Workflow: Create Genomic Collection for Bacterial Pipeline, ASN.1 input
Fetched 2025-10-22 22:22:35 GMT
Verified with cwltool version 3.1.20230201224320
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This workflow is Open Source and may be reused according to the terms of:
https://raw.githubusercontent.com/ncbi/pgap/4ee5718856e3e890949ac48b9a30b68e11ccdd11/LICENSE.md
Note that the tools invoked by the workflow may have separate licenses.
Inputs
| ID | Type | Title | Doc |
|---|---|---|---|
| entries | File (Optional) | ||
| taxon_db | File | ||
| seq_submit | File (Optional) | ||
| gc_assm_name | String |
Steps
| ID | Runs | Label | Doc |
|---|---|---|---|
| Cache_Seq_entries |
../progs/prime_cache.cwl
(CommandLineTool)
|
prime_cache | |
| Prepare_Seq_entries |
../progs/prepare_seq_entry_input.cwl
(CommandLineTool)
|
prepare_seq_entry_input | |
| Extract_Assembly_Information |
gc_get_molecules.cwl
(CommandLineTool)
|
Extract Assembly Information I | |
| Create_Assembly_From_Sequences |
gc_create.cwl
(CommandLineTool)
|
Create Assembly From Sequences | |
| Extract_Assembly_Information_XML |
gc_asm_xml_description.cwl
(CommandLineTool)
|
Extract Assembly Information II |
Outputs
| ID | Type | Label | Doc |
|---|---|---|---|
| order | File | ||
| ids_out | File | ||
| asncache | Directory | ||
| seqid_list | File | ||
| gencoll_asn | File | ||
| stats_report | File | ||
| submit_block_template | File |
Permalink:
https://w3id.org/cwl/view/git/4ee5718856e3e890949ac48b9a30b68e11ccdd11/genomic_source/wf_genomic_source_asn.cwl
