Workflow: Prepare user input
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/5461e63dc4714bb81e1c9f58e436c8465107a199/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 | |
file2int_taxid |
progs/file2int.cwl
(ExpressionTool)
|
||
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/aadf9631-3c46-44ce-8fee-9a354c48d4d5
(ExpressionTool)
|
||
file2string_input_asn_type |
progs/file2string.cwl
(ExpressionTool)
|
Outputs
ID | Type | Label | Doc |
---|---|---|---|
taxid | Integer | ||
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/5461e63dc4714bb81e1c9f58e436c8465107a199/prepare_user_input2.cwl