CWL Workflow: amplicon-wf--v.5-cond.cwl

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.

Inputs

ID	Type	Title	Doc
lsu_db	File
ssu_db	File
lsu_tax	String
ssu_tax	String
itsonedb	File
lsu_otus	String
ssu_otus	String
unite_db	File
lsu_label	String
ssu_label	String
unite_tax	String
5s_pattern	String
rfam_models	String[]
unite_label	String
5.8s_pattern	String
itsonedb_tax	String
single_reads	File (Optional)
forward_reads	File (Optional)
qc_min_length	Integer
reverse_reads	File (Optional)
itsonedb_label	String
unite_otu_file	String
stats_file_name	String
rfam_model_clans	String
itsonedb_otu_file	String

ID	Runs	Label	Doc
after-qc	conditionals/amplicon/amplicon-2.cwl (Workflow)
before-qc	conditionals/amplicon/amplicon-1.cwl (Workflow)
touch_file_flag	../utils/touch_file.cwl (CommandLineTool)

ID	Type	Label	Doc
gz_files	File[]
qc-status	File
rna-count	File (Optional)
ITS-length	File (Optional)
qc_summary	File
qc-statistics	Directory
hashsum_paired	File[] (Optional)
hashsum_single	File (Optional)
no_tax_flag_file	File (Optional)
suppressed_upload	Directory (Optional)
completed_flag_file	File (Optional)
taxonomy-summary_folder	Directory (Optional)
fastp_filtering_json_report	File (Optional)
sequence-categorisation_folder	Directory (Optional)