# HG changeset patch
# User iracooke
# Date 1433365862 14400
# Node ID 843dba58aa7c69285443713a04d78d3c68ce8875
# Parent  cb1666df2fb3d97066dd8e43f4049cc37ba33a5e
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 97bb25c0b5f0d82bcafbe0f3a909e8f378bf2a63

diff -r cb1666df2fb3 -r 843dba58aa7c searchgui.xml
--- a/searchgui.xml	Wed Jun 03 14:01:07 2015 -0400
+++ b/searchgui.xml	Wed Jun 03 17:11:02 2015 -0400
@@ -272,42 +272,36 @@
 
 			#set $engines_list = str($engines).split(',')
 			#if 'X!Tandem' in $engines_list:
-            ##if str($XTANDEM_selector) == 'True'
                 -xtandem 1
             #else
                 -xtandem 0
             #end if
 
 			#if 'MyriMatch' in $engines_list:
-            ##if str($MYRIMATCH_selector) == "True"
                 -myrimatch 1
             #else
                 -myrimatch 0
             #end if
 
 			#if 'MSGF' in $engines_list:
-            ##if str($MSGF_selector) == "True"
                 -msgf 1
             #else
                 -msgf 0
             #end if
 
 			#if 'OMSSA' in $engines_list:
-            ##if str($OMSSA_selector) == "True"
                 -omssa 1
             #else
                 -omssa 0
             #end if
 
 			#if 'Comet' in $engines_list:
-            ##if str($COMET_selector) == "True"
                 -comet 1
             #else
                 -comet 0
             #end if
 
 			#if 'Tide' in $engines_list:
-            ##if str($TIDE_selector) == "True"
                 -tide 1
             #else
                 -tide 0
@@ -611,8 +605,8 @@
   		<!-- MS-AMANDA ADVANCED PARAMETERS  -->
         <conditional name="ms_amanda">
             <param name="ms_amanda_advanced" type="select" label="MS Amanda Options">
-                <option value="yes" selected="True">Advanced</option>
-                <option value="no">Default</option>
+                <option value="yes">Advanced</option>
+                <option value="no" selected="True">Default</option>
             </param>
             <when value="no" />
             <when value="yes">