# HG changeset patch
# User iuc
# Date 1424122132 18000
# Node ID 8caa7b72a9223641351c9297fdeefa87faecc801
# Parent  3f3f6dbdb95dc578b356fd2c4ff9d4d9825f3d1b
Uploaded

diff -r 3f3f6dbdb95d -r 8caa7b72a922 peptide_shaker.xml
--- a/peptide_shaker.xml	Mon Feb 16 13:40:36 2015 -0500
+++ b/peptide_shaker.xml	Mon Feb 16 16:28:52 2015 -0500
@@ -83,13 +83,13 @@
             (java -cp \$PEPTIDESHAKER_JAR_PATH eu.isas.peptideshaker.cmd.MzidCLI
                 -in \$cwd/peptideshaker_output.zip
                 -output_file output.mzid
-                -contact_first_name 'Proteomics'
-                -contact_last_name 'Galaxy'
-                -contact_email 'galaxyp@umn.edu'
-                -contact_address 'galaxyp@umn.edu'
-                -organization_name 'University of Minnesota'
-                -organization_email 'galaxyp@umn.edu'
-                -organization_address 'Minneapolis, MN 55455, Vereinigte Staaten'
+                -contact_first_name "Proteomics"
+                -contact_last_name "Galaxy"
+                -contact_email "galaxyp@umn.edu"
+                -contact_address "galaxyp@umn.edu"
+                -organization_name "University of Minnesota"
+                -organization_email "galaxyp@umn.edu"
+                -organization_address "Minneapolis, MN 55455, Vereinigte Staaten"
             2>> $temp_stderr) 
             &&
         #end if
@@ -158,8 +158,6 @@
         cat $temp_stderr 2>&1;
         (exit \$exit_code_for_galaxy)
 
-        && cp * /home/bag/arg -R
-
 ]]>
     </command>
     <inputs>