Mercurial > repos > metexplore > met4j_setgprs

changeset 3:d8b1f69da790 draft default tip

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planemo upload for repository https://forge.inrae.fr/metexplore/met4j-galaxy commit e757d0398a8407d983f1ef3f900b31cafc26e170
author metexplore
date Wed, 21 Jan 2026 15:32:48 +0000
parents 67e93e5f08ee
children
files SetGprs.xml macros.xml
diffstat 2 files changed, 4 insertions(+), 23 deletions(-) [+]
line wrap: on
line diff
--- a/SetGprs.xml	Fri Nov 21 10:23:31 2025 +0000
+++ b/SetGprs.xml	Wed Jan 21 15:32:48 2026 +0000
@@ -45,26 +45,7 @@
   <outputs>
     <data format="sbml" name="out"/>
   </outputs>
-  <tests>
-    <test>
-      <param name="sbml" value="toy_model.xml"/>
-      <param name="tab" value="gpr.tsv"/>
-      <output ftype="sbml" name="out">
-        <assert_contents>
-          <is_valid_xml/>
-          <has_line_matching expression=".*fbc:id=.G1.*" n="1"/>
-          <has_line_matching expression=".*fbc:id=.G2.*" n="1"/>
-          <has_line_matching expression=".*fbc:id=.G3.*" n="1"/>
-          <has_line_matching expression=".*fbc:id=.G4.*" n="1"/>
-          <has_line_matching expression=".*fbc:geneProductRef fbc:geneProduct=.G1.*" n="1"/>
-          <has_line_matching expression=".*fbc:geneProductRef fbc:geneProduct=.G2.*" n="1"/>
-          <has_line_matching expression=".*fbc:geneProductRef fbc:geneProduct=.G3.*" n="1"/>
-          <has_line_matching expression=".*fbc:geneProductRef fbc:geneProduct=.G4.*" n="1"/>
-          <has_line_matching expression=".*fbc:and.*" n="2"/>
-        </assert_contents>
-      </output>
-    </test>
-  </tests>
+  <tests/>
   <help><![CDATA[Create a new SBML file from an original sbml file and a tabulated file containing reaction ids and Gene association written in a cobra way
 The ids must correspond between the tabulated file and the SBML file.
 If prefix R_ is present in the ids in the SBML file and not in the tabulated file, use the -p option.
@@ -74,7 +55,7 @@
 - as fbc gene product association (see FBC package specifications: https://doi.org/10.1515/jib-2017-0082)
 @ATTRIBUTION@]]></help>
   <citations>
+    <citation type="doi">10.1515/jib-2017-0082</citation>
     <citation type="doi">10.1038/nprot.2011.308</citation>
-    <citation type="doi">10.1515/jib-2017-0082</citation>
   </citations>
 </tool>
--- a/macros.xml	Fri Nov 21 10:23:31 2025 +0000
+++ b/macros.xml	Wed Jan 21 15:32:48 2026 +0000
@@ -3,7 +3,7 @@
 <macros>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="2.2.0">met4j</requirement>
+            <requirement type="package" version="2.2.1">met4j</requirement>
             <yield/>
         </requirements>
     </xml>
@@ -12,7 +12,7 @@
             <xref type="bio.tools">met4j</xref>
         </xrefs>
     </xml>
-    <token name="@TOOL_VERSION@">2.2.0</token>
+    <token name="@TOOL_VERSION@">2.2.1</token>
     <token name="@ATTRIBUTION@"><![CDATA[
 **Attribution**