CWL Workflow: func_ann_and_post_processing-subwf.cwl

Workflow: func_ann_and_post_processing-subwf.cwl

Fetched 2024-05-20 21:53:19 GMT

Verified with cwltool version 3.1.20230201224320

This workflow is Open Source and may be reused according to the terms of: Apache License 2.0

Note that the tools invoked by the workflow may have separate licenses.

ID	Type	Title	Doc
graphs	String
ko_file	String
EggNOG_db	String
go_config	String
ips_header	String
diamond_header	String
filtered_fasta	File
pathways_names	String
EggNOG_data_dir	String
Uniref90_db_txt	String
cgc_results_faa	File
hmmsearch_header	String
pathways_classes	String
EggNOG_diamond_db	String
HMM_name_database	String
gp_flatfiles_path	String
HMM_omit_alignment	Boolean
func_ann_names_ips	String
diamond_databaseFile	String
func_ann_names_hmmer	String
rna_prediction_ncRNA	File
diamond_maxTargetSeqs	Integer
InterProScan_databases	String
protein_chunk_size_IPS	Integer
protein_chunk_size_hmm	Integer
HMM_gathering_bit_score	Boolean
InterProScan_applications	String[]
InterProScan_outputFormat	String[]
protein_chunk_size_eggnog	Integer
antismash_geneclusters_txt	File

ID	Runs	Label
gff	/cwl/view/git/a83ee883bb3c7480010fa952939fac771491ddf4/tools/Assembly/GFF/gff_generation.cwl (CommandLineTool)	Script builds GFF-file based on IPS and EggNOG results
diamond	/cwl/view/git/a83ee883bb3c7480010fa952939fac771491ddf4/tools/Assembly/Diamond/diamond-subwf.cwl (Workflow)	Subworkflow unites Diamond and Diamond post-processing
pathways	kegg_analysis.cwl (Workflow)
genome_properties	/cwl/view/git/a83ee883bb3c7480010fa952939fac771491ddf4/tools/Assembly/Genome_properties/genome_properties.cwl (CommandLineTool)	Genome properties https://genome-properties.readthedocs.io
functional_annotation	functional_annotation.cwl (Workflow)
change_formats_and_names	change_formats_and_names.cwl (Workflow)
folder_functional_annotation	deal_with_functional_annotation.cwl (Workflow)
move_to_pathways_systems_folder	/cwl/view/git/a83ee883bb3c7480010fa952939fac771491ddf4/utils/return_directory.cwl (ExpressionTool)
move_antismash_summary_to_pathways_systems_folder	/cwl/view/git/a83ee883bb3c7480010fa952939fac771491ddf4/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.cwl (CommandLineTool)	gather summary file from InterProScan

ID	Type	Label	Doc
stats	Directory (Optional)
pathways_systems_folder	Directory (Optional)
functional_annotation_folder	Directory (Optional)
pathways_systems_folder_antismash_summary	Directory (Optional)

Permalink:

https://w3id.org/cwl/view/git/a83ee883bb3c7480010fa952939fac771491ddf4/workflows/subworkflows/assembly/func_ann_and_post_processing-subwf.cwl