# HG changeset patch
# User deepakjadmin
# Date 1453450786 18000
# Node ID 874a905405dbd8b47d5919883bec72c9cc84f4d1
Uploaded
diff -r 000000000000 -r 874a905405db csv2rdatatrain.R
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/csv2rdatatrain.R Fri Jan 22 03:19:46 2016 -0500
@@ -0,0 +1,29 @@
+args <- commandArgs(TRUE)
+####source("/home/galaxy/galaxy-dist/tools/mpdstools/tool1/csv2rdatatrain2.R")
+
+csv2rdatatrain <- function(arg1,arg2)
+{
+ file <- read.csv(arg1,row.names =1, header=T)
+ col <- ncol(file)
+ stopifnot(is.null(file) | col > 2 )
+
+ #cat("the Outcome column is not a factor vector.\n",file=stderr())
+ stopifnot(is.factor(file[,col]))
+
+ if(levels(file[,col])[1] != ""){
+ dataX <- file[,1:(col-1)]
+ dataY <- file[,col]
+ stopifnot(nrow(dataX) == length(dataY))
+ save(dataX,dataY,file=arg2)
+ }
+ else{
+ cat("the Outcome column has less number of entry than number of compounds.please check input file.\n",file=stderr())
+ }
+ }
+
+csv2rdatatrain(args[1],args[2])
+
+
+
+
+
diff -r 000000000000 -r 874a905405db tool1V2.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool1V2.xml Fri Jan 22 03:19:46 2016 -0500
@@ -0,0 +1,39 @@
+
+
+This Tool Converts Input csv File into RData Which Is Further Used for Model Building
+
+
+
+ CARET_TOOL1_PATH
+ R_ROOT_DIR
+ R
+
+ csv2rdatatrain.R $file1 $RData
+
+
+
+
+
+
+
+.. class:: infomark
+
+**Input "csv file" format must be as given below :**
+
+
+"",feature1,feaure2,feature3,..,activity
+
+
+cpd1,623,0.4,3.4,..,Active
+
+cpd2,234,0.9,5.6,..,Inactive
+
+cpd3,567,0.5,3.14,..,Active
+
+cpd4,231,0.1,1.2,..,Inactive
+
+here "cpd" stands for name or id of a compound. It is rowname with no column header.
+
+
+
+
diff -r 000000000000 -r 874a905405db tool_dependencies.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml Fri Jan 22 03:19:46 2016 -0500
@@ -0,0 +1,8 @@
+
+
+
+
+ $REPOSITORY_INSTALL_DIR
+
+
+