.json", "w") as f:
        json.dump(args.read_chunk, f)

    output_path = martian.make_path("")
    prefix = "fastq_chunk"
    chunk_reads_args = ['chunk_reads',  '--reads-per-fastq', str(args.reads_per_file), output_path, prefix, "--martian-args", "chunk_args.json"]
    print "running chunk reads: [%s]" % str(chunk_reads_args)
    subprocess.check_call(chunk_reads_args)

    with open(os.path.join(output_path, "read_chunks.json")) as f:
        chunk_results = json.load(f)

    outs.out_chunks = []

    # Write out a new chunk entry for each resulting chunk
    for chunk in chunk_results:
        print args.read_chunk
        chunk_copy = args.read_chunk.copy()
        print chunk_copy
        chunk_copy['read_chunks'] = chunk
        outs.out_chunks.append(chunk_copy)