Workflow: id_to_json_workflow.cwl
Fetched 2023-01-10 20:30:28 GMT
Verified with cwltool version 3.1.20221201130942
- Selected
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- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
GNU Lesser General Public License v3.0 only
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| tag | String | which entry in the credential file to use |
must match the first element in one of the lines of the credentials input |
| tags | File | ||
| query | File | SQL query to run | |
| mapping | File | ||
| project | String | project UUID, or name within the given 'workspace' | |
| workspace | String | workspace UUID or name | |
| credentials | File | Format is tag:user:pass:url |
File name doesn't matter, will be made available to the iseq tool as $HOME/.iseq |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| map_adaptive_to_AIRR |
mapping.cwl
(CommandLineTool)
|
||
| download_adaptive_study |
downloader.cwl
(CommandLineTool)
|
||
| convert_to_AIRR_Repertoire_JSON |
tsv_to_json.cwl
(CommandLineTool)
|
Based upon scripts/tsv_to_json.py by Artem Kushner, Laura Gutierrez Funderburk |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| results | File [format] |
Permalink:
https://w3id.org/cwl/view/git/3fa8eb2ccbd64e1e9731aa431156178077080f61/cwl/id_to_json_workflow.cwl
