Mercurial > repos > caleb-easterly > peca
annotate peca.xml @ 7:6ea067ed77ac draft
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
author | caleb-easterly |
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date | Mon, 05 Mar 2018 17:30:19 -0500 |
parents | e16cd77cf9f7 |
children | 56b8fbbe6e03 |
rev | line source |
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6
e16cd77cf9f7
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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1 <tool id="peca" name="PECA" version="0.1.0"> |
e16cd77cf9f7
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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2 <description>probe-level expression change averaging</description> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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3 <requirements> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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4 <requirement type="package" version="1.14.0">bioconductor-peca</requirement> |
7
6ea067ed77ac
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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5 <requirement type="package">r-dbi</requirement> |
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f50bb34c1a37
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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6 </requirements> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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7 <command detect_errors="exit_code"><![CDATA[ |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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8 ## write groups to file |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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9 echo '$group1' > group1.txt && |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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10 echo '$group2' > group2.txt && |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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11 Rscript --vanilla '$__tool_directory__/peca.R' '$input' group1.txt group2.txt '$test_type' '$output' |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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12 ]]></command> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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13 <inputs> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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14 <param name="input" type="data" format="tabular"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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15 <param name="group1" type="data_column" data_ref="input" multiple="true"/> |
f50bb34c1a37
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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16 <param name="group2" type="data_column" data_ref="input" multiple="true"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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17 <param name="test_type" type="select"> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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18 <option value="t" selected="true">Standard t-test</option> |
5a39fa8a235a
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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19 <option value="modt">Modified t-test</option> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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20 <option value="rots">Reproducibility-optimized test statistic</option> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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21 </param> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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22 </inputs> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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23 <outputs> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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24 <data format="tabular" name="output"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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25 </outputs> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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26 <tests> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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27 <test> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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28 <param name="input" value="test.tab" ftype="tabular"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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29 <param name="group1" value="2,3,4"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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30 <param name="group2" value="5,6,7"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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31 <param name="test_type" value="t"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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32 <output name="output" file="out.tab" ftype="tabular"/> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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33 </test> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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34 </tests> |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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35 <help><![CDATA[ |
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planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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36 ]]></help> |
f50bb34c1a37
planemo upload for repository https://github.com/caleb-easterly/galaxytools/peca
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37 </tool> |