Re: [R] lmer2 error under Mac OS X on PowerPC G5 but not on Dual-Core Intel Xeon
On Jan 28, 2007, at 9:39 PM, Benilton Carvalho wrote: This seems to be due to the fact that you didn't have enough memory when running lmer2. I might be wrong, but I think Calloc tries to get contiguous memory, so this might the problem. If you are positive that you have enough memory, a gc() might help. I have 2 GB memory on this machine. Should be enough, no? gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 1008175 27.01476915 39.5 1368491 36.6 Vcells 540055 4.21031040 7.9 1031026 7.9 (fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (903190944 of 4) memory On Jan 28, 2007, at 8:35 PM, Michael Kubovy wrote: (fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (888475968 of 4) memory * sessionInfo() R version 2.4.1 (2006-12-18) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] grid datasets stats graphics grDevices utils methods [8] base other attached packages: lme4 Matrix xtable latticeExtra lattice gridBase MASS 0.9975-11 0.9975-8 1.4-3 0.1-40.14-16 0.4-3 7.2-31 JGR iplots JavaGDrJava 1.4-15 1.0-5 0.3-5 0.4-13 * lmer runs the example w/o a problem I just tried to run it on on Intel-based MacPro, and lmer2 ran without a hitch. _ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400Charlottesville, VA 22904-4400 Parcels:Room 102Gilmer Hall McCormick RoadCharlottesville, VA 22903 Office:B011+1-434-982-4729 Lab:B019+1-434-982-4751 Fax:+1-434-982-4766 WWW:http://www.people.virginia.edu/~mk9y/ __ R-help@stat.math.ethz.ch 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.
Re: [R] lmer2 error under Mac OS X on PowerPC G5 but not on Dual-Core Intel Xeon
So, I decided to give it a try (and just now noticed that this is the example in lmer2) I just gave it a try on a PPC G4 and it worked as expected. I'm copying R-sig-mac (sorry for the crosspost) as the experts there might give you a better suggestion. fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy) fm1 Linear mixed-effects model fit by REML Formula: Reaction ~ Days + (Days | Subject) Data: sleepstudy AIC BIC logLik MLdeviance REMLdeviance 1754 1770 -871.8 1752 1744 Random effects: Groups NameVariance Std.Dev. Corr Subject (Intercept) 612.128 24.7412 Days 35.049 5.9202 0.066 Residual 654.970 25.5924 Number of obs: 180, groups: Subject, 18 Fixed effects: Estimate Std. Error t value (Intercept) 251.405 6.825 36.84 Days 10.467 1.5456.77 Correlation of Fixed Effects: (Intr) Days -0.137 sessionInfo() R version 2.5.0 Under development (unstable) (2007-01-03 r40349) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] stats graphics grDevices utils datasets methods [7] base other attached packages: lme4 Matrix lattice 0.9975-11 0.9975-8 0.14-16 On Jan 29, 2007, at 7:40 AM, Michael Kubovy wrote: On Jan 28, 2007, at 9:39 PM, Benilton Carvalho wrote: This seems to be due to the fact that you didn't have enough memory when running lmer2. I might be wrong, but I think Calloc tries to get contiguous memory, so this might the problem. If you are positive that you have enough memory, a gc() might help. I have 2 GB memory on this machine. Should be enough, no? gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 1008175 27.01476915 39.5 1368491 36.6 Vcells 540055 4.21031040 7.9 1031026 7.9 (fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (903190944 of 4) memory On Jan 28, 2007, at 8:35 PM, Michael Kubovy wrote: (fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (888475968 of 4) memory * sessionInfo() R version 2.4.1 (2006-12-18) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] grid datasets stats graphics grDevices utils methods [8] base other attached packages: lme4 Matrix xtable latticeExtra lattice gridBase MASS 0.9975-11 0.9975-8 1.4-3 0.1-40.14-16 0.4-3 7.2-31 JGR iplots JavaGDrJava 1.4-15 1.0-5 0.3-5 0.4-13 * lmer runs the example w/o a problem I just tried to run it on on Intel-based MacPro, and lmer2 ran without a hitch. _ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400Charlottesville, VA 22904-4400 Parcels:Room 102Gilmer Hall McCormick RoadCharlottesville, VA 22903 Office:B011+1-434-982-4729 Lab:B019+1-434-982-4751 Fax:+1-434-982-4766 WWW:http://www.people.virginia.edu/~mk9y/ __ R-help@stat.math.ethz.ch 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.
