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annotate selenzyme.xml @ 3:f3771c0a2327 draft

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author pablocarb
date Thu, 02 May 2019 07:23:22 -0400
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1 <tool id="selenzyme" name="Selenzyme" version="0.1.0">
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2 <description>enzyme sequence selection from reaction template</description>
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3 <requirements>
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4 <requirement type="package" version="2">requests</requirement>
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5 </requirements>
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6 <command detect_errors="exit_code"><![CDATA[
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7 python $__tool_directory__/toolSelenzyme.py $input1 $output1 -server $server
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8 ]]></command>
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9 <inputs>
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10 <param type="data" name="input1" format="csv" />
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11 <param name="server" type="text" label="Selenzyme RES server" value="http://selenzyme.synbiochem.co.uk/REST" help="Selenzyme REST server" />
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12 </inputs>
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13 <outputs>
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14 <data name="output1" format="csv" from_work_dir="out.csv" />
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15 </outputs>
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16 <help><![CDATA[
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17 usage: toolSelenzyme.py [-h] [-server SERVER] infile outfile
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19 toolSelenzyme: Enzyme sequence selection. Pablo Carbonell, SYNBIOCHEM, 2019
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20
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21 positional arguments:
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22 infile Input csv file.
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23 outfile Input csv file.
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24
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25 optional arguments:
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26 -h, --help show this help message and exit
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27 -server SERVER Selenzyme server.
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28
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29 ]]></help>
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30 <citations>
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31 <citation type="doi">10.1093/bioinformatics/bty065</citation>
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32 </citations>
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33 </tool>