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

Thu Sep 20 04:17:08 CEST 2012

see inline below.

On Wed, Sep 19, 2012 at 10:34 PM, John C Nash <nashjc at uottawa.ca> wrote:
> 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).

If you don like unity but otherwise like ubuntu, another alternative
is lubuntu. I have just installed this and it works very well!
lubuntu is ubuntu, but with LXDE desktop     http://lxde.org/
LXDE seems also to be based on gtk, so software working with gnome
should work there.

Kjetil

>
> 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
>>> |
>>> | _______________________________________________
>>> | R-SIG-Debian mailing list
>>> | R-SIG-Debian at r-project.org
>>> | https://stat.ethz.ch/mailman/listinfo/r-sig-debian
>>>
>>
>
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