Seprate BAMs v1.8.1

Version of tools in docker image (../marianas_process_loop_umi_1.8.1/container/Dockerfile)

Tool	Version	Location
java base image	8	-
Marianas	1.8.1	https://github.com/juberpatel/Marianas/releases/download/v1.8.1/Marianas-1.8.1.jar

CWL

• CWL specification 1.0

• Use example_inputs.yaml to see the inputs to the cwl

• Example Command using toil:

    > toil-cwl-runner marianas_seprate_bams_1.8.1.cwl example_inputs.yaml

Usage

usage: marianas_separate_bams_1.8.1/marianas_separate_bams_1.8.1.cwl
       [-h] --input_bam INPUT_BAM [job_order]

positional arguments:
  job_order             Job input json file

optional arguments:
  -h, --help            show this help message and exit
  --input_bam INPUT_BAM