Re: [R] lmer2 error under Mac OS X on PowerPC G5 but not on Dual-Core Intel Xeon
On Mon, 29 Jan 2007, Michael Kubovy wrote: On Jan 28, 2007, at 9:39 PM, Benilton Carvalho wrote: This seems to be due to the fact that you didn't have enough memory when running lmer2. I might be wrong, but I think Calloc tries to get contiguous memory, so this might the problem. If you are positive that you have enough memory, a gc() might help. Generally, it almost never helps. R will itself do a gc() before giving up on memory allocation, and R is not allocating memory with Calloc, the OS services are being used. Nothing is going to help allocating 3.6Gb on a 32-bit OS. (One case where it might help is doing a large allocation with Calloc after freeing a large R object, on OSes where gc() will actually give memory back to the pool Calloc uses.) What makes no sense is that it says using as.double gave an error message from Calloc. No known as.double method calls Calloc. This suggests that this is a symptom of memory corruption. I have 2 GB memory on this machine. Should be enough, no? gc() used (Mb) gc trigger (Mb) max used (Mb) Ncells 1008175 27.01476915 39.5 1368491 36.6 Vcells 540055 4.21031040 7.9 1031026 7.9 (fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (903190944 of 4) memory On Jan 28, 2007, at 8:35 PM, Michael Kubovy wrote: (fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (888475968 of 4) memory * sessionInfo() R version 2.4.1 (2006-12-18) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] grid datasets stats graphics grDevices utils methods [8] base other attached packages: lme4 Matrix xtable latticeExtra lattice gridBase MASS 0.9975-11 0.9975-8 1.4-3 0.1-40.14-16 0.4-3 7.2-31 JGR iplots JavaGDrJava 1.4-15 1.0-5 0.3-5 0.4-13 * lmer runs the example w/o a problem I just tried to run it on on Intel-based MacPro, and lmer2 ran without a hitch. _ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400Charlottesville, VA 22904-4400 Parcels:Room 102Gilmer Hall McCormick RoadCharlottesville, VA 22903 Office:B011+1-434-982-4729 Lab:B019+1-434-982-4751 Fax:+1-434-982-4766 WWW:http://www.people.virginia.edu/~mk9y/ __ R-help@stat.math.ethz.ch 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. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch 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] lmer2 error under Mac OS X on PowerPC G5 but not on Dual-Core Intel Xeon
(fm1 - lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (888475968 of 4) memory * sessionInfo() R version 2.4.1 (2006-12-18) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] grid datasets stats graphics grDevices utils methods [8] base other attached packages: lme4 Matrix xtable latticeExtra lattice gridBase MASS 0.9975-11 0.9975-8 1.4-3 0.1-40.14-16 0.4-3 7.2-31 JGR iplots JavaGDrJava 1.4-15 1.0-5 0.3-5 0.4-13 * lmer runs the example w/o a problem I just tried to run it on on Intel-based MacPro, and lmer2 ran without a hitch. _ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400Charlottesville, VA 22904-4400 Parcels:Room 102Gilmer Hall McCormick RoadCharlottesville, VA 22903 Office:B011+1-434-982-4729 Lab:B019+1-434-982-4751 Fax:+1-434-982-4766 WWW:http://www.people.virginia.edu/~mk9y/ __ R-help@stat.math.ethz.ch 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.
