Workflow: split_bam_workflow.cwl
Fetched 2024-04-26 04:55:22 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:
Apache License 2.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| threads | Integer (Optional) | ||
| bam_file | File | ||
| job_uuid | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| run_get_pe |
../../tools/samtools_filter_bam.cwl
(CommandLineTool)
|
||
| run_get_se |
../../tools/samtools_filter_bam.cwl
(CommandLineTool)
|
||
| run_pe_check |
../../tools/samtools_view_head_check.cwl
(CommandLineTool)
|
||
| run_se_check |
../../tools/samtools_view_head_check.cwl
(CommandLineTool)
|
||
| run_namesort_bam |
../../tools/samtools_namesort_bam.cwl
(CommandLineTool)
|
||
| run_inputs_decider |
../../tools/bam_inputs_decider.cwl
(ExpressionTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| bam_list | File[] |
Permalink:
https://w3id.org/cwl/view/git/1ba6b619154cf892c45dec3977fbd25153bcebab/workflows/subworkflows/split_bam_workflow.cwl
