# HG changeset patch
# User jfb
# Date 1556396095 14400
# Node ID 9243cdb8699787992e1878b7f001538a2fcf2c78
# Parent  153ed20b5aab3f80c718d34b8639a6d8a35c8637
Uploaded

diff -r 153ed20b5aab -r 9243cdb86997 scoring function/KinatestScoring.xml
--- a/scoring function/KinatestScoring.xml	Sat Apr 27 16:09:28 2019 -0400
+++ b/scoring function/KinatestScoring.xml	Sat Apr 27 16:14:55 2019 -0400
@@ -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 M6 M5 M4 M3 M2 M1 D0 P1 P2 P3 P4 P5 P6
+        Rscript '$__tool_directory__/KinatestFisherScoring.R' outGroup Ms Mfi Mfo Mth Mtw Mo Dz Po Ptw Pth Pfo Pfi Ps
     ]]></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="M6" type="text" value="ACD" label="Amino Acid(s) in -6 Position"/>
-		<param name="M5" type="text" value="EFG" label="Amino Acid(s) in -5 Position"/>
-		<param name="M4" type="text" value="HIK" label="Amino Acid(s) in -4 Position"/>
-		<param name="M3" type="text" value="LMN" label="Amino Acid(s) in -3 Position"/>
-		<param name="M2" type="text" value="PQR" label="Amino Acid(s) in -2 Position"/>
-		<param name="M1" type="text" value="STV" label="Amino Acid(s) in -1 Position"/>
-		<param name="D0" type="text" value="Y" label="Amino Acid(s) in Central Position"/>
-		<param name="P1" type="text" value="VTS" label="Amino Acid(s) in +1 Position"/>
-		<param name="P2" type="text" value="RQP" label="Amino Acid(s) in +2 Position"/>
-		<param name="P3" type="text" value="NML" label="Amino Acid(s) in +3 Position"/>
-		<param name="P4" type="text" value="KIH" label="Amino Acid(s) in +4 Position"/>
-		<param name="P5" type="text" value="GFE" label="Amino Acid(s) in +5 Position"/>
-		<param name="P6" type="text" value="DCA" label="Amino Acid(s) in +6 Position"/>
+		<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="Pf" 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="outGroup" type="text" value="kinase" label="Kinase Name"/>
     </inputs>      
     <outputs>