[R] HELP lme4 & lmerTest INSTALLATION
CHIRIBOGA Xavier
I am having trouble installing lme4 package and this leads me to problems installing lmerTest, when I try to do I got this Error messages:
>install.packages("lme4")
Installing package into 'C:/Users/Hp/Documents/R/win-library/3.3'
(as 'lib' is unspecified)
probando la URL 'http://cran.espol.edu.ec/bin/windows/contrib/3.3/lme4_1.1-12.zip'
Content type 'application/zip' length 4745943 bytes (4.5 MB)
downloaded 4.5 MB
package 'lme4' successfully unpacked and MD5 sums checked
Warning: cannot remove prior installation of package 'lme4'
The downloaded binary packages are in
C:\Users\Hp\AppData\Local\Temp\RtmpWKmMgm\downloaded_packages
> library(lme4)
Error in library(lme4) : there is no package called 'lme4'
> install.packages("lmerTest")
Installing package into 'C:/Users/Hp/Documents/R/win-library/3.3'
(as 'lib' is unspecified)
also installing the dependency 'lme4'
probando la URL 'http://cran.espol.edu.ec/bin/windows/contrib/3.3/lme4_1.1-12.zip'
Content type 'application/zip' length 4745943 bytes (4.5 MB)
downloaded 4.5 MB
probando la URL 'http://cran.espol.edu.ec/bin/windows/contrib/3.3/lmerTest_2.0-33.zip'
Content type 'application/zip' length 1149636 bytes (1.1 MB)
downloaded 1.1 MB
package 'lme4' successfully unpacked and MD5 sums checked
Warning: cannot remove prior installation of package 'lme4'
package 'lmerTest' successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Hp\AppData\Local\Temp\RtmpWKmMgm\downloaded_packages
> library(lmerTest)
Loading required package: Matrix
Error: package 'lme4' required by 'lmerTest' could not be found
Además: Warning message:
In read.dcf(file.path(p, "DESCRIPTION"), c("Package", "Version")) :
cannot open compressed file 'C:/Users/Hp/Documents/R/win-library/3.3/lme4/DESCRIPTION', probable reason 'No such file or directory'
Could yo please help me?
What to do? I am using latest version : R 3.3.2.
Thank you very much,
Xavier
[[alternative HTML version deleted]]
Rui Barradas
You don't need to install lme4, it comes with base R.
As for package lmerTest, I've just did
> install.packages("lmerTest")
--- Please select a CRAN mirror for use in this session ---
also installing the dependencies ‘checkmate’, ‘survival’, ‘Formula’,
‘latticeExtra’, ‘acepack’, ‘gridExtra’, ‘data.table’, ‘htmlTable’,
‘viridis’, ‘Hmisc’
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/checkmate_1.8.2.zip'
Content type 'application/zip' length 554040 bytes (541 KB)
downloaded 541 KB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/survival_2.40-1.zip'
Content type 'application/zip' length 5108708 bytes (4.9 MB)
downloaded 4.9 MB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/Formula_1.2-1.zip'
Content type 'application/zip' length 163536 bytes (159 KB)
downloaded 159 KB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/latticeExtra_0.6-28.zip'
Content type 'application/zip' length 2069570 bytes (2.0 MB)
downloaded 2.0 MB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/acepack_1.4.1.zip'
Content type 'application/zip' length 90515 bytes (88 KB)
downloaded 88 KB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/gridExtra_2.2.1.zip'
Content type 'application/zip' length 483236 bytes (471 KB)
downloaded 471 KB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/data.table_1.10.0.zip'
Content type 'application/zip' length 1508659 bytes (1.4 MB)
downloaded 1.4 MB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/htmlTable_1.8.zip'
Content type 'application/zip' length 179208 bytes (175 KB)
downloaded 175 KB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/viridis_0.3.4.zip'
Content type 'application/zip' length 1746408 bytes (1.7 MB)
downloaded 1.7 MB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/Hmisc_4.0-2.zip'
Content type 'application/zip' length 1785840 bytes (1.7 MB)
downloaded 1.7 MB
trying URL
'https://cloud.r-project.org/bin/windows/contrib/3.3/lmerTest_2.0-33.zip'
Content type 'application/zip' length 1149547 bytes (1.1 MB)
downloaded 1.1 MB
package ‘checkmate’ successfully unpacked and MD5 sums checked
package ‘survival’ successfully unpacked and MD5 sums checked
package ‘Formula’ successfully unpacked and MD5 sums checked
package ‘latticeExtra’ successfully unpacked and MD5 sums checked
package ‘acepack’ successfully unpacked and MD5 sums checked
package ‘gridExtra’ successfully unpacked and MD5 sums checked
package ‘data.table’ successfully unpacked and MD5 sums checked
package ‘htmlTable’ successfully unpacked and MD5 sums checked
package ‘viridis’ successfully unpacked and MD5 sums checked
package ‘Hmisc’ successfully unpacked and MD5 sums checked
package ‘lmerTest’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Convidado\AppData\Local\Temp\RtmpEpipqW\downloaded_packages
> library(lmerTest)
Attaching package: ‘lmerTest’
The following object is masked from ‘package:lme4’:
lmer
The following object is masked from ‘package:stats’:
step
So there was no problem. And my output of install.packages() is quite
different from yours.
If you're having a problem with lme4, maybe as an extreme mesure you
could reinstall R.
