--- a/build/tools/SetPathways/SetPathways.xml	Mon Feb 03 15:59:46 2025 +0000
+++ b/build/tools/SetPathways/SetPathways.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_SetPathways" name="SetPathways" version="2.0.0">
+<tool id="met4j_SetPathways" name="SetPathways" version="2.0.1">
   <description>Set pathway to reactions in a network from a tabulated file containing the reaction ids and the pathways</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 attributes.SetPathways#if str($colp) != 'nan':
  -cp "$colp"
@@ -56,31 +56,56 @@
   </outputs>
   <tests>
     <test>
+            
       <param name="sbml" value="toy_model.xml"/>
+            
       <param name="tab" value="pathways.tsv"/>
+            
       <output ftype="sbml" name="out">
+                
         <assert_contents>
+                    
           <is_valid_xml/>
+                    
           <has_line_matching expression=".*groups:id=.*" n="3"/>
+                    
           <has_line_matching expression=".*groups:id=.p1.*" n="1"/>
+                    
           <has_line_matching expression=".*groups:id=.p2.*" n="1"/>
+                    
           <has_line_matching expression=".*groups:id=.p3.*" n="1"/>
+                  
         </assert_contents>
+              
       </output>
+          
     </test>
     <test>
+            
       <param name="sbml" value="toy_model.xml"/>
+            
       <param name="tab" value="pathwaysOtherSep.tsv"/>
+            
       <param name="sep" value=" + "/>
+            
       <output ftype="sbml" name="out">
+                
         <assert_contents>
+                    
           <is_valid_xml/>
+                    
           <has_line_matching expression=".*groups:id=.*" n="3"/>
+                    
           <has_line_matching expression=".*groups:id=.p1.*" n="1"/>
+                    
           <has_line_matching expression=".*groups:id=.p2.*" n="1"/>
+                    
           <has_line_matching expression=".*groups:id=.p3.*" n="1"/>
+                  
         </assert_contents>
+              
       </output>
+          
     </test>
   </tests>
   <help><![CDATA[Set pathway to reactions in a network from a tabulated file containing the reaction ids and the pathways