Mercurial > repos > metexplore > met4j

comparison tools/attributes/GetMetaboliteAttributes/GetMetaboliteAttributes.xml @ 9:0976a6257300 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 05db35f63cadb9d56dafff594a3507c59cd85273
author metexplore
date Fri, 31 Jan 2025 18:28:53 +0000
parents
children 6a112eaf8f38
comparison
equal deleted inserted replaced
8:1274e2a62479 9:0976a6257300
1 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
2 <tool id="met4j_GetMetaboliteAttributes" name="GetMetaboliteAttributes" version="develop">
3 <description>Create a tabulated file with metabolite attributes from a SBML file</description>
4 <xrefs>
5 <xref type="bio.tools">met4j</xref>
6 </xrefs>
7 <requirements>
8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:develop</container>
9 </requirements>
10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh attributes.GetMetaboliteAttributes -i "$sbml"
11 -o "$outputFile"
12 ]]></command>
13 <inputs>
14 <param argument="-i" format="sbml" label="Input SBML file" name="sbml" optional="false" type="data" value=""/>
15 </inputs>
16 <outputs>
17 <data format="tsv" name="outputFile"/>
18 </outputs>
19 <tests>
20 <test>
21
22
23
24
25
26
27 <param name="sbml" value="toy_model.xml"/>
28
29
30
31
32
33
34 <output ftype="tsv" name="outputFile">
35
36
37
38
39
40
41 <assert_contents>
42
43
44
45
46
47
48 <has_n_lines n="9"/>
49
50
51
52
53
54
55 <has_n_columns n="6"/>
56
57
58
59
60
61
62 <has_line_matching expression=".*1S/C2H6O/c1-2-3/h3H,2H2,1H3.*" n="1"/>
63
64
65
66
67
68
69 <has_line_matching expression=".*C.*NC.*" n="1"/>
70
71
72
73
74
75
76 </assert_contents>
77
78
79
80
81
82
83 </output>
84
85
86
87
88
89
90 </test>
91 </tests>
92 <help><![CDATA[Create a tabulated file with metabolite attributes from a SBML file]]></help>
93 <citations/>
94 </tool>