Mercurial > repos > metexplore > met4j

annotate build/tools/Kegg2Sbml/Kegg2Sbml.xml @ 10:6a112eaf8f38 draft

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 71071300dd662ad01bd064abcf6866a192eeea95
author metexplore
date Mon, 03 Feb 2025 15:59:46 +0000
parents 0976a6257300
children 40c15b7467f1
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0976a6257300 planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 05db35f63cadb9d56dafff594a3507c59cd85273
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1 <?xml version="1.0" encoding="UTF-8" standalone="no"?>
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6a112eaf8f38 planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 71071300dd662ad01bd064abcf6866a192eeea95
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2 <tool id="met4j_Kegg2Sbml" name="Kegg2Sbml" version="2.0.0">
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3 <description>Build a SBML file from KEGG organism-specific pathways. Uses Kegg API.</description>
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4 <xrefs>
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5 <xref type="bio.tools">met4j</xref>
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6 </xrefs>
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7 <requirements>
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6a112eaf8f38 planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 71071300dd662ad01bd064abcf6866a192eeea95
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8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:2.0.0</container>
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9 </requirements>
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10 <command detect_errors="exit_code"><![CDATA[sh /usr/bin/met4j.sh convert.Kegg2Sbml#if str($org):
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11 -org "$org"
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12 #end if
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0976a6257300 planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 05db35f63cadb9d56dafff594a3507c59cd85273
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13 -o "$sbml"
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14 ]]></command>
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15 <inputs>
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16 <param argument="-org" label="[] Kegg org id. Must be 3 letters (" name="org" optional="true" type="text" value="">
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17 <sanitizer invalid_char="_">
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18 <valid initial="string.printable"/>
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19 </sanitizer>
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20 </param>
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21 </inputs>
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22 <outputs>
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23 <data format="sbml" name="sbml"/>
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24 </outputs>
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25 <tests/>
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26 <help><![CDATA[Build a SBML file from KEGG organism-specific pathways. Uses Kegg API.
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27 Errors returned by this program could be due to Kegg API dysfunctions or limitations. Try later if this problem occurs.]]></help>
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28 <citations/>
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29 </tool>