--- a/tools/convert/FbcToNotes/FbcToNotes.xml	Wed Jul 26 15:33:45 2023 +0000
+++ b/tools/convert/FbcToNotes/FbcToNotes.xml	Fri Jan 31 18:28:53 2025 +0000
@@ -1,32 +1,122 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<tool id="met4j_FbcToNotes" name="FbcToNotes" version="MET4J_VERSION_TEST">
-  <description>Convert FBC package annotations to sbml notes</description>
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+<tool id="met4j_FbcToNotes" name="FbcToNotes" version="develop">
+  <description>Convert FBC package annotations to sbml html notes</description>
   <xrefs>
     <xref type="bio.tools">met4j</xref>
   </xrefs>
   <requirements>
-    <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:MET4J_VERSION_TEST</container>
+    <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:develop</container>
   </requirements>
   <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.FbcToNotes -i "$inputPath"
  -o "$outputPath"
 ]]></command>
   <inputs>
-    <param argument="-i" format="sbml" label="input file" name="inputPath" optional="false" type="data" value=""/>
+    <param argument="-i" format="sbml" label="input SBML file" name="inputPath" optional="false" type="data" value=""/>
   </inputs>
   <outputs>
     <data format="sbml" name="outputPath"/>
   </outputs>
   <tests>
     <test>
+                                                                        
+      
+      
+      
+      
+      
+      
+      
+      
+      
+      
       <param name="inputPath" value="ECOL.xml"/>
+                                                                        
+      
+      
+      
+      
+      
+      
+      
+      
+      
+      
       <output ftype="sbml" name="outputPath">
+                                                                                                
+        
+        
+        
+        
+        
+        
+        
+        
+        
+        
         <assert_contents>
+                                                                                                                        
+          
+          
+          
+          
+          
+          
+          
+          
+          
+          
           <is_valid_xml/>
+                                                                                                                        
+          
+          
+          
+          
+          
+          
+          
+          
+          
+          
           <has_line_matching expression=".*GENE_ASSOCIATION: b2312.*" n="1"/>
+                                                                                                                      
+        
+        
+        
+        
+        
+        
+        
+        
+        
+        
         </assert_contents>
+                                                                                              
+      
+      
+      
+      
+      
+      
+      
+      
+      
+      
       </output>
+                                                                      
+    
+    
+    
+    
+    
+    
+    
+    
+    
+    
     </test>
   </tests>
-  <help><![CDATA[Convert FBC package annotations to sbml notes]]></help>
-  <citations/>
+  <help><![CDATA[Convert FBC package annotations to sbml html notes (see https://www.degruyter.com/document/doi/10.1515/jib-2017-0082/html)]]></help>
+  <citations>
+    <citation type="doi">10.1515/jib-2017-0082</citation>
+  </citations>
 </tool>