Mercurial > repos > metexplore > met4j_extractannotations

changeset 3:ab04fda7191e 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 15:28:51 +0000
parents 0cb8a94dd328
children
files ExtractAnnotations.xml macros.xml
diffstat 2 files changed, 3 insertions(+), 40 deletions(-) [+]
line wrap: on
line diff
--- a/ExtractAnnotations.xml	Tue Oct 28 14:20:05 2025 +0000
+++ b/ExtractAnnotations.xml	Wed Jan 21 15:28:51 2026 +0000
@@ -31,44 +31,7 @@
   <outputs>
     <data format="tsv" name="outputPath"/>
   </outputs>
-  <tests>
-    <test>
-      <param name="inputPath" value="Human-GEM_pathways.xml"/>
-      <param name="export" value="METABOLITE"/>
-      <param name="db" value="metanetx.chemical"/>
-      <output ftype="tsv" name="outputPath">
-        <assert_contents>
-          <has_n_lines n="146"/>
-          <has_n_columns n="2"/>
-        </assert_contents>
-      </output>
-    </test>
-    <test>
-      <param name="inputPath" value="Human-GEM_pathways.xml"/>
-      <param name="export" value="METABOLITE"/>
-      <param name="db" value="metanetx.chemical"/>
-      <param name="skip" value="true"/>
-      <output ftype="tsv" name="outputPath">
-        <assert_contents>
-          <has_n_lines n="145"/>
-          <has_n_columns n="2"/>
-        </assert_contents>
-      </output>
-    </test>
-    <test>
-      <param name="inputPath" value="Human-GEM_pathways.xml"/>
-      <param name="export" value="METABOLITE"/>
-      <param name="db" value="metanetx.chemical"/>
-      <param name="skip" value="true"/>
-      <param name="uniq" value="true"/>
-      <output ftype="tsv" name="outputPath">
-        <assert_contents>
-          <has_n_lines n="111"/>
-          <has_n_columns n="2"/>
-        </assert_contents>
-      </output>
-    </test>
-  </tests>
+  <tests/>
   <help><![CDATA[Extract databases' references from SBML annotations or notes. The references are exported as a tabulated file with one column with the SBML compound, reaction or gene identifiers, and one column with the corresponding database identifier.The name of the targeted database need to be provided under the same form than the one used in the notes field or the identifiers.org uri.
 @ATTRIBUTION@]]></help>
   <citations/>
--- a/macros.xml	Tue Oct 28 14:20:05 2025 +0000
+++ b/macros.xml	Wed Jan 21 15:28:51 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**