[R-SIG-Mac] Installing current version of lme4 and Matrix on a mac
Steven McKinney
smckinney at bccrc.ca
Fri Apr 25 02:57:19 CEST 2008
Hi Jarrett,
I was able to install the R-forge lme4 and Matrix
packages by invoking R from a Terminal window
(I used $ sudo R
so the process would have enough privileges
to modify directories in the library)
Dapple:~/Rtest stevenmckinney$ sudo R
Password:
R version 2.6.2 (2008-02-08)
Copyright (C) 2008 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
I installed lme4 alright with the suggested command
from http://r-forge.r-project.org/R/?group_id=60
> install.packages("lme4",repos="http://R-Forge.R-project.org")
trying URL 'http://R-Forge.R-project.org/bin/macosx/universal/contrib/2.6/lme4_0.999375-13.tgz'
Content type 'application/x-gzip' length 353734 bytes (345 Kb)
opened URL
==================================================
downloaded 345 Kb
The downloaded packages are in
/tmp/Rtmpakk1fU/downloaded_packages
So lme4 installed alright.
Matrix choked for some reason.
> install.packages("Matrix",repos="http://R-Forge.R-project.org")
trying URL 'http://R-Forge.R-project.org/bin/macosx/universal/contrib/2.6/Matrix_0.999375-10.tgz'
Content type 'application/x-gzip' length 1783421 bytes (1.7 Mb)
opened URL
==================================================
downloaded 1.7 Mb
Error: cannot remove prior installation of package 'Matrix'
This is what I was trying to avoid by running the process via 'sudo',
not sure what went wrong.
Installing from source worked:
> install.packages("Matrix",repos="http://R-Forge.R-project.org", type = "source")
trying URL 'http://R-Forge.R-project.org/src/contrib/Matrix_0.999375-10.tar.gz'
Content type 'application/x-gzip' length 1502286 bytes (1.4 Mb)
opened URL
==================================================
downloaded 1.4 Mb
* Installing *source* package 'Matrix' ...
** libs
** arch - ppc
gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-version-min=10.4 -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include
-I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -I./UFconfig -fPIC -g -O2 -c CHMfactor.c -o CHMfactor.o
powerpc-apple-darwin8-gcc-4.2.1: unrecognized option '-no-cpp-precomp'
.
.
.
xtabs text html latex example
** building package indices ...
Loading required package: Matrix
Loading required package: stats
Loading required package: methods
Loading required package: lattice
Attaching package: 'Matrix'
The following object(s) are masked from package:stats :
xtabs
* DONE (Matrix)
The downloaded packages are in
/private/tmp/Rtmpakk1fU/downloaded_packages
Updating HTML index of packages in '.Library'
> require("lme4")
Loading required package: lme4
Loading required package: Matrix
Loading required package: lattice
Attaching package: 'Matrix'
The following object(s) are masked from package:stats :
xtabs
>
So this is one way to do it.
Hope it works for you.
Best regards
Steven McKinney
Statistician
Molecular Oncology and Breast Cancer Program
British Columbia Cancer Research Centre
email: smckinney +at+ bccrc +dot+ ca
tel: 604-675-8000 x7561
BCCRC
Molecular Oncology
675 West 10th Ave, Floor 4
Vancouver B.C.
V5Z 1L3
Canada
-----Original Message-----
From: r-sig-mac-bounces at stat.math.ethz.ch on behalf of Jarrett Byrnes
Sent: Thu 4/24/2008 4:16 PM
To: r-sig-mac at stat.math.ethz.ch
Subject: [R-SIG-Mac] Installing current version of lme4 and Matrix on a mac
Hey, all! I'm trying to use the current version of lme4 over at http://R-Forge.R-project.org
but have been unable to do so thus far. I get errors stating that
it requires a i686 architecture or otherwise, and installing Matrix is
a mess. I have a G4 mac.
Has anyone here been able to install it on a non-intel mac? If so,
could you post instructions as to how? Thanks!
-Jarrett
----------------------------------------
Jarrett Byrnes
Population Biology Graduate Group, UC Davis
Bodega Marine Lab
707-875-1969
http://www-eve.ucdavis.edu/stachowicz/byrnes.shtml
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