Mercurial > repos > jpayne > snp_pipeline

diff 5_call_consensus.xml @ 40:02733e77f84f

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planemo upload commit 7f6183b769772449fbcee903686b8d5ec5b7439f-dirty
author jpayne
date Wed, 14 Feb 2018 13:10:23 -0500
parents 69216317baa7
children f58616a4b2f3
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--- a/5_call_consensus.xml	Wed Feb 14 13:06:44 2018 -0500
+++ b/5_call_consensus.xml	Wed Feb 14 13:10:23 2018 -0500
@@ -7,6 +7,8 @@
         <!-- <requirement type="package" version="3.5">python</requirement> -->
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
+        export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" &&
+        env &&
         #set $identifier = $call_pileup.name.split(' ')[0]
         python $__tool_directory__/snp-cache.py snp_consenus_calls
             "\$(md5sum $snps $calls $call_pileup | cut -c -32 | md5sum | cut -c -32)"