diff infer_experiment.xml @ 13:a7f9084572fe draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 8a91236cee4d408ae2b53a3e9b6daebc332d631a

--- a/infer_experiment.xml	Sat Dec 18 19:40:16 2021 +0000
+++ b/infer_experiment.xml	Sat Dec 10 11:21:47 2022 +0000
@@ -1,10 +1,11 @@
-<tool id="rseqc_infer_experiment" name="Infer Experiment" version="@TOOL_VERSION@.1">
+<tool id="rseqc_infer_experiment" name="Infer Experiment" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@GALAXY_VERSION@">
     <description>speculates how RNA-seq were configured</description>
-    <expand macro="bio_tools"/>
     <macros>
         <import>rseqc_macros.xml</import>
     </macros>
 
+    <expand macro="bio_tools"/>
+
     <expand macro="requirements" />
 
     <expand macro="stdio" />
@@ -12,7 +13,8 @@
     <version_command><![CDATA[infer_experiment.py --version]]></version_command>
 
     <command><![CDATA[
-        infer_experiment.py -i '${input}' -r '${refgene}'
+        @BAM_SAM_INPUTS@
+        infer_experiment.py -i 'input.${extension}' -r '${refgene}'
             --sample-size ${sample_size}
             --mapq ${mapq}
             > '${output}'
@@ -27,7 +29,7 @@
     </inputs>
 
     <outputs>
-        <data format="txt" name="output" />
+        <data format="txt" name="output" label="${tool.name} on ${on_string}: RNA-seq experiment configuration" />
     </outputs>
 
     <tests>