Workflow: Workflow to validate the the gVCF to cgf conversion
Fetched 2023-01-10 07:34:09 GMT
Verified with cwltool version 3.1.20221201130942
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- Default Values
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- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
GNU Affero General Public License v3.0
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| ref | String | Reference genome | |
| reffa | File | Reference FASTA file | |
| cgfdir | Directory | Compact genome format directory | |
| chroms | String[] | Chromosomes to analyze | |
| gvcfdir | Directory | gVCF directory | |
| sglfdir | Directory | Tile library directory | |
| checknum | Integer | Number of samples to check | |
| tileassembly | File | Reference tile assembly file |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| check-cgf-gvcf |
check-cgf-gvcf.cwl
(CommandLineTool)
|
Validate the conversion of the gVCF to cgf |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| gvcfhashes | File[] | Hashes of gvcf pasta stream by path |
Permalink:
https://w3id.org/cwl/view/git/cdfe9178ad4e481d2391cd2da74b82d66a61b0bb/cwl-version/checks/check-cgf/gvcf/check-cgf-gvcf-wf.cwl
