Clean up templates

workflow/templates/qhtcp/Code/GTAtemplate.R

@@ -1,27 +1,27 @@
 #GTA (GoTermAveraging) Starting (Working Directory is /Code) All paths relative to /Code
 #Your output  may not be reproducible as org.Sc.sgd.db is uploaded from Bioconductor R library and changes
 #Loops thru the number of experiments involved in study. JWR
-         Wstudy= getwd()
-         if (file.exists('../Exp1/ZScores/ZScores_Interaction.csv')){
-           inputFile <- '../Exp1/ZScores/ZScores_Interaction.csv'
-           expName= "Exp1"
-           dir.create("../GTAresults/Exp1")
-         }
-         if (file.exists('../Exp2/ZScores/ZScores_Interaction.csv')){
-           inputFile[2] <- '../Exp2/ZScores/ZScores_Interaction.csv'
-           expName[2]= "Exp2"
-           dir.create("../GTAresults/Exp2")
-         }
-         if (file.exists('../Exp3/ZScores/ZScores_Interaction.csv')){
-           inputFile[3] <- '../Exp3/ZScores/ZScores_Interaction.csv'
-           expName[3]= "Exp3"
-           dir.create("../GTAresults/Exp3")
-         }
-         if (file.exists('../Exp4/ZScores/ZScores_Interaction.csv')){
-           inputFile[4] <- '../Exp4/ZScores/ZScores_Interaction.csv'
-           expName[4]= "Exp4"
-           dir.create("../GTAresults/Exp4")
-         }
+Wstudy= getwd()
+if (file.exists('../Exp1/ZScores/ZScores_Interaction.csv')){
+  inputFile <- '../Exp1/ZScores/ZScores_Interaction.csv'
+  expName= "Exp1"
+  dir.create("../GTAresults/Exp1")
+}
+if (file.exists('../Exp2/ZScores/ZScores_Interaction.csv')){
+  inputFile[2] <- '../Exp2/ZScores/ZScores_Interaction.csv'
+  expName[2]= "Exp2"
+  dir.create("../GTAresults/Exp2")
+}
+if (file.exists('../Exp3/ZScores/ZScores_Interaction.csv')){
+  inputFile[3] <- '../Exp3/ZScores/ZScores_Interaction.csv'
+  expName[3]= "Exp3"
+  dir.create("../GTAresults/Exp3")
+}
+if (file.exists('../Exp4/ZScores/ZScores_Interaction.csv')){
+  inputFile[4] <- '../Exp4/ZScores/ZScores_Interaction.csv'
+  expName[4]= "Exp4"
+  dir.create("../GTAresults/Exp4")
+}
          
 outputPathGTA= "../GTAresults"
         #dir.create(outPathGTA)

workflow/templates/qhtcp/Code/StudyInfo.csv

@@ -2,4 +2,3 @@ ExpNumb,ExpLabel,BackgroundSD,ZscoreJoinSD,AnalysisBy
 1,ExpName1,NA,NA,UserInitials
 2,ExpName2,NA,NA,UserInitials
 3,ExpName3,NA,NA,UserInitials
-4,ExpName4,NA,NA,UserInitials