Workflow: pipeline.cwl
Fetched 2023-01-11 12:48:51 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 |
|---|---|---|---|
| base_count | Integer | ||
| output_dest | String | ||
| forward_reads | File | ||
| reverse_reads | File | ||
| coverage_report_src | File (Optional) |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| metaspades |
assembly/metaspades.cwl
(CommandLineTool)
|
metaSPAdes: de novo metagenomics assembler |
https://arxiv.org/abs/1604.03071 http://cab.spbu.ru/files/release3.12.0/manual.html#meta |
| stats_report |
stats/coverage.cwl
(Workflow)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| logfile | File | ||
| assembly | File | ||
| assembly_log | File | ||
| coverage_tab | File | ||
| samtools_index | File | ||
| assembly_params | File | ||
| assembly_scaffolds | File |
Permalink:
https://w3id.org/cwl/view/git/dd2f03cc8a0ca7bc644968ac0c34d4502d6da093/tools/pipeline.cwl
