Re: [R] lmer2 error under Mac OS X on PowerPC G5 but not on Dual-Core Intel Xeon

From: Benilton Carvalho <bcarvalh_at_jhsph.edu>
Date: Mon 29 Jan 2007 - 15:40:59 GMT

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 Name Variance 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      1.545    6.77

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 27.0 1476915 39.5 1368491 36.6
> Vcells 540055 4.2 1031040 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" "0.1-4" "0.14-16"
>>> "0.4-3" "7.2-31"
>>> JGR iplots JavaGD rJava
>>> "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 400400 Charlottesville, VA 22904-4400
> Parcels: Room 102 Gilmer Hall
> McCormick Road Charlottesville, 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. Received on Tue Jan 30 02:46:22 2007

Archive maintained by Robert King, hosted by the discipline of statistics at the University of Newcastle, Australia.
Archive generated by hypermail 2.1.8, at Mon 29 Jan 2007 - 17:30:43 GMT.

Mailing list information is available at https://stat.ethz.ch/mailman/listinfo/r-help. Please read the posting guide before posting to the list.