Workflow: readgroups_bam_to_readgroups_fastq_lists.cwl
Fetched 2023-01-03 19:45:56 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 |
|---|---|---|---|
| readgroups_bam_file | https://w3id.org/cwl/view/git/dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61/tools/readgroup.yml#readgroups_bam_file |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| biobambam_bamtofastq |
../../tools/biobambam2_bamtofastq.cwl
(CommandLineTool)
|
||
| bam_readgroup_to_contents |
../../tools/bam_readgroup_to_contents.cwl
(CommandLineTool)
|
||
| emit_readgroup_o1_contents |
../../tools/emit_readgroup_fastq_se_contents.cwl
(ExpressionTool)
|
||
| emit_readgroup_o2_contents |
../../tools/emit_readgroup_fastq_se_contents.cwl
(ExpressionTool)
|
||
| emit_readgroup_pe_contents |
../../tools/emit_readgroup_fastq_pe_contents.cwl
(ExpressionTool)
|
||
| emit_readgroup_se_contents |
../../tools/emit_readgroup_fastq_se_contents.cwl
(ExpressionTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| o1_file_list | https://w3id.org/cwl/view/git/dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61/tools/readgroup.yml#readgroup_fastq_se_file[] | ||
| o2_file_list | https://w3id.org/cwl/view/git/dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61/tools/readgroup.yml#readgroup_fastq_se_file[] | ||
| pe_file_list | https://w3id.org/cwl/view/git/dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61/tools/readgroup.yml#readgroup_fastq_pe_file[] | ||
| se_file_list | https://w3id.org/cwl/view/git/dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61/tools/readgroup.yml#readgroup_fastq_se_file[] |
Permalink:
https://w3id.org/cwl/view/git/dd7f86b3cc10eb1cda07dc2fc279ba2529c8ad61/workflows/bamfastq_align/readgroups_bam_to_readgroups_fastq_lists.cwl
