Try to write the data.frame to file in blocks of rows by calling write.table() multiple times - see argument 'append' for write.table(). That will probably require less memory.
/Henrik On Tue, Apr 15, 2008 at 6:12 PM, Xiaojing Wang <[EMAIL PROTECTED]> wrote: > Hello, all, > > First thanks in advance for helping me. > > I am now handling a data frame, dimension 11095400 rows and 4 columns. It > seems work perfect in my MAC R (Mac Pro, Intel Chip with 4G RAM) until I was > trying to write this file out using the command: > > write.table(all,file="~/Desktop/alex.lgen",sep=" > ",row.names=F,na="0",quote=F,col.names=F) > > I got the error message: > > R(319,0xa000d000) malloc: *** vm_allocate(size=88764416) failed (error > code=3) > R(319,0xa000d000) malloc: *** error: can't allocate region > R(319,0xa000d000) malloc: *** set a breakpoint in szone_error to debug > > > I then confirmed in Windows (Windows XP, 1G RAM) R by trying it again. It > seems that it has to do with my R memory limit allocation. > > I read all the online help and still could not figure out the way to solve > the problem. Also I do not understand why the data could be easily handled > within R but could not write out due to the insufficient memory. I am not > good at both R and computers. Sorry for my naive questions if it sounds > bothersome. > > > -- > Xiaojing WANG > Dept. of Human Genetics > Univ. of Pittsburgh, PA 15261 > Tel: 412-624-8157 > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. > ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
