diff metfrag.xml @ 5:c53ed894d736 draft

planemo upload for repository https://github.com/computational-metabolomics/metfrag-galaxy commit 826659b9105b635cf240474428122f5a269f5c88

--- a/metfrag.xml	Thu Aug 01 09:02:47 2019 -0400
+++ b/metfrag.xml	Fri Aug 02 11:38:06 2019 -0400
@@ -1,7 +1,7 @@
-<tool id="metfrag" name="MetFrag" version="2.4.2+galaxy0.1.9">
+<tool id="metfrag" name="MetFrag" version="2.4.5+galaxy0.1.10">
     <description> </description>
     <requirements>
-        <requirement type="package" version="2.4.2">metfrag</requirement>
+        <requirement type="package" version="2.4.5">metfrag</requirement>
     </requirements>
     <stdio>
         <regex match="Cannot allocate memory"
@@ -129,11 +129,11 @@
                                  from the Universal Natural Products Database (http://pkuxxj.pku.edu.cn/UNPD/index.php).
                                   The list is an aggregated version of the github repository https://github.com/oolonek/ISDB/tree/master/Data/dbs."/>
 	                <when value="true">
+                    </when>
+                    <when value="false">
                         <param name="ScoreSuspectLists" type="data" format="txt" optional="False" label="Suspect list file"
                                help="File containing a list of suspects inchikeys" />
                     </when>
-                    <when value="false">
-                    </when>
                 </conditional>
 
                 <param name="MetFragScoreTypes" type="text" value="FragmenterScore,OfflineMetFusionScore,SuspectListScore" optional="False" label="MetFrag Score Types" help="The type of scores MetFrag is calculating. Please do not change the value unless you know what you are doing." />
@@ -149,7 +149,7 @@
         <param name="skip_invalid_adducts" type="boolean" label="Skip invalid or undefined adduct types?"
                truevalue="--skip_invalid_adducts" falsevalue=""
                help="If no adduct type is provided within the MSP file or if the adduct type is not usable
-                     with MetFrag, set to true if these spectra should be skipped or false if the default
+                     with MetFrag, set to 'yes' if these spectra should be skipped or 'no' if the default
                      of [M+H]+ for pos data or [M-H]- for neg data should be used"/>
         <section name="PreProcessFilter" title="PreProcessing filters" expanded="False">
             <param name="UnconnectedCompoundFilter" type="boolean" checked="false" truevalue="--UnconnectedCompoundFilter"