| Previous changeset 9:9e6f02d7d820 (2019-04-27) Next changeset 11:7dff31e9a48f (2019-04-29) |
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scoring function/KinatestScoring.xml |
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| diff -r 9e6f02d7d820 -r 1816bf5d1735 scoring function/KinatestScoring.xml --- a/scoring function/KinatestScoring.xml Sat Apr 27 17:02:02 2019 -0400 +++ b/scoring function/KinatestScoring.xml Sat Apr 27 17:32:08 2019 -0400 |
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| @@ -7,24 +7,24 @@ ln -s '$__tool_directory__/screener.csv' screener.csv && ln -s '$FisherTable' Fisher-Char.csv && ln -s '$CharacterizationTable' Fisher-Table.csv && - Rscript '$__tool_directory__/KinatestFisherScoring.R' $outGroup $Ms $Mfi $Mfo $Mth $Mtw $Mo $Dz $Po $Ptw $Pth $Pfo $Pfi $Ps + Rscript '$__tool_directory__/KinatestFisherScoring.R' ${outGroup} ${Msix} ${Mfive} ${Mfour} ${Mthree} ${Mtwo} ${Mone} ${Dzero} ${Pone} ${Ptwo} ${Pthree} ${Pfour} ${Pfive} ${Psix} ]]></command> <inputs> <param format="csv" name="FisherTable" type="data" label="Fisher Odds Table output"/> <param format="csv" name="CharacterizationTable" type="data" label="Characterization Table Output"/> - <param name="Ms" type="text" value="ACD" label="Amino Acid(s) in -6 Position"/> - <param name="Mfi" type="text" value="EFG" label="Amino Acid(s) in -5 Position"/> - <param name="Mfo" type="text" value="HIK" label="Amino Acid(s) in -4 Position"/> - <param name="Mth" type="text" value="LMN" label="Amino Acid(s) in -3 Position"/> - <param name="Mtw" type="text" value="PQR" label="Amino Acid(s) in -2 Position"/> - <param name="Mo" type="text" value="STV" label="Amino Acid(s) in -1 Position"/> - <param name="Dz" type="text" value="Y" label="Amino Acid(s) in Central Position"/> - <param name="Po" type="text" value="VTS" label="Amino Acid(s) in +1 Position"/> - <param name="Ptw" type="text" value="RQP" label="Amino Acid(s) in +2 Position"/> - <param name="Pth" type="text" value="NML" label="Amino Acid(s) in +3 Position"/> - <param name="Pfo" type="text" value="KIH" label="Amino Acid(s) in +4 Position"/> - <param name="Pfi" type="text" value="GFE" label="Amino Acid(s) in +5 Position"/> - <param name="Ps" type="text" value="DCA" label="Amino Acid(s) in +6 Position"/> + <param name="Msix" type="text" value="ACD" label="Amino Acid(s) in -6 Position"/> + <param name="Mfive" type="text" value="EFG" label="Amino Acid(s) in -5 Position"/> + <param name="Mfour" type="text" value="HIK" label="Amino Acid(s) in -4 Position"/> + <param name="Mthree" type="text" value="LMN" label="Amino Acid(s) in -3 Position"/> + <param name="Mtwo" type="text" value="PQR" label="Amino Acid(s) in -2 Position"/> + <param name="Mone" type="text" value="STV" label="Amino Acid(s) in -1 Position"/> + <param name="Dzero" type="text" value="Y" label="Amino Acid(s) in Central Position"/> + <param name="Pone" type="text" value="VTS" label="Amino Acid(s) in +1 Position"/> + <param name="Ptwo" type="text" value="RQP" label="Amino Acid(s) in +2 Position"/> + <param name="Pthree" type="text" value="NML" label="Amino Acid(s) in +3 Position"/> + <param name="Pfour" type="text" value="KIH" label="Amino Acid(s) in +4 Position"/> + <param name="Pfive" type="text" value="GFE" label="Amino Acid(s) in +5 Position"/> + <param name="Psix" type="text" value="DCA" label="Amino Acid(s) in +6 Position"/> <param name="outGroup" type="text" value="kinase" label="Kinase Name"/> </inputs> <outputs> |