Mercurial > repos > bgruening > peptideshaker

changeset 16:25d57c17e7d5 draft

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Uploaded
author iracooke
date Fri, 20 Jun 2014 15:31:59 -0400
parents ba73c62f13c4
children 16e6a5c11e4d
files peptide_shaker.xml
diffstat 1 files changed, 4 insertions(+), 4 deletions(-) [+]
line wrap: on
line diff
--- a/peptide_shaker.xml	Fri Jun 20 15:30:58 2014 -0400
+++ b/peptide_shaker.xml	Fri Jun 20 15:31:59 2014 -0400
@@ -1,10 +1,10 @@
-<tool id="peptide_shaker" name="Peptide Shaker" version="1.19.1.0">
+<tool id="peptide_shaker" name="Peptide Shaker" version="1.19.4.0">
     <description>
         Perform protein identification using various search engines (using SearchGUI) and combine results with PeptideShaker.
     </description>
     <requirements>
-        <requirement type="package" version="0.30.1">peptide_shaker</requirement>
-        <requirement type="package" version="1.19.1">searchgui</requirement>
+        <requirement type="package" version="0.30.3">peptide_shaker</requirement>
+        <requirement type="package" version="1.19.4">searchgui</requirement>
         <!--<requirement type="package" version="2.2.29">blast+</requirement>-->
     </requirements>
     <stdio>
@@ -253,7 +253,7 @@
         &amp;&amp;
 
         #if 'mzidentML' in str($outputs).split(','):
-            java -cp PeptideShaker-X.Y.Z.jar eu.isas.peptideshaker.cmd.MzidCLI
+            java -cp \$PEPTIDESHAKER_JAR_PATH eu.isas.peptideshaker.cmd.MzidCLI
                 -in \$cwd/peptide_shaker_output.cps
                 -output_file output.mzid
                 -contact_first_name 'Proteomics'