Dear Emiliano: When they say to read the posting guide, mostly they mean read the posting guide. But I'll tell you the short version.
1. Include a full runable R program that causes the trouble you are concerned about. Include the data or a link to the data, usually the smallest possible example is what they want. They don't want 1000 lines of your dissertation project, they want 10 lines needed to produce the problem you are concerned about. The point here is this: Don't make people guess about what commands you ran or what your data actually was. You are going to get the attention of these folks one time, and you waste it by not reading the guide and not giving the full details. 2. Include the output from sessionInfo() whenever you ask a question of this sort. > sessionInfo() R version 2.15.0 (2012-03-30) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base I can tell you my best guess about what is wrong: I suspect you have a corrupted R install. If you had given us the full working code, I could have tested that theory. But, alas, I can't. Why do I think so? I've taught a course this term with 45 students and about 1 time per week, a student would turn up with that "can't allocate vector..." error you see. On Windows, sometimes it seems the problem is due to installing R as an administrator and then trying to update some packages as a non-administrator. In one really frustrating case, student has installed "car" both as admin and as the user, and the one that was at the front of the search path was damaged, but we kept removing and re-installing the other one and nothing was fixed. Until I noticed there were 2.... pj On Tue, May 22, 2012 at 11:40 AM, Emiliano Zapata <ezapata...@gmail.com> wrote: > As a continuation to my original question, here is the massage that I get: > > Error in glm.fit(x = structure(c(1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, : > cannot allocate memory block of size 2.1 Gb > > The model "glm.fit" is a logistic type (in the family of GLM) model. Maybe > this is not enough information; again!, but some feedback will be > appreciated. To me the issues appears to be associated with manipulation of > large dataset. Howeverl the algorithm runs fine in Unix; but not in Windows > (64 bits windows 7). > > EZ > > On Sun, May 20, 2012 at 4:09 PM, Emiliano Zapata <ezapata...@gmail.com>wrote: > >> Already then, thank you everyone. This information was extremly useful, >> and I'll do a better job on the web next time. >> >> On Sun, May 20, 2012 at 2:10 PM, Prof Brian Ripley >> <rip...@stats.ox.ac.uk>wrote: >> >>> On 20/05/2012 18:42, jim holtman wrote: >>> >>>> At the point in time that you get the error message, how big are the >>>> objects that you have in memory? What does 'memory.size()' show as >>>> being used? What does 'memory.limit()' show? Have you tried using >>>> 'gc()' periodically to do some garbage collection? It might be that >>>> you memory is fragmented. You need to supply some additional >>>> information. >>>> >>> >>> Either this is a 32-bit version of R in which case the wrong version is >>> being used, or your advice is wrong: there are no credible fragmentation >>> issues (and no need to use gc()) on a 64-bit build of R. >>> >>> But, we have a posting guide, we require 'at a minimum information', and >>> the OP failed to give it to us so we are all guessing, completely >>> unnecessarily. >>> >>> >>> >>>> On Sun, May 20, 2012 at 12:09 PM, Emiliano Zapata<ezapata...@gmail.com> >>>> wrote: >>>> >>>>> ---------- Forwarded message ---------- >>>>> From: Emiliano Zapata<ezapata...@gmail.com> >>>>> Date: Sun, May 20, 2012 at 12:09 PM >>>>> Subject: >>>>> To: R-help@r-project.org >>>>> >>>>> >>>>> Hi, >>>>> >>>>> I have a 64 bits machine (Windows) with a total of 192GB of physical >>>>> memory >>>>> (RAM), and total of 8 CPU. I wanted to ask how can I make R make use of >>>>> all >>>>> the memory. I recently ran a script requiring approximately 92 GB of >>>>> memory >>>>> to run, and got the massage: >>>>> >>>>> cannot allocate memory block of size 2.1 Gb >>>>> >>>>> >>>>> >>>>> I read on the web that if you increase the memory you have to reinstall >>>>> R; >>>>> would that be enough. Could I just increase the memory manually. >>>>> >>>>> >>>>> Take you for any comments, or links on the web. >>>>> >>>>> >>>>> EZ >>>>> >>>>> [[alternative HTML version deleted]] >>>>> >>>>> ______________________________**________________ >>>>> R-help@r-project.org mailing list >>>>> https://stat.ethz.ch/mailman/**listinfo/r-help<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. >>>>> >>>> >>>> >>>> >>>> >>> >>> -- >>> Brian D. Ripley, rip...@stats.ox.ac.uk >>> Professor of Applied Statistics, >>> http://www.stats.ox.ac.uk/~**ripley/<http://www.stats.ox.ac.uk/%7Eripley/> >>> University of Oxford, Tel: +44 1865 272861 (self) >>> 1 South Parks Road, +44 1865 272866 (PA) >>> Oxford OX1 3TG, UK Fax: +44 1865 272595 >>> >> >> > > [[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. -- Paul E. Johnson Professor, Political Science Assoc. Director 1541 Lilac Lane, Room 504 Center for Research Methods University of Kansas University of Kansas http://pj.freefaculty.org http://quant.ku.edu ______________________________________________ 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.
