Workflow: Run genomic CMsearch
Fetched 2023-01-04 16:32:48 GMT
Verified with cwltool version 3.1.20221201130942
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This workflow is Open Source and may be reused according to the terms of:
https://raw.githubusercontent.com/ncbi/pgap/2801ce53744a085580a8de91cd007c45146b51e8/LICENSE.md
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| seqids | File | ||
| taxon_db | File | ||
| asn_cache | Directory | ||
| model_path | File | ||
| rfam_stockholm | File | ||
| rfam_amendments | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| Run_genomic_CMsearch_rRNA_dump |
gpx_qdump.cwl
(CommandLineTool)
|
Run genomic CMsearch (5S rRNA), gather | |
| Run_genomic_CMsearch_rRNA_wnode |
cmsearch_wnode.cwl
(CommandLineTool)
|
Run genomic CMsearch, execution | |
| Run_genomic_CMsearch_rRNA_submit |
gpx_qsubmit_gcmsearch.cwl
(CommandLineTool)
|
Run genomic CMsearch (5S rRNA), scatter | |
| Post_process_CMsearch_annotations_rRNA |
annot_merge.cwl
(CommandLineTool)
|
Post-process CMsearch annotations |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| annots | File |
Permalink:
https://w3id.org/cwl/view/git/2801ce53744a085580a8de91cd007c45146b51e8/bacterial_noncoding/wf_gcmsearch.cwl
