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comparison tools/networkAnalysis/DistanceMatrix/DistanceMatrix.xml @ 5:35c9abcd8934 draft

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 8577c4cd3ad279c5e97f48f822e041c6b0d90598
author metexplore
date Thu, 12 Jan 2023 13:45:13 +0000
parents ae4c301919c4
children 7a6f2380fc1d
comparison
equal deleted inserted replaced
4:ae4c301919c4 5:35c9abcd8934
1 <?xml version="1.0" encoding="UTF-8"?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="met4j_DistanceMatrix" name="DistanceMatrix" version="1.2.0"> 2 <tool id="met4j_DistanceMatrix" name="DistanceMatrix" version="1.2.1">
3 <description>Create a compound to compound distance matrix.</description> 3 <description>Create a compound to compound distance matrix.</description>
4 <xrefs> 4 <xrefs>
5 <xref type="bio.tools">met4j</xref> 5 <xref type="bio.tools">met4j</xref>
6 </xrefs> 6 </xrefs>
7 <requirements> 7 <requirements>
8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:1.2.0</container> 8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:1.2.1</container>
9 </requirements> 9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh networkAnalysis.DistanceMatrix -i "$inputPath" 10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh networkAnalysis.DistanceMatrix -i "$inputPath"
11 #if str($sideCompoundFile) != 'None': 11 #if str($sideCompoundFile) != 'None':
12 -sc "$sideCompoundFile" 12 -sc "$sideCompoundFile"
13 #end if 13 #end if
36 <test> 36 <test>
37 <param name="inputPath" value="toy_model.xml"/> 37 <param name="inputPath" value="toy_model.xml"/>
38 <output ftype="csv" name="outputPath"> 38 <output ftype="csv" name="outputPath">
39 <assert_contents> 39 <assert_contents>
40 <has_n_lines n="9"/> 40 <has_n_lines n="9"/>
41 <has_line_matching expression="B,1.0,0.0,Infinity,2.0,1.0,Infinity,2.0,Infinity" n="1"/> 41 <has_line_matching expression="id,A,A_ext,B,C,D,D_ext,E,E_ext" n="1"/>
42 <has_line_matching expression="B,1.0,Infinity,0.0,2.0,1.0,2.0,Infinity,Infinity" n="1"/>
42 </assert_contents> 43 </assert_contents>
43 </output> 44 </output>
44 </test> 45 </test>
45 <test> 46 <test>
46 <param name="inputPath" value="toy_model.xml"/> 47 <param name="inputPath" value="toy_model.xml"/>
48 <param name="degree" value="true"/> 49 <param name="degree" value="true"/>
49 <param name="undirected" value="true"/> 50 <param name="undirected" value="true"/>
50 <output ftype="csv" name="outputPath"> 51 <output ftype="csv" name="outputPath">
51 <assert_contents> 52 <assert_contents>
52 <has_n_lines n="8"/> 53 <has_n_lines n="8"/>
53 <has_line_matching expression="B,9.0,0.0,13.0,16.0,32.0,17.0,36.0" n="1"/> 54 <has_line_matching expression="id,A,B,C,D,D_ext,E,E_ext" n="1"/>
55 <has_line_matching expression="A,0.0,4.0,4.0,20.0,21.0,24.0,25.0" n="1"/>
56 <has_line_matching expression="B,4.0,0.0,8.0,16.0,17.0,20.0,21.0" n="1"/>
57 <has_line_matching expression="C,4.0,8.0,0.0,16.0,17.0,20.0,21.0" n="1"/>
58 <has_line_matching expression="D,8.0,4.0,4.0,0.0,1.0,4.0,5.0" n="1"/>
54 </assert_contents> 59 </assert_contents>
55 </output> 60 </output>
56 </test> 61 </test>
57 </tests> 62 </tests>
58 <help><![CDATA[Create a compound to compound distance matrix. 63 <help><![CDATA[Create a compound to compound distance matrix.