diff ProteinQuantifier.xml @ 1:908ae1e4eb28 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 9a14ed1f2d3c9abdfb080251b3419dd9e0c52a14

--- a/ProteinQuantifier.xml	Wed Mar 01 12:45:23 2017 -0500
+++ b/ProteinQuantifier.xml	Wed Aug 09 09:40:10 2017 -0400
@@ -1,7 +1,7 @@
 <?xml version='1.0' encoding='UTF-8'?>
 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
 <!--Proposed Tool Section: [Quantitation]-->
-<tool id="ProteinQuantifier" name="ProteinQuantifier" version="2.1.0">
+<tool id="ProteinQuantifier" name="ProteinQuantifier" version="2.2.0">
   <description>Compute peptide and protein abundances</description>
   <macros>
     <token name="@EXECUTABLE@">ProteinQuantifier</token>
@@ -28,7 +28,12 @@
   -top $param_top
 #end if
 #if $param_average:
-  -average $param_average
+  -average
+  #if " " in str($param_average):
+    "$param_average"
+  #else
+    $param_average
+  #end if
 #end if
 #if $param_include_all:
   -include_all
@@ -52,7 +57,12 @@
   -format:separator     "$param_format_separator"
 #end if
 #if $param_format_quoting:
-  -format:quoting $param_format_quoting
+  -format:quoting
+  #if " " in str($param_format_quoting):
+    "$param_format_quoting"
+  #else
+    $param_format_quoting
+  #end if
 #end if
 #if $param_format_replacement:
   -format:replacement     "$param_format_replacement"