Workflow: simple_magicblast.cwl
Fetched 2024-05-05 22:01:25 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:
MIT License
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| user_query | File (Optional) | ||
| user_db_dir | Directory (Optional) | ||
| user_sra_flag | String (Optional) | ||
| user_search_db | String | ||
| user_awk_results | String | ||
| user_outfmt_flag | String | ||
| user_num_threads_flag | Integer (Optional) |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| awk_step |
awk.cwl
(CommandLineTool)
|
||
| magicblast_step |
magicblast_docker.cwl
(CommandLineTool)
|
Example CWL script to run a BLAST search in docker |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| magicblast_out_class | File |
Permalink:
https://w3id.org/cwl/view/git/9cf84946390112ca1f27347ee2a90a370a92a4a2/blast-pipelines/simple_magicblast.cwl
