I have distilled my bootstrap problem down to this bit of code, which
calculates an estimate of the 95th percentile of 7500 random numbers drawn
from a standard normal distribution:
library(boot)
per95 - function( annual.data, b.index) {
sample.data - annual.data[b.index]
On Sat, 2 Aug 2008, Tom La Bone wrote:
I have distilled my bootstrap problem down to this bit of code, which
calculates an estimate of the 95th percentile of 7500 random numbers drawn
from a standard normal distribution:
library(boot)
per95 - function( annual.data, b.index) {
sample.data -
I was suggesting adding the gc() call to help provide some additional
information on the utilization of memory. As you indicated, it
probably do not help in reducing the fragmentation of memory, but it
was worth a try to see if there was any additional information that
might be gleaned from the
The following version of boot:::ordinary.array will enable this to run in
300Mb:
ordinary.array - function(n, R, strata)
{
inds - as.integer(names(table(strata)))
if (length(inds) == 1) {
output - sample(n, n*R, replace=TRUE)
dim(output) - c(R, n)
} else {
I have a data file called inputdata.csv that looks something like this
ID YearResult Month Date
1 71741954 103 540301
2 7174195443 540322
3 20924 1967 4 2 670223
4 20924
Use gc() in the loop to possibly free up any fragmented memory. You
might also print out the size of B (object.size(B)) since that appears
to be the only variable in your loop that might be growing.
On Fri, Aug 1, 2008 at 12:09 PM, Tom La Bone [EMAIL PROTECTED] wrote:
I have a data file
Same problem. The Windows Task Manager indicated that Rgui.exe was using
1,249,722 K of memory when the error occurred. This is R 2.7.1 by the way.
library(boot)
setwd(C:/Documents and Settings/Tom/Desktop)
data.in - read.csv(inputdata.csv,header=T,as.is=T)
per95 - function(
It seems like the objects are reasonable size and the memory size also
seems reasonable. That is what I usually go by to see if there are
large objects in my memory. If it was showing that R had 1.2GB of
memory allocated to it, I wonder if there might be a memory leak
somewhere.
On Fri, Aug 1,
Here it is with the gc() in a print statement.
Tom
library(boot)
setwd(C:/Documents and Settings/Tom/Desktop)
data.in - read.csv(inputdata.csv,header=T,as.is=T)
per95 - function( annual.data, b.index) {
+ sample.data - annual.data[b.index,]
+
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