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3
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1 <tool id="cast" name="cast" version="0.0.2">
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2 <description>expand combinations of variables:values to columnar format</description>
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0
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3 <requirements>
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4 <requirement type="package">r-getopt</requirement>
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5 <requirement type="package">r-reshape2</requirement>
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6 </requirements>
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7 <stdio>
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8 <exit_code range="1:" />
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9 </stdio>
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10 <command><![CDATA[
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11 Rscript ${__tool_directory__}/cast.R --input "$input1" --output "output.tabular"
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12 ]]></command>
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13 <inputs>
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14 <param name="input1" type="data" format="tabular" label="Input should be molten data"/>
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15
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16 </inputs>
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17 <outputs>
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18 <data name="output1" format="tabular" from_work_dir="output.tabular"/>
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19 </outputs>
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20 <tests>
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21 <test>
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22 <param name="input1" value="input.txt"/>
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23 <output name="output1" file="output.tabular"/>
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24 </test>
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25 </tests>
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26 <help><![CDATA[
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27 This tool will apply the dcast function of the reshape2 R package. The input data should be in a 'long' format or molten by the melt tool. The output will be in a wide format.
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28 The cast function expands each unique variable:value combination on a single line to columnar format. Documantation on the reshape2 package can be found here: https://cran.r-project.org/web/packages/reshape2/reshape2.pdf
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29 ]]></help>
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30 <citations>
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31 <citation type="bibtex">
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32 @misc{renameTODO,
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33 author = {TODO, FirstTODO},
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34 year = {TODO},
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35 title = {TODO},
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36 url = {under construction},
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37 }</citation>
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38 </citations>
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39 </tool>
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