--- a/tools/networkAnalysis/TopologicalPathwayAnalysis/TopologicalPathwayAnalysis.xml	Mon Feb 03 15:59:46 2025 +0000
+++ b/tools/networkAnalysis/TopologicalPathwayAnalysis/TopologicalPathwayAnalysis.xml	Thu Feb 13 15:08:22 2025 +0000
@@ -1,11 +1,11 @@
 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
-<tool id="met4j_TopologicalPathwayAnalysis" name="TopologicalPathwayAnalysis" version="2.0.0">
+<tool id="met4j_TopologicalPathwayAnalysis" name="TopologicalPathwayAnalysis" version="2.0.1">
   <description>Run a Topological Pathway Analysis (TPA) to identify key pathways based on topological properties of its constituting compounds.</description>
   <xrefs>
     <xref type="bio.tools">met4j</xref>
   </xrefs>
   <requirements>
-    <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:2.0.0</container>
+    <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:2.0.1</container>
   </requirements>
   <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh networkAnalysis.TopologicalPathwayAnalysis -i "$inputPath"
 #if str($inputSide) != 'None':
@@ -42,30 +42,54 @@
   </outputs>
   <tests>
     <test>
+            
       <param name="inputPath" value="XF_network.sbml"/>
+            
       <param name="dataPath" value="XF_network_C_NOI.txt"/>
+            
       <param name="inputSide" value="XF_network_C_Side.tab"/>
+            
       <output name="outputPath">
+                
         <assert_contents>
+                    
           <has_n_columns n="3"/>
+                    
           <has_n_lines n="3"/>
+                  
         </assert_contents>
+              
       </output>
+          
     </test>
     <test>
+            
       <param name="inputPath" value="XF_network.sbml"/>
+            
       <param name="dataPath" value="XF_network_C_NOI.txt"/>
+            
       <param name="inputSide" value="XF_network_C_Side.tab"/>
+            
       <param name="undirected" value="true"/>
+            
       <param name="removeIsolated" value="true"/>
+            
       <param name="out" value="true"/>
+            
       <param name="mergingStrat" value="by_id"/>
+            
       <output name="outputPath">
+                
         <assert_contents>
+                    
           <has_n_columns n="3"/>
+                    
           <has_n_lines n="3"/>
+                  
         </assert_contents>
+              
       </output>
+          
     </test>
   </tests>
   <help><![CDATA[Run a Topological Pathway Analysis (TPA) to identify key pathways based on topological properties of its constituting compounds.