diff subsearch/subsearch.xml @ 2:125da3a296ca draft default tip

Uploaded

--- a/subsearch/subsearch.xml	Wed Aug 21 03:06:02 2013 -0400
+++ b/subsearch/subsearch.xml	Wed Jul 15 12:13:08 2015 -0400
@@ -4,16 +4,18 @@
         <requirement type="package" version="2.3.2">openbabel</requirement>
     </requirements>
     <command interpreter="python">
+<![CDATA[
 
     subsearch.py
         -i $query
         --iformat "${query.ext}"
-        --fastsearch-index "${os.path.join($fastsearch.extra_files_path,'molecule.fs')}"
+        --fastsearch-index "${os.path.join($fastsearch.files_path,'molecule.fs')}"
         -o "${outfile}"
         --oformat $oformat
         --max-candidates $max_candidates
-        --processors 10
+        --processors "\${GALAXY_SLOTS:-12}"
 
+]]>
     </command>
     <inputs>
         <param name="query" type='data' format="tabular,smi,sdf,inchi,text" label="query"/>
@@ -42,6 +44,7 @@
         </test>
     </tests>
     <help>
+<![CDATA[
 
 .. class:: infomark
 
@@ -69,5 +72,6 @@
 
 .. _Open Babel: http://openbabel.org/wiki/Main_Page
 
+]]>
     </help>
 </tool>