Workflow: checkm
Fetched 2025-10-18 12:58:19 GMT
Verified with cwltool version 3.1.20230201224320
- Selected
- |
- Default Values
- Nested Workflows
- Tools
- Inputs/Outputs
This workflow is Open Source and may be reused according to the terms of:
https://raw.githubusercontent.com/ncbi/pgap/ed27a47e80a85c76cb7285a78965d59537f79f10/LICENSE.md
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| taxid | Integer | ||
| models | File | ||
| taxon_db | File | ||
| checkm_data_path | Directory | ||
| filter_for_raw_checkm | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| run_checkm |
../task_types/tt_checkm_wnode.cwl
(Workflow)
|
checkm_wnode | |
| convert_seqids_to_jobs |
../progs/proteins_for_checkm.cwl
(CommandLineTool)
|
||
| extract_final_proteins |
../progs/protein_extract.cwl
(Workflow)
|
protein_extract |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| checkm_raw | File | ||
| checkm_results | File |
Permalink:
https://w3id.org/cwl/view/git/ed27a47e80a85c76cb7285a78965d59537f79f10/checkm/wf_checkm.cwl
