Mercurial > repos > pablocarb > synbiodesign

annotate rpviz.xml @ 13:c62cf8c1b07c draft

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planemo upload commit 0591498e2981df704f3cc86539b1f90dd642dbb9
author pablocarb
date Tue, 11 Jun 2019 05:02:24 -0400
parents ced66a3d2814
children ff6c33d3a9d5
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1 <tool id="rpviz" name="rpVisualizer" version="0.1.0" python_template_version="3.5">
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2 <description>Pathway visualizer</description>
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3 <requirements>
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4 <requirement type="package">libsbml</requirement>
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5 <requirement type="package">networkx</requirement>
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6 <requirement type="package">beautifulsoup4</requirement>
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7 <requirement type="package">rdkit</requirement>
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8 </requirements>
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9 <command detect_errors="exit_code"><![CDATA[
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10 if [ ! -d rpviz ]
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11 then
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12 git clone https://github.com/pablocarb/rpviz.git $__tool_directory__/rpviz > /dev/null
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13 else
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14 cd $__tool_directory__/rpviz; git pull; cd ..
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15 fi
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16 cd $__tool_directory__
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17 python $__tool_directory__/toolVisualizer.py $input1 $output1
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18 ]]></command>
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19 <inputs>
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20 <param type="data" name="input1" format="xml" />
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21 </inputs>
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22 <outputs>
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23 <data name="output1" format="html" from_work_dir="out.html" />
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24 </outputs>
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25 <help><![CDATA[
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26 python3 toolVisualizer.py inputfile outputfile
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27 ]]></help>
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28 </tool>