- 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/1a6b9e5dea09caa0debbaff30ca39005dfa5e4d4/LICENSE.md
Note that the tools invoked by the workflow may have separate licenses.
Inputs
ID | Type | Title | Doc |
---|---|---|---|
go | Boolean[] | ||
taxid | Integer | ||
seqids | File | ||
taxon_db | File | ||
asn_cache | Directory | ||
scatter_gather_nchunks | String |
Steps
ID | Runs | Label | Doc |
---|---|---|---|
split_jobs |
../split_jobs/split.cwl
(CommandLineTool)
|
cwl split wrapper | |
Get_TRNA_model |
../progs/gencode2trnamodel.cwl
(ExpressionTool)
|
||
Run_scan_and_dump |
wf_scan_and_dump.cwl
(Workflow)
|
trnascan_wnode and gpx_qdump combined | |
Run_tRNAScan_submit |
gpx_qsubmit_trnascan.cwl
(CommandLineTool)
|
Run tRNAScan, scatter | |
collect_intermediate |
../split_jobs/cat_array_of_files.cwl
(CommandLineTool)
|
file concatenation | |
Compute_Gencode_for_trna |
../progs/compute_gencode.cwl
(CommandLineTool)
|
compute_gencode | |
Run_tRNAScan_trnascan_dump |
trnascan_dump.cwl
(CommandLineTool)
|
Run tRNAScan, transform | |
Compute_Gencode_int_for_trna |
../progs/file2int.cwl
(ExpressionTool)
|
||
Compute_Superkingdom_for_trna |
../progs/compute_gencode.cwl
(CommandLineTool)
|
compute_gencode | |
Compute_Superkingdom_int_for_trna |
../progs/file2int.cwl
(ExpressionTool)
|
Outputs
ID | Type | Label | Doc |
---|---|---|---|
annots | File |
Permalink:
https://w3id.org/cwl/view/git/1a6b9e5dea09caa0debbaff30ca39005dfa5e4d4/bacterial_trna/wf_trnascan.cwl