# HG changeset patch
# User fubar
# Date 1425208654 18000
# Node ID dbe3825e385cd4aebbf9b13da67d8fd4a5fa8283
# Parent  7b34711416d29e67cf7abc68fbf4bad85fdf5d14
Uploaded

diff -r 7b34711416d2 -r dbe3825e385c rgToolFactory.xml
--- a/rgToolFactory.xml	Sun Mar 01 05:57:52 2015 -0500
+++ b/rgToolFactory.xml	Sun Mar 01 06:17:34 2015 -0500
@@ -206,8 +206,8 @@
 This can be handy for complex scripts creating lots of output.
 
 **Examples**
+
 <![CDATA[
-
 Each of these following trivial examples can be cut and pasted into the script box for testing.
 Please make sure you choose the appropriate interpreter and upload and select a suitable small matching test data input
 
@@ -258,18 +258,18 @@
     dev.off()
  }
 
-A slight variation taking an input tabular file from which we read the first number as nreps
+A slight variation taking an input tabular file from which we read the first number as nreps::
 
-# note this script takes a single parameter
-# number of replicates
-ourargs = commandArgs(TRUE)
-infname = ourargs[1]
-nreps = read.table(infname,head=F)
-nreps = unlist(nreps)[1]
-nreps = max(c(1,nreps))
-nreps = min(c(20,nreps))
-print(paste("Using nreps=",nreps))
-for (i in 1:nreps) {
+ # note this script takes a single parameter
+ # number of replicates
+ ourargs = commandArgs(TRUE)
+ infname = ourargs[1]
+ nreps = read.table(infname,head=F)
+ nreps = unlist(nreps)[1]
+ nreps = max(c(1,nreps))
+ nreps = min(c(20,nreps))
+ print(paste("Using nreps=",nreps))
+ for (i in 1:nreps) {
    foo = runif(100)
    bar = rnorm(100)
    bar = foo + 0.2*bar
@@ -281,7 +281,7 @@
    pdf(paste("yet",i,"anotherheatmap.pdf",sep="_"))
    heatmap(bar,main="Random Heatmap")
    dev.off()
-}
+ }
 
 A Python example that reverses each row of a tabular file (you'll need to remove the leading spaces 
 for this to work if cut and pasted into the script box)::
@@ -328,6 +328,7 @@
 
 ]]>
 
+
 **Citation**