diff cluster.tools/cluster.tab.2.rdata.R @ 8:a58527c632b7 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cluster.tools/cluster.tab.2.rdata.R	Mon Mar 11 16:31:29 2013 -0400
@@ -0,0 +1,35 @@
+#!/usr/bin/env Rscript
+argspec <- c("tab.2.cdt.R converts a data matrix to cdt format
+
+        Usage: 
+                tab.2.cdt.R -d <data.file> 
+        Optional:
+                            -o <output_file>
+                \n\n")
+args <- commandArgs(TRUE)
+if ( length( args ) == 1 && args =="--help") { 
+  write(argspec, stderr())
+  q();
+}
+
+
+lib.load.quiet <- function( package ) {
+   package <- as.character(substitute(package))
+   suppressPackageStartupMessages( do.call( "library", list( package=package ) ) )
+}
+lib.load.quiet(getopt)
+
+
+spec <- matrix( c( "data.fname",      "d", 1, "character",
+                   "output.fname",    "o", 2, "character"
+                   ),
+                nc=4,
+                byrow=TRUE
+               )
+
+opt <- getopt( spec=spec )
+if ( is.null( opt$output.fname ) ) opt$output.fname <- sub( "tab$|csv$", "cdt", opt$data.fname )
+
+cl <- as.matrix( read.delim( opt$data.fname, row.names=1, check.names=FALSE ) )
+cl <- cl[,1]
+save( file=opt$output.fname, cl )