[R] Trying to install rjags on Mac OS X 10.5
Lindsay.Stirton at manchester.ac.uk
Mon Dec 31 15:34:47 CET 2007
Since I already had Xcode 3.0, I re-installed gfortran (from the R
from the .dmg) and gcc4.2.1 preview. I am afraid the outcome was the
jags 1.0.1 not found.
Yes I do use Macports (and formery used Fink, which is still installed). What
issues does this raise? On your suggestion, I made sure that both were up to
date--still no success.
Your offer to send me a template directory to figure things out from is very
much appreciated. Yes please!
Quoting Rob Goedman <goedman at mac.com>:
> Hi Lindsay,
> Did have some difficulties as well, but got it to work using
> Xcode3.0, Apple's gcc4.2preview release and gfortran 4.2.1 from
> Simon's web site. This was on R-devel though, on a Mac Intel.
> Can it find the jags executable say from your home directory? Have
> you tried 'make check' in the classic-bugs/vol1 or vol2 example dirs
> (in the Terminal)? That would indeed confirm jags is running fine.
> For rjags, I am a bit worried about the /opt/... . Did you at some
> point install software from Fink or Darwin ports? Until I installed
> the above newer toolset, I had never been able to get rjags to work.
> Of course you don't really need rjags, only coda. I have also
> installed the package 'arm' and the packages arm depends on (Matrix,
> lattice, lme4, R2WinBugs). If it would help I can send you a
> 'template' dir for the line example that does not use rjags.
> A dependency I ran into was coda v 13.1, as of a couple of days ago
> not available as a binary package,
> but available as a source package on CRAN.
> On Dec 30, 2007, at 8:27 AM, Lindsay Stirton wrote:
>> I wonder if anyone can offer any help or advice--even direction to an
>> appropriate source of advice. I am trying to install rjags 1.0.1 on
>> Mac OS X
>> 10.5 (see http://www-fis.iarc.fr/~martyn/software/jags/). I have
>> R.app 2.6.1
>> JAGS 1.0.1 is apparently successfully installed. I (think I) know
>> this because
>> when I type 'jags' into Terminal, I get the following:
>> Macintosh:Desktop ljs$ jags
>> Welcome to JAGS 1.0.1 on Thu Dec 27 20:56:09 2007
>> JAGS is free software and comes with ABSOLUTELY NO WARRANTY
>> Loading module: basemod
>> Loading module: bugs
>> However, when I try to install rjags, I get the following problem.
>> Macintosh:Desktop ljs$ sudo R CMD INSTALL rjags_1.0.1-1.tar.gz
>> * Installing to library '/Library/Frameworks/R.framework/Resources/ library'
>> * Installing *source* package 'rjags' ...
>> checking for pkg-config... /opt/local/bin/pkg-config
>> checking pkg-config is at least version 0.9.0... yes
>> checking for JAGS... configure: error: Package requirements (jags =
>> 1.0.1) were
>> not met:
>> No package 'jags' found
>> Consider adjusting the PKG_CONFIG_PATH environment variable if you
>> installed software in a non-standard prefix.
>> ERROR: configuration failed for package 'rjags'
>> ** Removing '/Library/Frameworks/R.framework/Resources/library/rjags'
>> I am really not sure what the problem is. I have (I think) set the proper
>> environment variables correctly. See below:
>> Macintosh:Desktop ljs$ which jags
>> Macintosh:Desktop ljs$ echo $PKG_CONFIG_PATH
>> I should say that I had many other problems
>> along the way--gfortran not originally installed properly, R CMD INSTALL
>> couldn't find pkg-config. However, the above description shows the problems
>> remaining even after I have done a little homework.
>> Best wishes,
>> Lindsay Stirton
>> R-help at r-project.org mailing list
>> 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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