# HG changeset patch
# User trinity_ctat
# Date 1506480978 14400
# Node ID 2e0e45063fad428aa6ba70a6197fa850a45f82b9
# Parent  a8fa525a2f304e48b8ae0f13e03330f98f98da69
Trying to fix a syntax error. Seems like the wrong python is being used.

diff -r a8fa525a2f30 -r 2e0e45063fad align_and_estimate_abundance.xml
--- a/align_and_estimate_abundance.xml	Tue Sep 26 22:26:13 2017 -0400
+++ b/align_and_estimate_abundance.xml	Tue Sep 26 22:56:18 2017 -0400
@@ -10,9 +10,9 @@
         <requirement type="package">rsem</requirement>
     </requirements>
 
-    <command interpreter="python">
+    <command>
         <![CDATA[
-        trinityToolWrapper.py util/align_and_estimate_abundance.pl --transcripts $transcripts --est_method RSEM --aln_method bowtie --trinity_mode --prep_reference --output_dir  "subdir" 
+        python trinityToolWrapper.py util/align_and_estimate_abundance.pl --transcripts $transcripts --est_method RSEM --aln_method bowtie --trinity_mode --prep_reference --output_dir  "subdir" 
 
         ## Inputs.
         #if str($inputs.paired_or_single) == "paired":
diff -r a8fa525a2f30 -r 2e0e45063fad trinityToolWrapper.py
--- a/trinityToolWrapper.py	Tue Sep 26 22:26:13 2017 -0400
+++ b/trinityToolWrapper.py	Tue Sep 26 22:56:18 2017 -0400
@@ -10,6 +10,7 @@
 """
 
 import sys, subprocess, os
+print sys.version
 
 assert sys.version_info[:2] >= ( 2, 4 )