[R-sig-Debian] rjags install on Ubuntu 10.04

[Michael Rutter]

On 09/19/2012 09:16 PM, Dirk Eddelbuettel wrote:
>
> On 19 September 2012 at 20:38, John C Nash wrote:
> | I have been having trouble with rjags on Ubuntu 10.04
>                                             ^^^^^^^^^^^^
>
> You may be on your own here. I would suggest updating to something current,
> and remaining current -- at least that works for me. On Ubuntu 12.04 it
> just works:

There is also a numbering issue at work here.  Version 3.3-1 is supplied 
by Ubuntu, while my PPA has 3-5, a newer version from Martyn, but not 
for Ubuntu.  For apt, 3.3 is > 3-5, so one solution is to use synaptic 
to force the install of the more recent version and see if that fixes 
the issue, although I would recommend upgrading Ubuntu as the first step.

Conveniently, Martyn release version 3-7 of the package Wednesday 
(9/18), so new versions will be hitting the PPA shortly, as soon as I 
resolve the numbering issue.

Michael

>    R> library(rjags)
>    Loading required package: coda
>    Loading required package: lattice
>    linking to JAGS 3.2.0
>    module basemod loaded
>    module bugs loaded
>    R>
>
> Using
>    edd at max:~$ COLUMNS=76 dpkg -l | grep jags
>    ii  jags           3.2.0-1precise Just Another Gibbs Sampler for Bayesian MCMC
>    ii  r-cran-rjags   3.3-1          R interface to the JAGS Bayesian statistics
>    edd at max:~$
>
> | > library(rjags)
> | Loading required package: coda
> | Loading required package: lattice
> | linking to JAGS 3.2.0
> | module basemod loaded
> | Error : .onLoad failed in loadNamespace() for 'rjags', details:
> |   call: dyn.load(file)
> |   error: unable to load shared object '/usr/lib/JAGS/modules-3/bugs.so':
> |   /usr/lib/JAGS/modules-3/bugs.so: undefined symbol: fprec
> | Error: package/namespace load failed for ‘rjags’
> |
> |
> | > sessionInfo()
> | R version 2.15.1 (2012-06-22)
> | Platform: x86_64-pc-linux-gnu (64-bit)
> |
> | locale:
> |  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
> |  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
> |  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
> |  [7] LC_PAPER=C                 LC_NAME=C
> |  [9] LC_ADDRESS=C               LC_TELEPHONE=C
> | [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
> |
> | attached base packages:
> | [1] stats     graphics  grDevices utils     datasets  methods   base
> | >
> |
> | Also I have tried
> |
> | > dyn.load("/usr/lib/JAGS/modules-3/bugs.so")
> | Error in dyn.load("/usr/lib/JAGS/modules-3/bugs.so") :
> |   unable to load shared object '/usr/lib/JAGS/modules-3/bugs.so':
> |   /usr/lib/JAGS/modules-3/bugs.so: undefined symbol: fprec
> |
> | After several uninstalls and reinstalls of jags and rjags, I did (as superuser)
> |
> | apt-get remove --purge r-base-core
>
> Please.  R has not bearing here.
>
> You have a package out of sorts. Worst, remove the package (here: jags, as
> 'dpkg -S /usr/lib/JAGS/modules-3/bugs.so' clearly tells you) and install
> locally.
>
> Dirk
>
> | apt-get autoremove
> |
> | then reinstalled R, then rjags (the Michael Rutter PPA is in my sources list), i.e.,
> |
> | apt-get install r-base-dev
> | apt-get install rjags
> |
> | (I used the dev to make sure I got some of the tools etc.)
> |
> | No joy.
> |
> | On crunchbang stattler linux (under VirtualBox), things loaded fine. I haven't tried
> | actual computations though. (This is a debian squeeze variant.)
> |
> | Suggestions welcome, especially about the fprec symbol above. I am planning to upgrade the
> | 10.04 to something else soon, probably Mint Mate, but wanted to wait a few more weeks to
> | avoid doing this when having to travel.
> |
> | Cheers, JN
> |
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>

-- 
Dr. Michael A. Rutter
School of Science
Penn State Erie, The Behrend College
4205 College Drive
Erie, PA 16563
http://math.bd.psu.edu/faculty/rutter
mar36 at psu.edu