# HG changeset patch
# User iuc
# Date 1655970242 0
# Node ID fe48aa4ccd5e80de94563136f22a2f9162323f65
# Parent  7355bbf5e05fba0383e6e22b022583d40c7c322c
planemo upload commit c95f14a2264c02a4d9ff1f629a450ba2ea73b109

diff -r 7355bbf5e05f -r fe48aa4ccd5e barrnap.xml
--- a/barrnap.xml	Sun Jun 10 03:26:56 2018 -0400
+++ b/barrnap.xml	Thu Jun 23 07:44:02 2022 +0000
@@ -1,10 +1,16 @@
-<tool id="barrnap" name="barrnap" version="1.2.1">
+<tool id="barrnap" name="barrnap" version="1.2.2">
     <description>Locate ribosomal RNA's in a fasta file. (GFF output)</description>
+   <xrefs>
+        <xref type="bio.tools">barrnap</xref>
+    </xrefs>
     <requirements>
         <requirement type="package" version="0.9">barrnap</requirement>
     </requirements>
     <version_command>barrnap --version</version_command>
     <command detect_errors="exit_code"><![CDATA[
+        ## symlink fasta because tool generates .fai
+        ln -s '$fasta_file' query.fa &&
+
         barrnap
         --quiet
         --threads \${GALAXY_SLOTS:-1}
@@ -18,7 +24,7 @@
             --outseq '$fasta_out'
         #end if
         --kingdom $kingdom
-        '$fasta_file'
+        query.fa
         > '$gff'
     ]]>
     </command>