# HG changeset patch
# User bioitcore
# Date 1505239147 14400
# Node ID ec38f053b647d803c397f57e4e544ac25fbb787e
# Parent  b9877fa1159ac473ceafc9dd62a11e4d906be206
planemo upload commit 93e677982c3636da455de2f827a87e516c7985ac-dirty

diff -r b9877fa1159a -r ec38f053b647 chimerascan.xml
--- a/chimerascan.xml	Tue Sep 12 13:57:02 2017 -0400
+++ b/chimerascan.xml	Tue Sep 12 13:59:07 2017 -0400
@@ -1,7 +1,7 @@
 <tool id="chimerascan" name="ChimeraScan">
     <description>A tool for identifying chimeric transcription in sequencing data.</description>
-    <command detect_errors="exit_code" interpreter="python">
-            $__tool_directory__/chimerascan_run.py -p 8 $__tool_directory__/myindex 
+    <command detect_errors="exit_code">
+            bash $__tool_directory__/run.sh && python $__tool_directory__/chimerascan_run.py -p 8 $__tool_directory__/myindex 
             #if $input_type_conditional.chimerascan_input_type == "paired"
                     $input_type_conditional.input_1 $input_type_conditional.input_2
             #else