Workflow: checker-workflow-wrapping-workflow.cwl
Fetched 2023-01-12 09:53:22 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
GNU General Public License v3.0 only
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| reads | File[] | ||
| output_dir | String |
the output directory |
|
| reference_gz | File |
the reference *.fa.gz file |
|
| reference_gz_sa | File |
the reference *.fa.gz.sa file |
|
| reference_gz_amb | File |
the reference *.fa.gz.amb file |
|
| reference_gz_ann | File |
the reference *.fa.gz.ann file |
|
| reference_gz_bwt | File |
the reference *.fa.gz.bwt file |
|
| reference_gz_fai | File |
the reference *.fa.gz.fai file |
|
| reference_gz_pac | File |
the reference *.fa.gz.pac file |
|
| output_file_basename | String |
the basename to use for output files |
|
| download_reference_files | String |
should we attempt to download the reference files [\"true\", \"false\"] |
|
| reference_result_normal_bai | File | ||
| reference_result_normal_bam | File | ||
| reference_result_normal_metrics | File | ||
| reference_result_normal_unmapped_bai | File | ||
| reference_result_normal_unmapped_bam | File | ||
| reference_result_normal_unmapped_metrics | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| checker |
checker/pcawg-bwa-mem-result-checker.cwl
(CommandLineTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| workflow_err_file | File | ||
| workflow_output_file | File |
Permalink:
https://w3id.org/cwl/view/git/8d259bc2d616a7af5266e870ef8da071337eee21/checker-workflow-wrapping-workflow.cwl
