[R-SIG-Mac] R run time question

[Ben Bolker]

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On 07/13/2011 03:24 PM, Wayne Gray wrote:
> 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.

  ?? Pretty old ?? is this because of an old OS 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
> 


  I don't know about faster, but the biglm package should be useful ...
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