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diff maf-convert.xml @ 5:f5a5a2b39ff2 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/last commit 4568799de240022f4058ec1602e08f536916e2af"
author iuc
date Thu, 25 Mar 2021 20:53:27 +0000
parents 8705e0d74a0f
children 19c265784f35
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line diff
--- a/maf-convert.xml	Wed Mar 24 22:36:50 2021 +0000
+++ b/maf-convert.xml	Thu Mar 25 20:53:27 2021 +0000
@@ -59,9 +59,12 @@
                     <option value="sam">sam</option>
                     <option value="tab">tab</option>
                 </param>
+                <when value="axt"/>
                 <when value="blast">
                     <param argument="-l" type="integer" value="60" label="Line length"/>
                 </when>
+                <when value="blasttab"/>
+                <when value="chain"/>
                 <when value="html">
                     <param argument="-l" type="integer" value="60" label="Line length"/>
                 </when>
@@ -71,13 +74,18 @@
                 </when>
                 <when value="sam">
                     <conditional name="sam_file">
-                        <param name="dictionary" argument="-d" type="boolean" truevalue="-d" falsevalue="" checked="false" label="Include dictionary of sequence lengths in sam format"/>
+                        <param name="dictionary" argument="-d" type="select" label="Include dictionary of sequence lengths in sam format">
+                            <option value="-d">Yes</option>
+                            <option value="" selected="true">No</option>
+                        </param>
+                        <when value=""/>
                         <when value="-d">
                             <param argument="-f" type="data" format="dict" label="Get a sequence dictionary from DICTFILE" />
                         </when>
                     </conditional>			    
                     <param argument="-r" type="text" value="" label="Specify read group information" help="Example: 'ID:1 PL:ILLUMINA SM:mysample'"/>
                 </when>
+                <when value="tab"/>
             </conditional>
         </section>
     </inputs>