Mercurial > repos > pablocarb > synbiodesign
annotate selenzyme.xml @ 10:6a1fbacdfaf5 draft
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author | pablocarb |
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date | Fri, 03 May 2019 05:18:02 -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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18 |
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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> |