Mercurial > repos > jfb > kinatest_scoring_function

comparison scoring function/KinatestScoring.xml @ 8:ff1ff59af83c draft

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author jfb
date Sat, 27 Apr 2019 16:53:24 -0400
parents 9243cdb86997
children 9e6f02d7d820
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7:9243cdb86997 8:ff1ff59af83c
5 </requirements> 5 </requirements>
6 <command><![CDATA[ 6 <command><![CDATA[
7 ln -s '$__tool_directory__/screener.csv' screener.csv && 7 ln -s '$__tool_directory__/screener.csv' screener.csv &&
8 ln -s '$FisherTable' Fisher-Char.csv && 8 ln -s '$FisherTable' Fisher-Char.csv &&
9 ln -s '$CharacterizationTable' Fisher-Table.csv && 9 ln -s '$CharacterizationTable' Fisher-Table.csv &&
10 Rscript '$__tool_directory__/KinatestFisherScoring.R' outGroup Ms Mfi Mfo Mth Mtw Mo Dz Po Ptw Pth Pfo Pfi Ps 10 Rscript '$__tool_directory__/KinatestFisherScoring.R' $outGroup $Ms $Mfi $Mfo $Mth $Mtw $Mo $Dz $Po $Ptw $Pth $Pfo $Pfi $Ps
11 ]]></command> 11 ]]></command>
12 <inputs> 12 <inputs>
13 <param format="csv" name="FisherTable" type="data" label="Fisher Odds Table output"/> 13 <param format="csv" name="FisherTable" type="data" label="Fisher Odds Table output"/>
14 <param format="csv" name="CharacterizationTable" type="data" label="Characterization Table Output"/> 14 <param format="csv" name="CharacterizationTable" type="data" label="Characterization Table Output"/>
15 <param name="Ms" type="text" value="ACD" label="Amino Acid(s) in -6 Position"/> 15 <param name="Ms" type="text" value="ACD" label="Amino Acid(s) in -6 Position"/>