--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/convert/Sbml2Graph/Sbml2Graph.xml	Fri Jun 10 10:31:34 2022 +0000
@@ -0,0 +1,61 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<tool id="met4j_Sbml2Graph" name="Sbml2Graph" version="0.11.0">
+  <description>Create a graph representation of a SBML file content, and export it in graph file format.</description>
+  <xrefs>
+    <xref type="bio.tools">met4j</xref>
+  </xrefs>
+  <requirements>
+    <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:0.11.0</container>
+  </requirements>
+  <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.Sbml2Graph -i "$inputPath"
+ $bipartite
+ $compound
+ $reaction
+ $tab
+ $gml
+ -o "$outputPath"
+]]></command>
+  <inputs>
+    <param argument="-i" format="sbml" label="input SBML file" name="inputPath" optional="false" type="data" value=""/>
+    <param argument="-b" checked="false" falsevalue="" label="create bipartite graph" name="bipartite" truevalue="-b" type="boolean" value="false"/>
+    <param argument="-c" checked="true" falsevalue="" label="create compound graph" name="compound" truevalue="-c" type="boolean" value="true"/>
+    <param argument="-r" checked="false" falsevalue="" label="create reaction graph" name="reaction" truevalue="-r" type="boolean" value="false"/>
+    <param argument="-tab" checked="false" falsevalue="" label="export in tabulated file" name="tab" truevalue="-tab" type="boolean" value="false"/>
+    <param argument="-gml" checked="true" falsevalue="" label="export in GML file" name="gml" truevalue="-gml" type="boolean" value="true"/>
+  </inputs>
+  <outputs>
+    <data format="text" name="outputPath"/>
+  </outputs>
+  <tests>
+    <test>
+      <param name="inputPath" value="toy_model.xml"/>
+      <output name="outputPath">
+        <assert_contents>
+          <has_n_lines n="101"/>
+        </assert_contents>
+      </output>
+    </test>
+    <test>
+      <param name="inputPath" value="toy_model.xml"/>
+      <param name="bipartite" value="true"/>
+      <param name="compound" value="false"/>
+      <output name="outputPath">
+        <assert_contents>
+          <has_n_lines n="184"/>
+        </assert_contents>
+      </output>
+    </test>
+    <test>
+      <param name="inputPath" value="toy_model.xml"/>
+      <param name="reaction" value="true"/>
+      <param name="compound" value="false"/>
+      <output name="outputPath">
+        <assert_contents>
+          <has_n_lines n="90"/>
+        </assert_contents>
+      </output>
+    </test>
+  </tests>
+  <help><![CDATA[Create a graph representation of a SBML file content, and export it in graph file format.
+The graph can be either a compound graph or a bipartite graph, and can be exported in gml or tabulated file format.]]></help>
+</tool>