Mercurial > repos > iuc > medaka_consensus_pipeline

diff medaka_consensus.xml @ 11:8dfe8a52346f draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/medaka commit 69eb0054f76057436094943f262a74c982d8de42"
author: iuc
date: Sun, 12 Sep 2021 20:35:45 +0000
parents: 1ca4ce7241fd
children: 72b5e9dda577
--- a/medaka_consensus.xml	Thu Apr 22 20:25:13 2021 +0000
+++ b/medaka_consensus.xml	Sun Sep 12 20:35:45 2021 +0000
@@ -6,6 +6,7 @@
     <expand macro="requirements"/>
     <expand macro="version_command"/>
     <command detect_errors="exit_code"><![CDATA[
+ln -s '$d' 'input_assembly.fa' &&
 medaka_consensus
 ## optional
 -m ${m}
@@ -14,7 +15,7 @@
 -t \${GALAXY_SLOTS:-4}
 ## required
 -i '$i'
--d '$d'
+-d 'input_assembly.fa'
 
 2>&1 | tee '$out_log'
     ]]></command>