Workflow: Prepare user input
Fetched 2023-01-12 16:57:40 GMT
Verified with cwltool version 3.1.20221201130942
Prepare user input for NCBI-PGAP pipeline
- 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/68058b108cb5b0b72ebe244c42eefa2747e1d64a/LICENSE.md
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| fasta | File | ||
| submol | File | ||
| taxon_db | File |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| yaml2json |
progs/yaml2json.cwl
(CommandLineTool)
|
yaml2json | |
| pgapx_yaml_ctl |
progs/pgapx_yaml_ctl.cwl
(CommandLineTool)
|
pgapx_yaml_ctl |
Converts input JSON file to ASN.1 template |
| file2string_ltp |
progs/file2string.cwl
(ExpressionTool)
|
||
| initial_cleanup |
progs/asn_cleanup.cwl
(CommandLineTool)
|
asn_cleanup | |
| type_based_splitter |
prepare_user_input2.cwl#type_based_splitter/4eea763c-9d7f-4799-8078-9d64d6e55a8b
(ExpressionTool)
|
||
| file2string_input_asn_type |
progs/file2string.cwl
(ExpressionTool)
|
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| input_asn_type | String | ||
| output_entries | File (Optional) | ||
| locus_tag_prefix | String | ||
| output_seq_submit | File (Optional) | ||
| submol_block_json | File |
Permalink:
https://w3id.org/cwl/view/git/68058b108cb5b0b72ebe244c42eefa2747e1d64a/prepare_user_input2.cwl
