Mercurial > repos > metexplore > met4j_sbml2graph

comparison Sbml2Graph.xml @ 3:c17685061077 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 15:31:41 +0000
parents a06c047410ac
children
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2:1a4b8947e680 3:c17685061077
24 <option value="gml">gml</option> 24 <option value="gml">gml</option>
25 <option selected="true" value="tab">tab</option> 25 <option selected="true" value="tab">tab</option>
26 <option value="nodeList">nodeList</option> 26 <option value="nodeList">nodeList</option>
27 <option value="json">json</option> 27 <option value="json">json</option>
28 <option value="matrix">matrix</option> 28 <option value="matrix">matrix</option>
29 <option value="jsonviz">jsonviz</option>
29 </param> 30 </param>
30 </inputs> 31 </inputs>
31 <outputs> 32 <outputs>
32 <data format="txt" name="output"/> 33 <data format="txt" name="output"/>
33 </outputs> 34 </outputs>
34 <tests> 35 <tests/>
35 <test>
36 <param name="inputPath" value="toy_model.xml"/>
37 <param name="format" value="gml"/>
38 <output name="output">
39 <assert_contents>
40 <has_line_matching expression=".*node.*" n="8"/>
41 <has_line_matching expression=".*edge.*" n="9"/>
42 </assert_contents>
43 </output>
44 </test>
45 <test>
46 <param name="inputPath" value="toy_model.xml"/>
47 <param name="bipartite" value="true"/>
48 <param name="compound" value="false"/>
49 <param name="format" value="gml"/>
50 <output name="output">
51 <assert_contents>
52 <has_line_matching expression=".*node.*" n="15"/>
53 <has_line_matching expression=".*edge.*" n="17"/>
54 </assert_contents>
55 </output>
56 </test>
57 <test>
58 <param name="inputPath" value="toy_model.xml"/>
59 <param name="reaction" value="true"/>
60 <param name="compound" value="false"/>
61 <param name="format" value="gml"/>
62 <output name="output">
63 <assert_contents>
64 <has_line_matching expression=".*node.*" n="7"/>
65 <has_line_matching expression=".*edge.*" n="8"/>
66 </assert_contents>
67 </output>
68 </test>
69 </tests>
70 <help><![CDATA[Create a graph representation of a SBML file content, and export it in graph file format. 36 <help><![CDATA[Create a graph representation of a SBML file content, and export it in graph file format.
71 The graph can be either a compound graph, a reaction graph or a bipartite graph, and can be exported in gml or tabulated file format. 37 The graph can be either a compound graph, a reaction graph or a bipartite graph, and can be exported in gml or tabulated file format.
72 @ATTRIBUTION@]]></help> 38 @ATTRIBUTION@]]></help>
73 <citations> 39 <citations>
74 <citation type="doi">10.1109/tcbb.2008.79</citation> 40 <citation type="doi">10.1109/tcbb.2008.79</citation>