Mercurial > repos > metexplore > met4j

annotate build/tools/Kegg2Sbml/Kegg2Sbml.xml @ 6:7a6f2380fc1d draft

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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
author metexplore
date Wed, 17 May 2023 13:26:37 +0000
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7a6f2380fc1d planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
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1 <?xml version="1.0" encoding="UTF-8"?>
7a6f2380fc1d planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
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2 <tool id="met4j_Kegg2Sbml" name="Kegg2Sbml" version="1.3.0">
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3 <description>Build a SBML file from KEGG organism-specific pathways. Uses Kegg API.</description>
7a6f2380fc1d planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
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4 <xrefs>
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5 <xref type="bio.tools">met4j</xref>
7a6f2380fc1d planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
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6 </xrefs>
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7 <requirements>
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8 <container type="singularity">oras://registry.forgemia.inra.fr/metexplore/met4j/met4j-singularity:1.3.0</container>
7a6f2380fc1d planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy
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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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13 -sbml "$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>