diff MDSplot/mdsplot.xml @ 4:10627af23f10 draft

planemo upload

--- a/MDSplot/mdsplot.xml	Fri Jul 10 10:38:43 2015 -0400
+++ b/MDSplot/mdsplot.xml	Tue Dec 15 05:18:02 2015 -0500
@@ -8,6 +8,13 @@
         <requirement type="binary">perl</requirement>
 	<requirement type="package" version="1.07">plink</requirement>
     </requirements>
+
+    <!-- [STRONGLY RECOMMANDED] Exit code rules -->
+    <stdio>
+            <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR -->
+        <exit_code range="1:" level="fatal" />
+    </stdio>
+
     
     <!-- [OPTIONAL] Command to be executed to get the tool's version string -->
     <version_command>
@@ -18,7 +25,7 @@
     
     <!-- [REQUIRED] The command to execute -->
     <command interpreter="bash">
-	mdsplot.sh $fileped $filemap $fileout_label $fileout_matrix $fileout_plot $fileout_log
+	mdsplot.sh $fileped $filemap $fileout_matrix $fileout_plot $fileout_log
     </command>
    
     <!-- [REQUIRED] Input files and tool parameters -->
@@ -35,22 +42,15 @@
 	<data name="fileout_log" type="data" format="txt" label="${fileout_label}.log" />
     </outputs>
     
-    <!-- [STRONGLY RECOMMANDED] Exit code rules -->
-    <stdio>
-        <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR -->
-        <exit_code range="1:" level="fatal" />
-    </stdio>
-    
     <!-- [OPTIONAL] Tests to be run manually by the Galaxy admin -->
     <tests>
         <!-- [HELP] Test files have to be in the ~/test-data directory -->
 
         <test>
-         <param name="fileped" value="input.ped" />
-	 <param name="filemap" value="input.map" />
-         <output name="fileout_matrix" file="output.ibs_matrix.txt" />
-	 <output name="fileout_plot" file="output.mds_plot.txt" />
-	 <output name="fileout_log" file="output.log" />
+         <param name="fileped" value="MDSplot-input.ped" />
+	 <param name="filemap" value="MDSplot-input.map" />
+         <output name="fileout_matrix" file="MDSplot-output.ibs_matrix.txt" />
+	 <output name="fileout_plot" file="MDSplot-output.mds_plot.txt" />
         </test>
 
         <!-- [HELP] Multiple tests can be defined with different parameters -->