[R] ERROR : cannot allocate vector of size (in MB & GB)

[jim holtman]

try this:

input <- file("yourLargeCSV", "r")
fileNo <- 1
repeat{
    myLines <- readLines(input, n=100000) # 100K lines / file
    if (length(myLines) == 0) break
    writeLines(myLines, sprintf("output%03d.csv", fileNo))
    fileNo <- fileNo + 1
}
close(input)


On Tue, Jul 24, 2012 at 9:45 AM, Rantony <antony.akkara at ge.com> wrote:
> Hi,
>
> Here in R, I need to load a huge file(.csv) , its size is 200MB. [may come
> more than 1GB sometimes].
> When i tried to load into a variable it taking too much of time and after
> that when i do cbind by groups,
> getting an error like this
>
> " Error: cannot allocate vector of size 82.4 Mb "
>
> My requirement is, spilt data from Huge-size-file(.csv) to no. of small csv
> files.
> Here i will give no of lines to be 'split by' as input.
>
> Below i give my code
> -------------------------------
>                 SplitLargeCSVToMany <- function(DataMatrix,Destination,NoOfLineToGroup)
>                 {
>                         test <- data.frame(read.csv(DataMatrix))
>
>                         # create groups No.of rows
>                         group <- rep(1:NROW(test), each=NoOfLineToGroup)
>                         new.test <- cbind(test, group=group)
>                         new.test2 <- new.test
>                         new.test2[,ncol(new.test2)] <- NULL
>
>                         # now get indices to write out
>                         indices <- split(seq(nrow(test)), new.test[, 'group'])
>
>                         # now write out the files
>                         for (i in names(indices))
>                         {
>                         write.csv(new.test2[indices[[i]],], file=paste(Destination,"data.", i,
> ".csv", sep=""),row.names=FALSE)
>                         }
>                 }
>
> -----------------------------------------------------
> My system Configuration is,
> Intel Core2 Duo
> speed : 3GHz
> 2 GB RAM
> OS: Windows-XP [ServicePack-3]
> ---------------------------------------------------
>
> Any hope to solve this issue ?
>
> Thanks in advance,
> Antony.
>
>
>
>
> --
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>
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-- 
Jim Holtman
Data Munger Guru

What is the problem that you are trying to solve?
Tell me what you want to do, not how you want to do it.