diff msconvert_subset.xml @ 8:d2c61663e33c draft

Uploaded

--- a/msconvert_subset.xml	Mon Feb 17 17:00:29 2014 -0500
+++ b/msconvert_subset.xml	Fri Sep 26 14:44:54 2014 -0400
@@ -1,17 +1,19 @@
-<tool id="msconvert_subset" name="Subset Peak List" version="0.2.1">
+<tool id="msconvert_subset" name="msconvert Subset Peak List" version="0.3.0">
   <description>against list of scan numbers or indices.</description>
+  <!--
   <requirements>
-    <requirement type="package">proteowizard</requirement>
+    <requirement type="package" version="3_0_4388">proteowizard</requirement>
   </requirements>
+-->
   <command interpreter="python">
-    msconvert_wrapper.py 
-    --input=${input} 
-    --output=${output} 
-    --fromextension=${input.ext} 
-    --toextension=${output_type} 
+    msconvert_wrapper.py
+    --input=${input}
+    --output=${output}
+    --fromextension=${input.ext}
+    --toextension=${output_type}
     #if $settings.settingsType == "full"
-    --binaryencoding=${settings.binary_encoding} 
-    --mzencoding=${settings.mz_encoding} 
+    --binaryencoding=${settings.binary_encoding}
+    --mzencoding=${settings.mz_encoding}
     --intensityencoding=${settings.intensity_encoding}
     --zlib=${settings.zlib}
     #end if
@@ -47,16 +49,16 @@
     <param name="output_type" type="select" label="Output Type">
       <option value="mzML">mzML (indexed)</option>
       <option value="unindexed_mzML">mzML (unindexed)</option>
-      <option value="mzXML">mzXML (indexed)</option>      
+      <option value="mzXML">mzXML (indexed)</option>
       <option value="unindexed_mzXML">mzXML (unindexed)</option>
       <option value="mgf">mgf</option>
-      <option value="ms2">ms2</option>  
+      <option value="ms2">ms2</option>
     </param>
     <conditional name="filter">
       <param name="filterType" type="select" label="Filter by" help="">
         <option value="scan_number" selected="true">Scan Number</option>
         <option value="scan_index">Scan Index</option>
-      </param>    
+      </param>
       <when value="scan_number">
         <param format="text" name="filterList" type="data" label="Scan Numbers"/>
       </when>
@@ -83,7 +85,7 @@
           <option value="64">64</option>
           <option value="32" selected="true">32</option>
         </param>
-        <param type="boolean" name="zlib" label="Use zlib">      
+        <param type="boolean" name="zlib" label="Use zlib">
         </param>
       </when>
     </conditional>