diff searchgui.xml @ 41:3634c90301af draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit dea56622eb32b82c87dc87567dc89db3a787033d

--- a/searchgui.xml	Wed Sep 27 08:59:54 2017 -0400
+++ b/searchgui.xml	Sat Oct 28 04:16:50 2017 -0400
@@ -1,4 +1,4 @@
-<tool id="search_gui" name="Search GUI" version="@SEARCHGUI_VERSION@">
+<tool id="search_gui" name="Search GUI" version="@SEARCHGUI_VERSION@.1">
     <description>
         Perform protein identification using various search engines and prepare results for input to Peptide Shaker
     </description>
@@ -537,7 +537,7 @@
                         label="X!Tandem: Output Sequences" type="boolean" truevalue="1" falsevalue="0" checked="false" />
                     <param name="xtandem_output_spectra" help="Controls output of spectrum information"
                         label="X!Tandem: Output Spectra" type="boolean" truevalue="1" falsevalue="0" checked="true" />
-                    <!-- <param name="xtandem_skyline_path" label="X!Tandem 'spectrum, skyline path'" type="text" help="Path to a spectrum data file for use by skyline." -->
+                    <!-- <param name="xtandem_skyline_path" label="X!Tandem 'spectrum, skyline path'" type="txt" help="Path to a spectrum data file for use by skyline." -->
                         
                     <conditional name="xtandem_refine"><!-- -xtandem_refine -->
                         <param name="xtandem_refine_selector" type="select" label="X!Tandem peptide model refinement">
@@ -676,7 +676,7 @@
                         label="MSGF: Minimum Peptide Length" help="Minimum length for a peptide to be considered"/>
                     <param name="msgf_max_pep_length" type="integer" value="30" 
                         label="MSGF: Maximum Peptide Length" help="Maximum length for a peptide to be considered"/>
-                    <param name="msgf_termini" type="select" format="text" 
+                    <param name="msgf_termini" type="select" format="txt" 
                         label="MSGF: Number of tolerable termini" help="Searches will take much longer if selecting a value other than 2">
                         <option value="0">0 (ie non-specific cleavage)</option>
                         <option value="1">1 (ie semi-tryptic cleavage)</option>