diff macros.xml @ 1:a671907f96fe draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tools/coverm commit 2388df7187533fb66b7729730340d2eb7b93c112

--- a/macros.xml	Tue Apr 26 15:27:01 2022 +0000
+++ b/macros.xml	Tue Jan 24 12:32:54 2023 +0000
@@ -1,12 +1,13 @@
 <macros>
     <xml name="requirements">
         <requirements>
-            <requirement type="package">coverm</requirement>
+            <requirement type="package" version="@TOOL_VERSION@">coverm</requirement>
         </requirements>
     </xml>
     <token name="@INPUT_FORMATS@">fasta,fastq,fastq.gz,fasta.gz</token>
-    <token name="@TOOL_VERSION@">0.2.1</token>
+    <token name="@TOOL_VERSION@">0.6.1</token>
     <token name="@VERSION_SUFFIX@">0</token>
+    <token name="@PROFILE@">22.01</token>
     <xml name="citation">
         <citations>
             <citation type="bibtex">
@@ -96,7 +97,10 @@
                     </when>
                 </conditional>                    
                 <conditional name="add_genome">
-                    <param name="add_genome" type="boolean" label="Add additional Genome Files"/>
+                    <param name="add_genome" type="select" label="Add additional Genome Files">
+                        <option value="true">Yes</option>
+                        <option value="false" selected="true">No</option>
+                    </param>
                     <when value="true">
                         <conditional name="add_genomic">
                             <param type="select" label="Reference genome source" name="source">
@@ -186,7 +190,7 @@
     <xml name="add_reads">
         <section name="add_reads" title="Add an additional read">
             <conditional name="extra_read">
-                <param type="select" label="Read type" optional="true" name="read_type">
+                <param type="select" label="Read type" name="read_type">
                     <option value="none" selected="true">None</option>
                     <option value="paired">Paired end</option>
                     <option value="paired_collection">Paired collection</option>
@@ -251,7 +255,10 @@
             <param name="relative_abundance" type="boolean" falsevalue="" truevalue="relative_abundance" label="Relative abundance (default)"/>
             <param name="mean" type="boolean" falsevalue="" truevalue="mean" label="Mean"/>
             <conditional name="cond_methods">
-                <param name="trimmed_mean" type="boolean" falsevalue="" truevalue="trimmed_mean" label="Trimmed mean"/>
+                <param name="trimmed_mean" type="select" label="Trimmed mean">
+                    <option value="trimmed_mean">Yes</option>
+                    <option value="" selected="true">No</option>
+                </param>
                 <when value="trimmed_mean">
                     <param name="trim_min" type="integer" min="0" value="5" label="Trim min" help="Remove this smallest fraction of positions when calculating trimmed_mean default: 5"/>
                     <param name="trim_max" type="integer" min="0" value="95" label="Trim max" help="Maximum fraction for trimmed_mean calculations default: 95"/>