[R] Trying to install rjags on Mac OS X 10.5

[Lindsay Stirton]

Thanks Rob,

Since I already had Xcode 3.0, I re-installed gfortran (from the R 
website, not
from the .dmg) and gcc4.2.1 preview. I am afraid the outcome was the 
same, i.e.
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!

Lindsay


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.
>
> Rob
>
> On Dec 30, 2007, at 8:27 AM, Lindsay Stirton wrote:
>
>> Greetings,
>>
>> 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
>> installed.
>>
>> 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
>> Password:
>> * 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
>> /usr/local/bin/jags
>> Macintosh:Desktop ljs$ echo $PKG_CONFIG_PATH
>> /usr/local/bin
>>
>> 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
>>
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>
>