diff optimizer_genetic.xml @ 2:6e4eb4856874 draft

Uploaded

--- a/optimizer_genetic.xml	Wed Jul 22 19:08:23 2020 +0000
+++ b/optimizer_genetic.xml	Wed Jul 22 19:20:30 2020 +0000
@@ -6,8 +6,8 @@
     <requirement type="package" >r-genalg</requirement>
   </requirements>
   <command> <![CDATA[
-	ln -s $__tool_directory__/score_complete_alt_M.pl  &&
-	ln -s $__tool_directory__/GENEO_VINYL.R  &&
+	ln -s $__tool_directory__/score_complete_alt_M.pl 2>$log &&
+	ln -s $__tool_directory__/GENEO_VINYL.R 2>> $log &&
 	ln -s $fileR fileR &&
 	ln -s $fileC fileC &&
 	
@@ -85,9 +85,8 @@
 	
 	###OUTPUT
 	-ofile $ofile
-
-        2>>$log
  	
+	2>>$log
 
 
 
@@ -142,23 +141,14 @@
 
   </inputs>
   <outputs>
+    <data format="txt" name="log" label="${tool.name} on ${on_string}: log file "/>
     <data format="tsv" name="ofile" label="${tool.name} on ${on_string}: tsv "/>
-    <data format="txt" name="log" label="${tool.name} on ${on_string}: log file "/>
   </outputs>
   <stdio>
   </stdio>
   <tests>
-    <test>
-      <param name="fileR" value="TSI_annotated.vcf" ftype="vcf" />
-      <param name="fileC" value="sorrentino_annotated.vcf" ftype="vcf" />
-      <param name="lgenes" value="DCM_genes.tabular" ftype="tabular" />
-      <param name="qfile" value="qfile.txt" ftype="txt" />
-      <param name="kfile" value="kfile.txt" ftype="txt" />
-      <param name="efile" value="efile.txt" ftype="txt" />
-      <param name="sfile" value="sfile.txt" ftype="txt" />
-      <output name="ofile" file="output_optimizer.tsv" ftype="tsv" />
-      <output name="log" file="log.txt" ftype="txt" />
-    </test>
+      <test>
+      </test>
   </tests>
   <help>
 **What it does**