All,
We are doing ANOVAs that take a long time (> 3 hrs) to run in 64-bit mode on an
Intel MacPro with 8 gbytes and 2.66 GHZ Intel Core i7 machine.
We have just tried running these on our server where we don't care as much how
long it takes. The server is a Mac "2 x 3 GHz Dual-Core Intel Xeon" with 13 GB
667 MHz DDR2 FB-DIMM.
We have installed R "R 2.10.1 GUI 1.31-np Tiger build 32-bit (5538)" on the
server.
The data.frame is composed of the following observations, factors, and numerals:
> str(e1jit41blkAll)
'data.frame': 21648 obs. of 6 variables:
$ subjectid: Factor w/ 22 levels "1379","1744",..: 1 1 1 1 1 1 1 1 1 1 ...
$ cond : Factor w/ 2 levels "Visual","Auditory": 1 1 1 1 1 1 1 1 1 1 ...
$ block : Factor w/ 8 levels "2","3","4","5",..: 1 1 1 1 1 1 1 1 1 1 ...
$ cbtime : Factor w/ 41 levels "1","2","3","4",..: 1 10 11 12 13 14 15 16 17
18 ...
$ dirtime : Ord.factor w/ 3 levels "Early"<"Middle"<..: 1 1 1 1 1 1 1 1 1 1
...
$ jitter : num 7.78 7.33 5.56 5 6.11 ...
When we run the following ANOVA on this dataframe:
> anova.ALL.e1jit41.blkAll <- with(e1jit41blkAll, aov(jitter ~
> cond*block*dirtime*cbtime + error(subjectid/(block*dirtime*cbtime)), data =
> e1jit41blkAll))
We get the following feedback:
Error: cannot allocate vector of size 3.5 Gb
>
R(29720,0xa000d000) malloc: *** vm_allocate(size=3749089280) failed (error
code=3)
R(29720,0xa000d000) malloc: *** error: can't allocate region
R(29720,0xa000d000) malloc: *** set a breakpoint in szone_error to debug
R(29720,0xa000d000) malloc: *** vm_allocate(size=3749089280) failed (error
code=3)
R(29720,0xa000d000) malloc: *** error: can't allocate region
R(29720,0xa000d000) malloc: *** set a breakpoint in szone_error to debug
>
So two categories of questions for all of you Mac-R wizards out there.
First category of question: can this analysis be run faster (and if so, how) on
our laptop Intel Macs?
Second category of question: is there anything that can be done to the Apple
Server or to our analysis so that the analysis runs on our server?
Many thanks,
Wayne Gray
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