diff ToolShedTest/IO_test.R @ 0:be1a1416cf28 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ToolShedTest/IO_test.R	Thu Jan 09 07:54:55 2014 -0500
@@ -0,0 +1,33 @@
+# AIM: Test some IO features betweent Python/Galaxy and R
+# 
+# Author: Christian Hundsrucker
+###############################################################################
+#options(echo=FALSE) #non-interactive -> galaxy
+#options(echo=TRUE)
+#I/O
+#args: filename input
+cargs <- commandArgs(trailingOnly = TRUE)
+args.no<-length(cargs)-1 #last argument is output-file
+outputfile<-cargs[args.no+1]
+
+#functions
+mapKV<-function(keyValue){
+	if (length(keyValue)>2){
+		stop("Wrong arguments used!")
+	}
+	if (length(keyValue)==2){
+		value<-keyValue[2]
+		names(value)<-keyValue[1]
+	}else {
+		value<-keyValue[1]
+		names(value)<-""
+	}
+	return(value)
+}
+
+KVargs<-strsplit(cargs[1:args.no],"([ \t])*=([ \t])*",fixed = FALSE, perl = FALSE, useBytes = FALSE)
+keyValues<-unlist(lapply(KVargs,mapKV))
+
+output<-paste(names(keyValues),keyValues,sep=" -- ")
+output<-paste(output,"\n","current dir: ",getwd(),"\n",sep="")
+capture.output(print(output),file=outputfile,append=FALSE)