Mercurial > repos > anmoljh > candidate_compound_select

annotate select_compound.xml @ 0:557baa97ed72 draft

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author anmoljh
date Mon, 12 Jun 2017 08:59:52 -0400
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children 3bd5537cc516
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1 <?xml version="1.0"?>
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2 <tool id="select_compound" name="Select Compounds based of score" version="1.0">
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3 <description>This tool selects compounds from prediction result based on given score</description>
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4
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5 <stdio>
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6 <exit_code range="1:" />
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7 </stdio>
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8
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9 <command interpreter="Rscript">select_compound.R $predictionfile $LT $GT $type $SelectedCompound </command>
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11 <inputs>
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12 <param name="predictionfile" type="data" format="txt,tabular,csv" label="Predition Result File" help ="upload gcac prediction result file " />
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13 <param name="type" type="select" label="Active/Positive or Inactive/Negative" help ="select type of molecule">
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14 <option value="Active" selected="True">Active/Positive</option>
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15 <option value="Inactive">Inactive/Negative</option>
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16 </param>
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17 <param name="GT" type="float" value="0.5" label="Score greater than and equal to" help ="define value above which compound selected default is 0.5" />
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18 <param name="LT" type="float" value="1.0" label="Score less than and equal to" help ="define value below which compound selected default is 1" />
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19 </inputs>
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20
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21 <outputs>
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22 <data name="SelectedCompound" format="txt" label="Refind-${predictionfile.name}" />
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23 </outputs>
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24 <tests>
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25 <test>
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26 <param name="predictionfile" value="prediction_set_result.txt" />
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27 <param name="type" value="Active" />
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28 <param name="GT" value="0.5" />
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29 <param name="LT" value="1.0" />
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30 <output name="SelectedCompound" file="selected_prediction_set_result.txt" compare="sim_size" delta="4000" />
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31 </test>
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32 </tests>
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33 <help></help>
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34 </tool>