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1 <tool id="survival" name="survival" version="1.0.0">
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2 <description>core survival analysis</description>
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3 <requirements>
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4 <requirement type="package" version="2.40_1">r-survival</requirement>
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5 </requirements>
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6 <command detect_errors="aggressive">
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7 Rscript '$__tool_directory__/survival.R' '$input' '$fit' '$png'
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8 </command>
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9 <inputs>
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10 <param format="csv" type="data" name="input" value="" label="survival data" help="e.g. ''"/>
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11 </inputs>
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12 <outputs>
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13 <data format="csv" name="fit" label="survfit.csv" />
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14 <data format="png" name="png" label="survfit.png" />
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15 </outputs>
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16 <tests>
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17 <test>
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18 <param name="test">
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19 <element name="test-data">
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20 <collection type="data">
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21 <element format="csv" name="input" label="test-data/input.csv"/>
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22 </collection>
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23 </element>
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24 </param>
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25 <output format="csv" name="fit" label="test-data/survfit.csv"/>
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26 <output fformat="png" name="png" label="test-data/survfit.png"/>
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27 </test>
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28 </tests>
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29 <help>
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30 **Contains the core survival analysis routines, including definition of Surv objects, Kaplan-Meier**
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31 </help>
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32 <citations>
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33 <citation>https://CRAN.R-project.org/package=survival</citation>
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34 </citations>
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35 </tool>
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