Mercurial > repos > nilesh > rseqc

diff bam_stat.xml @ 13:a7f9084572fe draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 8a91236cee4d408ae2b53a3e9b6daebc332d631a
author iuc
date Sat, 10 Dec 2022 11:21:47 +0000
parents 57fad5deeb8e
children
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--- a/bam_stat.xml	Sat Dec 18 19:40:16 2021 +0000
+++ b/bam_stat.xml	Sat Dec 10 11:21:47 2022 +0000
@@ -1,12 +1,13 @@
-<tool id="rseqc_bam_stat" name="BAM/SAM Mapping Stats" version="@TOOL_VERSION@">
+<tool id="rseqc_bam_stat" name="BAM/SAM Mapping Stats" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@GALAXY_VERSION@">
     <description>
         reads mapping statistics for a provided BAM or SAM file.
     </description>
-    <expand macro="bio_tools"/>
     <macros>
         <import>rseqc_macros.xml</import>
     </macros>
 
+    <expand macro="bio_tools"/>
+
     <expand macro="requirements" />
 
     <expand macro="stdio" />
@@ -14,17 +15,18 @@
     <version_command><![CDATA[bam_stat.py --version]]></version_command>
 
     <command><![CDATA[
-        bam_stat.py -i '${input}' -q ${mapq} > '${output}'
+        @BAM_SAM_INPUTS@
+        bam_stat.py -i 'input.${extension}' -q ${mapq} > '${output}'
         ]]>
     </command>
 
     <inputs>
-        <expand macro="bam_param" />
+        <expand macro="bam_sam_param" />
         <expand macro="mapq_param" />
     </inputs>
 
     <outputs>
-        <data format="txt" name="output" />
+        <data format="txt" name="output" label="${tool.name} on ${on_string}: stats"/>
     </outputs>
 
     <tests>