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

[John C Nash]

OK. I figured it may be getting late in the LTS cycle. However, I'll be making two trips
in next 18 days, so don't want to rebuild my laptop just now. It has way too many
different tools on it that I'm using and have forgotten that they take time and bandwidth
to install. The folk who want jags runs are just going to have to wait.

Given I have tried Unity twice and Ubuntu's alternative Gnome once, I think I'll go to
Mint Mate (Ubuntu based) or else CrunchBang (debian squeeze).

JN



On 09/19/2012 09:24 PM, Michael Rutter wrote:
> 
> 
> 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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>>
>