And by the way, what is your OS? What is the output of
> sessionInfo()
R version 3.3.2 (2016-10-31)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 7 x64 (build 7601) Service Pack 1
locale:
[1] LC_COLLATE=Portuguese_Portugal.1252
LC_CTYPE=Portuguese_Portugal.1252
[3] LC_MONETARY=Portuguese_Portugal.1252 LC_NUMERIC=C
[5] LC_TIME=Portuguese_Portugal.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] lmerTest_2.0-33 lme4_1.1-12 Matrix_1.2-7.1
loaded via a namespace (and not attached):
[1] Rcpp_0.12.8 Formula_1.2-1 knitr_1.15.1
[4] magrittr_1.5 cluster_2.0.5 splines_3.3.2
[7] MASS_7.3-45 munsell_0.4.3 colorspace_1.3-1
[10] lattice_0.20-34 minqa_1.2.4 stringr_1.1.0
[13] plyr_1.8.4 tools_3.3.2 nnet_7.3-12
[16] grid_3.3.2 data.table_1.10.0 checkmate_1.8.2
[19] htmlTable_1.8 gtable_0.2.0 nlme_3.1-128
[22] latticeExtra_0.6-28 htmltools_0.3.5 digest_0.6.10
[25] survival_2.40-1 lazyeval_0.2.0 assertthat_0.1
[28] tibble_1.2 gridExtra_2.2.1 RColorBrewer_1.1-2
[31] nloptr_1.0.4 ggplot2_2.2.0 base64enc_0.1-3
[34] acepack_1.4.1 rpart_4.1-10 stringi_1.1.2
[37] backports_1.0.4 scales_0.4.1 Hmisc_4.0-2
[40] foreign_0.8-67
Hope this helps,
Rui Barradas
> Adem�s: Warning message:
> In read.dcf(file.path(p, "DESCRIPTION"), c("Package", "Version")) :
> cannot open compressed file 'C:/Users/Hp/Documents/R/win-library/3.3/lme4/DESCRIPTION', probable reason 'No such file or directory'
>
>
>
> Could yo please help me?
>
> What to do? I am using latest version : R 3.3.2.
>
>
> Thank you very much,
>
> Xavier
>
>
> [[alternative HTML version deleted]]
>
>
>
> ______________________________________________
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> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
______________________________________________
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Thierry Onkelinx
nlme is a recommended package, lme4 is (currently) not. You need to install
it.
Best regards,
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature and
Forest
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
Kliniekstraat 25
1070 Anderlecht
Belgium
To call in the statistician after the experiment is done may be no more
than asking him to perform a post-mortem examination: he may be able to say
what the experiment died of. ~ Sir Ronald Aylmer Fisher
The plural of anecdote is not data. ~ Roger Brinner
The combination of some data and an aching desire for an answer does not
ensure that a reasonable answer can be extracted from a given body of data.
~ John Tukey
2017-01-25 11:45 GMT+01:00 Rui Barradas <ruipba...@sapo.pt>:
>
> You don't need to install lme4, it comes with base R.
>
Rui Barradas
library(lme4) it ran without error.
Thanks for the correction.
Rui Barradas
Em 25-01-2017 11:42, Thierry Onkelinx escreveu:
> Dear Rui,
>
> nlme is a recommended package, lme4 is (currently) not. You need to
> install it.
>
> Best regards,
>
> ir. Thierry Onkelinx
> Instituut voor natuur- en bosonderzoek / Research Institute for Nature
> and Forest
> team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
> Kliniekstraat 25
> 1070 Anderlecht
> Belgium
>
> To call in the statistician after the experiment is done may be no more
> than asking him to perform a post-mortem examination: he may be able to
> say what the experiment died of. ~ Sir Ronald Aylmer Fisher
> The plural of anecdote is not data. ~ Roger Brinner
> The combination of some data and an aching desire for an answer does not
> ensure that a reasonable answer can be extracted from a given body of
> data. ~ John Tukey
>
> 2017-01-25 11:45 GMT+01:00 Rui Barradas <ruipba...@sapo.pt
>
> You don't need to install lme4, it comes with base R.
>
CHIRIBOGA Xavier
So, does it mean that I have to install "nlme" instead of "lme4"? or first "nlme" and after "lme4"???
I also need"lmerTest" and when I installed it, I got the following message:
install.packages("lmerTest")
Installing package into 'C:/Users/Hp/Documents/R/win-library/3.3'
(as 'lib' is unspecified)
downloaded 1.1 MB
The downloaded binary packages are in
Loading required package: Matrix
Attaching package: 'lme4'
The following object is masked from 'package:nlme':
lmList
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
Xavier
________________________________
From: Thierry Onkelinx <thierry....@inbo.be>
Sent: Wednesday, January 25, 2017 12:42 PM
To: Rui Barradas
Cc: CHIRIBOGA Xavier; r-h...@r-project.org
Subject: Re: [R] HELP lme4 & lmerTest INSTALLATION
Dear Rui,
nlme is a recommended package, lme4 is (currently) not. You need to install it.
Best regards,
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest
team Biometrie & Kwaliteitszorg / team Biometrics & Quality Assurance
Kliniekstraat 25
1070 Anderlecht
Belgium
To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher
The plural of anecdote is not data. ~ Roger Brinner
The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John Tukey