--- a/dexseq.xml	Fri Mar 19 09:45:03 2021 +0000
+++ b/dexseq.xml	Sun Dec 19 23:02:46 2021 +0000
@@ -1,5 +1,8 @@
-<tool id="dexseq" name="DEXSeq" version="@VERSION@+galaxy1">
+<tool id="dexseq" name="DEXSeq" version="@TOOL_VERSION@+galaxy2" profile="@PROFILE@">
     <description>Determines differential exon usage from count tables</description>
+    <xrefs>
+        <xref type="bio.tools">dexseq</xref>
+    </xrefs>
     <macros>
         <import>macros.xml</import>
     </macros>
@@ -99,11 +102,11 @@
         <param name="fdr_cutoff" type="float" min="0.0" max="1.0" value="0.05" label="All the genes under this FDR threshold will be shown in the html report"/>
     </inputs>
     <outputs>
-        <data name="dexseq_out" format="tabular" label="DEXSeq result file on ${on_string}" />
-        <data name="htmlreport" format="html" label="DEXSeq report on ${on_string}">
+        <data name="dexseq_out" format="tabular" label="${tool.name} on ${on_string}: result" />
+        <data name="htmlreport" format="html" label="${tool.name} on ${on_string}: report">
             <filter>report is True</filter>
         </data>
-        <data name="rds_out" format="rdata" from_work_dir="DEXSeqResults.rds" label="DEXSeq rds file on ${on_string}">
+        <data name="rds_out" format="rds" from_work_dir="DEXSeqResults.rds" label="${tool.name} on ${on_string}: rds file">
             <filter>rds is True</filter>
         </data>
     </outputs>
@@ -171,7 +174,7 @@
             <param name="rds" value="True"/>
             <param name="fdr_cutoff" value="0.05"/>
             <output name="dexseq_out" ftype="tabular" file="dexseq_result.tabular" compare="sim_size"/>
-            <output name="rds_out" ftype="rdata" file="dexseq.rds" compare="sim_size"/>
+            <output name="rds_out" ftype="rds" file="dexseq.rds" compare="sim_size"/>
         </test>
     </tests>
     <help><![CDATA[