Workflow: Run genomic CMsearch (5S rRNA)

Fetched 2023-01-14 17:37:49 GMT
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workflow cluster_inputs Workflow Inputs cluster_outputs Workflow Outputs rfam_amendments rfam_amendments Run_genomic_CMsearch_5S_rRNA_wnode Run genomic CMsearch (5S rRNA), execution rfam_amendments->Run_genomic_CMsearch_5S_rRNA_wnode rfam_amendments rfam_stockholm rfam_stockholm rfam_stockholm->Run_genomic_CMsearch_5S_rRNA_wnode rfam_stockholm asn_cache asn_cache Post_process_CMsearch_annotations_5S_rRNA Post-process CMsearch annotations asn_cache->Post_process_CMsearch_annotations_5S_rRNA asn_cache asn_cache->Run_genomic_CMsearch_5S_rRNA_wnode asn_cache Run_genomic_CMsearch_5S_rRNA_submit Run genomic CMsearch (5S rRNA), scatter asn_cache->Run_genomic_CMsearch_5S_rRNA_submit asn_cache seqids seqids seqids->Run_genomic_CMsearch_5S_rRNA_submit seqids model_path model_path model_path->Run_genomic_CMsearch_5S_rRNA_wnode model_path taxon_db taxon_db taxon_db->Run_genomic_CMsearch_5S_rRNA_wnode taxon_db annots annots Post_process_CMsearch_annotations_5S_rRNA->annots Run_genomic_CMsearch_5S_rRNA_dump Run genomic CMsearch (5S rRNA), gather Run_genomic_CMsearch_5S_rRNA_wnode->Run_genomic_CMsearch_5S_rRNA_dump input_path Run_genomic_CMsearch_5S_rRNA_submit->Run_genomic_CMsearch_5S_rRNA_wnode input_jobs Run_genomic_CMsearch_5S_rRNA_dump->Post_process_CMsearch_annotations_5S_rRNA input
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Inputs

ID Type Title Doc
seqids File
taxon_db File
asn_cache Directory
model_path File
rfam_stockholm File
rfam_amendments File

Steps

ID Runs Label Doc
Run_genomic_CMsearch_5S_rRNA_dump
gpx_qdump.cwl (CommandLineTool)
Run genomic CMsearch (5S rRNA), gather
Run_genomic_CMsearch_5S_rRNA_wnode
cmsearch_wnode.cwl (CommandLineTool)
Run genomic CMsearch (5S rRNA), execution
Run_genomic_CMsearch_5S_rRNA_submit
gpx_qsubmit_gcmsearch.cwl (CommandLineTool)
Run genomic CMsearch (5S rRNA), scatter
Post_process_CMsearch_annotations_5S_rRNA
annot_merge.cwl (CommandLineTool)
Post-process CMsearch annotations

Outputs

ID Type Label Doc
annots File
Permalink: https://w3id.org/cwl/view/git/5ec226c941562124032ca6861bc8d1aeabf9d91a/bacterial_noncoding/wf_gcmsearch.cwl