[R] Problem with lme4

[Peter Ho]

I did as you suggested by just running just R (--vanilla) and that 
seemed to work. Not sure what the problem was though.

Thanks

Peter

Douglas Bates wrote:

>On 8/12/05, Peter Ho <peter at fe.up.pt> wrote:
>  
>
>>Hi,
>>
>>I cannot seem to get lme4 to work. I have installed the lme4 and Matrix
>>package with apt-get. and both can be found in /usr/lib/R/site-library.
>>When I tried an example for lmer, R could not find the function lmer(),
>>    
>>
>
>Try using
>
>install.packages("Matrix")
>install.packages("lme4")
>
>in R instead.  I have not created and uploaded new Debian packages of
>the lme4 and Matrix R packages for several weeks.  The versions on
>CRAN are more recent than the versions on the Debian archives.
>
>  
>
>> > library(lme4)
>>
>>Attaching package: 'lme4'
>>
>>
>>        The following object(s) are masked from package:nlme :
>>
>>         getCovariateFormula getResponseFormula groupedData
>>
>>Error in autoloader(name = "confint", package = "MASS") :
>>        autoloader did not find 'confint' in 'MASS'
>>    
>>
>
>Try not to have the nlme and the lme4 packages loaded simultaneously. 
>It appears that you may have had Rcmdr loaded causing many of the
>other packages to be loaded.  It would be better to use --vanilla in
>the call to R and keep the number of loaded packages to a minimum
>until you can work out the problem of where lmer can be found.
>
>It is a bit confusing.  The lmer function was in the lme4 package but
>now is in the Matrix package.
>  
>
>> > (fm1 <- lmer(decrease ~ treatment + (1|rowpos) + (1|colpos),
>>+              OrchardSprays))
>>Error: couldn't find function "lmer"
>> >
>>
>>Is this a bug with the lme4 package for Debian (r-cran-lme4)?
>>
>>
>>Peter
>>
>>
>>
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>>Loading Tcl/Tk interface ... done
>>Loading required package: tcltk
>>Loading required package: rgl
>>Loading required package: zoo
>>Loading required package: strucchange
>>Loading required package: sandwich
>>Loading required package: relimp
>>Loading required package: nnet
>>Loading required package: graphics
>>Loading required package: grDevices
>>Loading required package: stats
>>Loading required package: nlme
>>
>>Attaching package: 'nlme'
>>
>>
>>        The following object(s) are masked from package:stats :
>>
>>         contr.SAS
>>
>>Loading required package: mvtnorm
>>Loading required package: multcomp
>>Loading required package: mgcv
>>This is mgcv 1.2-4
>>Loading required package: MASS
>>Loading required package: lmtest
>>Loading required package: lattice
>>Loading required package: grid
>>Loading required package: foreign
>>Loading required package: effects
>>Loading required package: car
>>Loading required package: abind
>>[Previously saved workspace restored]
>>
>> > library(Matrix)
>> > library(lme4)
>>
>>Attaching package: 'lme4'
>>
>>
>>        The following object(s) are masked from package:nlme :
>>
>>         getCovariateFormula getResponseFormula groupedData
>>
>>Error in autoloader(name = "confint", package = "MASS") :
>>        autoloader did not find 'confint' in 'MASS'
>> > (fm1 <- lmer(decrease ~ treatment + (1|rowpos) + (1|colpos),
>>+              OrchardSprays))
>>Error: couldn't find function "lmer"
>> >
>>
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>>    
>>
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