# HG changeset patch
# User iuc
# Date 1727857176 0
# Node ID 3116e6e4a934aeac9cd3d3793863b1c32e7ec35e
# Parent  66345032017a843418ca80843dac2782efff3b53
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/lofreq commit 814935de92514901b397ad335e9a43dba728973f

diff -r 66345032017a -r 3116e6e4a934 lofreq_call.xml
--- a/lofreq_call.xml	Wed Jul 06 09:22:39 2022 +0000
+++ b/lofreq_call.xml	Wed Oct 02 08:19:36 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="lofreq_call" name="Call variants" version="@TOOL_VERSION@+galaxy2" profile="18.01">
+<tool id="lofreq_call" name="Call variants" version="@TOOL_VERSION@+galaxy3" profile="18.01">
     <description>with LoFreq</description>
     <macros>
         <import>macros.xml</import>
@@ -91,7 +91,7 @@
 
         ## in case of errors add the log files produced
         ## by the parallel workers to stderr
-        || (tool_exit_code=\$? && cat "\$TMPDIR/lofreq2_call_parallel*/*.log" 1>&2 && exit \$tool_exit_code)
+        || (tool_exit_code=\$? && cat "\$TMPDIR"/lofreq2_call_parallel*/*.log 1>&2 && exit \$tool_exit_code)
 
         ## work around a bug in lofreq call-parallel
         ## https://github.com/CSB5/lofreq/issues/85