--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/rpranker.xml	Wed Nov 16 11:10:47 2022 +0000
@@ -0,0 +1,71 @@
+<tool id="rptools_rpranker" name="Rank Pathways" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
+    <description>Rank heterologous pathways according to their global score</description>
+    <macros>
+        <token name="@VERSION_SUFFIX@">0</token>
+        <token name="@TOOL_VERSION@">5.13.1</token>
+    </macros>
+    <requirements>
+        <requirement type="package" version="@TOOL_VERSION@">rptools</requirement>
+    </requirements>
+    <stdio>
+        <regex match="WARNING" level="warning" />
+        <regex match="ERROR" level="fatal" />
+    </stdio>
+    <command detect_errors="exit_code"><![CDATA[
+        python -m rptools.rprank
+        --pathways
+        #set files = ' '.join([ '\'%s\'' % $file for $file in $pathway_collection])
+        $files
+        > '$sorted_pathways'
+    ]]></command>
+    <inputs>
+        <param name="pathway_collection" type="data" format="sbml" multiple="true" min="2" label="Pathways" />
+    </inputs>
+    <outputs>
+        <data name="sorted_pathways" format="csv" label="Ranked Pathways" />
+    </outputs>
+    <tests>
+        <test>
+        <!-- test 1: check if identical outputs are produced with default parameters  -->
+            <param name="pathway_collection" value="rp_003_0261.xml,rp_003_0131.xml,rp_003_0001.xml,rp_002_0021.xml,rp_002_0011.xml,rp_002_0001.xml,rp_001_0011.xml,rp_001_0006.xml,rp_001_0001.xml"/>
+            <output name="sorted_pathways" file="lycopene_ranked_pathways.csv" ftype="csv" compare="diff" sort="true" />
+        </test>
+    </tests>
+    <help><![CDATA[
+Rank Pathways
+================
+
+Sort a list of pathways according to their global score.	  
+
+Input
+-----
+
+Required:
+
+* **Pathways**\ : List of pathway files (rpSBML)
+
+Output
+------
+
+* **Ranked Pathways**\ : Sorted names and scores of pathways
+
+Project Links
+------------------
+
+* `GitHub <https://github.com/brsynth/rptools/tree/master/rptools/rprank>`_
+
+License
+-------
+
+* `MIT <https://github.com/brsynth/rptools/blob/master/LICENSE>`_
+
+Acknowledgments
+---------------
+
+* Thomas Duigou
+
+    ]]></help>
+    <creator>
+        <person givenName="Joan" familyName="Hérisson" email="joan.herisson@univ-evry.fr" identifier="https://orcid.org/0000-0001-9741-0847" />
+    </creator>
+</tool>