Python run_main_gather_alignmentset Examples

Example #1

File: gather_alignments.py Project: pombredanne/pbsmrtpipe

def rtc_runner(rtc):
    return run_main_gather_alignmentset(
        chunk_input_json=rtc.task.input_files[0],
        output_file=rtc.task.output_files[0],
        chunk_key=rtc.task.chunk_key,
        consolidate=False,
    )  # rtc.task.options[Constants.CONSOLIDATE_ID],

Example #2

File: gather_alignments.py Project: yqin22/pbsmrtpipe

def rtc_runner(rtc):
    return run_main_gather_alignmentset(rtc.task.input_files[0],
                                        rtc.task.output_files[0],
                                        rtc.task.chunk_key)

Example #3

File: gather_alignments.py Project: yqin22/pbsmrtpipe

def args_runner(args):
    return run_main_gather_alignmentset(args.cjson_in,
                                        args.ds_out,
                                        args.chunk_key)

Example #4

File: gather_alignments.py Project: pombredanne/pbsmrtpipe

def args_runner(args):
    return run_main_gather_alignmentset(
        chunk_input_json=args.cjson_in, output_file=args.ds_out, chunk_key=args.chunk_key, consolidate=False
    )  # args.consolidate,

Example #5

File: gather_alignments.py Project: skinner/pbsmrtpipe

def rtc_runner(rtc):
    return run_main_gather_alignmentset(
        chunk_input_json=rtc.task.input_files[0],
        output_file=rtc.task.output_files[0],
        chunk_key=rtc.task.chunk_key,
        consolidate=False)  #rtc.task.options[Constants.CONSOLIDATE_ID],

Example #6

File: gather_alignments.py Project: skinner/pbsmrtpipe

def args_runner(args):
    return run_main_gather_alignmentset(chunk_input_json=args.cjson_in,
                                        output_file=args.ds_out,
                                        chunk_key=args.chunk_key,
                                        consolidate=False)  #args.consolidate,