diff diamond_view.xml @ 10:1e3323a44643 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/diamond commit b9f434bf71431a3b9548eb17fcc2639b3b6f8b01"

--- a/diamond_view.xml	Sat Nov 27 09:48:10 2021 +0000
+++ b/diamond_view.xml	Fri Apr 22 13:51:34 2022 +0000
@@ -1,4 +1,4 @@
-<tool id="bg_diamond_view" name="Diamond view" version="@TOOL_VERSION@.1" profile="19.01">
+<tool id="bg_diamond_view" name="Diamond view" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="19.01">
     <description>generate formatted output from DAA files</description>
     <macros>
         <import>macros.xml</import>
@@ -21,7 +21,9 @@
     </command>
     <inputs>
         <param argument="--daa" type="data" format="daa" label="input file in DAA format" />
-        <expand macro="output_type_macro" />
+        <section name="output_section" title="Output options">
+            <expand macro="output_type_macro" />
+        </section>
         <expand macro="hit_filter_macro" />
         <param argument="--forwardonly" type="boolean" truevalue="--forwardonly" falsevalue="" checked="false" label="only show alignments of forward strand" help=""/>
     </inputs>
@@ -31,9 +33,11 @@
     <tests>
         <test expect_num_outputs="1">
             <param name="daa" ftype="daa" value="diamond_results.daa" />
-            <conditional name="output">
-                <param name="outfmt" value="5"/>
-            </conditional>
+            <section name="output_section">
+                <conditional name="output">
+                    <param name="outfmt" value="5"/>
+                </conditional>
+            </section>
             <conditional name="hit_filter">
                 <param name="hit_filter_select" value="max"/>
                 <param name="max_target_seqs" value="1" />
@@ -42,17 +46,21 @@
         </test>
         <test expect_num_outputs="1">
             <param name="daa" ftype="daa" value="diamond_results.daa" />
-            <conditional name="output">
-                <param name="outfmt" value="6"/>
-                <param name="fields" value="qseqid,sseqid,pident,length,mismatch,gapopen,qstart,qend,sstart,send,evalue,bitscore,cigar,scovhsp"/>
-            </conditional>
+            <section name="output_section">
+                <conditional name="output">
+                    <param name="outfmt" value="6"/>
+                    <param name="fields" value="qseqid,sseqid,pident,length,mismatch,gapopen,qstart,qend,sstart,send,evalue,bitscore,cigar,scovhsp"/>
+                </conditional>
+            </section>
             <output name="blast_tabular" file="diamond_view_results.tabular"/>
         </test>
         <test expect_num_outputs="1">
             <param name="daa" ftype="daa" value="diamond_results.daa" />
-            <conditional name="output">
-                <param name="outfmt" value="101"/>
-            </conditional>
+            <section name="output_section">
+                <conditional name="output">
+                    <param name="outfmt" value="101"/>
+                </conditional>
+            </section>
             <conditional name="hit_filter">
                 <param name="hit_filter_select" value="top"/>
                 <param name="max_target_seqs" value="1" />