rjags install on Ubuntu 10.04
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