Mercurial > repos > iuc > bakta

diff bakta.xml @ 6:92eee5f31117 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/bakta commit fe9aabe924f278694d20b82169edacdb3e91eb49
author iuc
date Sun, 11 Feb 2024 00:56:12 +0000
parents 728dacaf08a9
children ba6990f72184
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--- a/bakta.xml	Sat Sep 16 09:01:39 2023 +0000
+++ b/bakta.xml	Sun Feb 11 00:56:12 2024 +0000
@@ -70,6 +70,9 @@
         #if $annotation.proteins
             --proteins '$annotation.proteins'
         #end if
+        #if $annotation.regions
+            --regions '$annotation.regions'
+        #end if
         #*======================================
                     Workflow OPTIONS
          skip some step of the bakta analysis
@@ -132,6 +135,7 @@
             <param argument="--compliant" type="boolean" truevalue="--compliant" falsevalue="" label="Force Genbank/ENA/DDJB compliance"/>
             <param argument="--proteins" type="data" format="fasta" optional="true" label="Protein fasta file" help="Fasta file of trusted protein sequences for CDS annotation"/>
             <param argument="--meta" type="boolean" truevalue="--meta" falsevalue="" label="Metagenome mode" help="Run in metagenome mode. This only affects CDS prediction"/>
+            <param argument="--regions" type="data" format="gff,genbank" optional="true" label="Pre-annotated regions" help="Regions only, no functional annotations."/>
         </section>
         <!-- PARAMETER FOR WORKFLOW ANALYSIS -->
         <section name="workflow" title="Workflow option to skip steps">