# HG changeset patch
# User greg
# Date 1512678187 18000
# Node ID 62df33ce7eaaed99c22989726d23ffb568374d63
# Parent  7ca8ab9a46e9b63ede70331729aed958d74c96c9
Uploaded

diff -r 7ca8ab9a46e9 -r 62df33ce7eaa assembly_post_processor.xml
--- a/assembly_post_processor.xml	Thu Dec 07 10:28:43 2017 -0500
+++ b/assembly_post_processor.xml	Thu Dec 07 15:23:07 2017 -0500
@@ -35,6 +35,10 @@
 #end if
 --num_threads \${GALAXY_SLOTS:-4}
 &>proc.log
+&& if [[ $? -ne 0 ]]; then
+    exec &>/dev/tty;
+    cat proc.log >&2;
+fi
 && mv $output_dir/transcripts.cds '$output_cds'
 && mv $output_dir/transcripts.pep '$output_pep'
 && mv $output_dir/transcripts.cleaned.cds '$output_cleaned_cds'
@@ -48,9 +52,6 @@
         && mv $output_dir/transcripts.cleaned.nr.pep '$output_cleaned_nr_pep'
     #end if
 #end if
-&& if [[ $? -ne 0 ]]; then
-  cat proc.log >&2;
-fi
     ]]></command>
     <inputs>
         <param name="input" format="fasta" type="data" label="Transcriptome assembly fasta file"/>