Thanks for your reply. Does what you said by resources mean memory or something else? Inside my loop, I removed the objects that are created but not used by the next loop and did garbage collection as well. Do you have any idea how I should modify my code such that the system won't kill it? Thanks.
On Thu, Aug 23, 2012 at 5:06 PM, Jeff Newmiller <jdnew...@dcn.davis.ca.us>wrote: > Yes. Operating systems kill processes that consume excessive resources. > That excess may arise from one large computation or from a small one on top > of many other allocations... the "straw that broke the camel's back" > problem. > --------------------------------------------------------------------------- > Jeff Newmiller The ..... ..... Go Live... > DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. Live > Go... > Live: OO#.. Dead: OO#.. Playing > Research Engineer (Solar/Batteries O.O#. #.O#. with > /Software/Embedded Controllers) .OO#. .OO#. rocks...1k > --------------------------------------------------------------------------- > Sent from my phone. Please excuse my brevity. > > flora flora <floraflora...@gmail.com> wrote: > > >I tried to use gpuCor function in the gputools package of R to calcuate > >the > >pairwise correlations of a matrix of 40,000 columns. > > > >Becuase there would be memory issues if I use the whole matrix at a > >time, I > >splitted the matrix into submatrix of 10,000 columns and then calculate > >the > >pairwise correlation of different submatrices. There are altogether 4 > >submatrices, so I need to calculate the pearson correlation of sub > >matrix 1 > >with sub matrix 1,2,3,4, and sub matrix 2 with submatrix 1,2,3,4, etc. > > > >The program runs well at first, but at the last step, which is > >calculating > >the correlation between submatrix 4 with itself, the program was killed > >and > >gave no error messages. > > > >Have anybody else encountered this before? > > > >Actually it doesn't have to be related with gpuCor. Just generally > >speaking, in what circumstances would a R program be killed > >spontaneously > >without any error messages? > > > >Thanks. > > > > [[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<http://www.r-project.org/posting-guide.html> > >and provide commented, minimal, self-contained, reproducible code. > > [[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.
