Workflow: Create Genomic Collection for Bacterial Pipeline, ASN.1 input

Fetched 2023-01-10 01:47:42 GMT
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workflow cluster_inputs Workflow Inputs cluster_outputs Workflow Outputs taxon_db taxon_db Cache_Seq_entries prime_cache taxon_db->Cache_Seq_entries taxon_db entries entries Prepare_Seq_entries prepare_seq_entry_input entries->Prepare_Seq_entries entries gc_assm_name gc_assm_name Create_Assembly_From_Sequences Create Assembly From Sequences gc_assm_name->Create_Assembly_From_Sequences gc_assm_name seq_submit seq_submit seq_submit->Prepare_Seq_entries seq_submit asncache asncache stats_report stats_report submit_block_template submit_block_template gencoll_asn gencoll_asn order order seqid_list seqid_list ids_out ids_out Cache_Seq_entries->asncache Cache_Seq_entries->ids_out Cache_Seq_entries->Create_Assembly_From_Sequences asn_cache Cache_Seq_entries->Create_Assembly_From_Sequences unplaced Extract_Assembly_Information Extract Assembly Information I Extract_Assembly_Information->seqid_list Prepare_Seq_entries->submit_block_template Prepare_Seq_entries->order Prepare_Seq_entries->Cache_Seq_entries input Create_Assembly_From_Sequences->gencoll_asn Create_Assembly_From_Sequences->Extract_Assembly_Information gc_assembly Extract_Assembly_Information_XML Extract Assembly Information II Create_Assembly_From_Sequences->Extract_Assembly_Information_XML asnfile Extract_Assembly_Information_XML->stats_report
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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
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Permalink: https://w3id.org/cwl/view/git/a402541b8530f30eab726c160da90a23036847a1/genomic_source/wf_genomic_source_asn.cwl