# HG changeset patch
# User mvdbeek
# Date 1491226832 14400
# Node ID 777fd55e66ac0195fd6bc18e436dd19539f0d1a3
# Parent  ffd8bf1b9ebca6d4aefd1467ba5fda1dcc7b6880
planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit f28b0130760f515502b7858bd92adf948a942f39-dirty

diff -r ffd8bf1b9ebc -r 777fd55e66ac deploy.sh
diff -r ffd8bf1b9ebc -r 777fd55e66ac findcluster.xml
--- a/findcluster.xml	Fri Mar 31 16:28:20 2017 -0400
+++ b/findcluster.xml	Mon Apr 03 09:40:32 2017 -0400
@@ -5,8 +5,10 @@
     </requirements>
     <version_command>findcluster --version</version_command>
     <command detect_errors="aggressive"><![CDATA[
+        ln -f -s $input_path input.bam &&
+        ln -f -s $input.metadata.bam_index input.bam.bai &&
         findcluster
-        --input_path '$input'
+        --input_path input.bam
         #if $reference_fasta:
             --reference_fasta '$reference_fasta'
         #end if