[R-sig-Debian] Re : Howto compile chemometrics package from source

[Dirk Eddelbuettel]

On 28 September 2010 at 15:45, denis brion wrote:
| I still fail to understand why keep posting on this as you
| > obviously do not
| > use Debian or Ubuntu.
| > 
| 1) I obviously could help him (reminding /usr/local/xxx or any directory  should be writable  does not hurt, does it? Even if it has been done 7 years ago - docs change and are forgotten- )
| 
| 2 )Some friends of mine use Debian derived or Windows  : I I find _a_ good reason to keep/use Debian, I am not of the sectary kind (any objections?)
| ...
| 3 ) I sincerely thought R was sect/distribution agnostic

It most certainly is, but check the name of this list every once in a
while. This is not r-help, or r-sig-linux, or r-sig-whateverdenislikes

The list is for Debian/Ubuntu users.  

Help is of course appreciated, but so is fact checking.

Dirk
 
| 4 ) I have a mind open enough to look for other distributions/ package managers (binary P.M.  should be easier - available recent doc, etc... -
|  than compiling from source, should not they???)
|
| 5) talking about doc: GNU linux magazine dedicated a full _and interesting_  release to Debian package managing: that the bright side, not the "looking for  political correctness" à la McCarthy, , of Debian...
| 
| --- En date de : Mar 28.9.10, Dirk Eddelbuettel <edd at debian.org> a écrit :
| 
| > De: Dirk Eddelbuettel <edd at debian.org>
| > Objet: Re: [R-sig-Debian] Re : Howto compile chemometrics package from source
| > À: "denis brion" <dbrion1 at yahoo.fr>
| > Cc: 
| > Date: Mardi 28 septembre 2010, 17h11
| > 
| > Denis,
| > 
| > I still fail to understand why keep posting on this as you
| > obviously do not
| > use Debian or Ubuntu.
| > 
| > On 28 September 2010 at 14:27, denis brion wrote:
| > | Dear Jose Brasil
| > | D. Bates already gave you a response on how to install
| > from sources; however, as chemometrics depends (at least on
| > som, mvtnorm, mclust, pls, robustbase, e1071, pcaPP, pls,
| > lars) on other packages, you should have them already
| > installed, either
| > |  binary or 
| > | from sources before trying to install chemometrics (else,
| > "R CMD INSTALL" will complain and give the list of what is
| > missing):
| > | R CMD INSTALL e1071_1.5-24.tar.gz
| > | R CMD INSTALL lars_0.9-7.tar.gz (
| > | then, pcaPP_1.8-2.tar.gz, som_0.3.5.tar.gz, etc..)
| > | 
| > | The main drawback of this way of installing from sources
| > is that you must manage by yourself dependencies, and
| > upgrade by yourself, even for complicated packages....
| > | 
| > | BTW : you might have little isues if you install packages
| > in /usr/lib/R, as you might mess the packages you had
| > compiled with the packages your package manager
| > automatically manages...
| > |  Adding "export R_LIBS=/usr/local/lib/R/library" (or
| > any name of a directory you can write on)
| > 
| > Yes, that idea is *so good* that it has been the
| > *implemented default* since
| > 2003.  From the file /etc/R/Renviron:
| > 
| > # edd Apr 2003  Allow local install in /usr/local,
| > also add a directory for
| > #           
| >    Debian packaged CRAN packages, and finally
| > the default dir 
| > # edd Jul 2007  Now use R_LIBS_SITE, not R_LIBS
| > R_LIBS_SITE=${R_LIBS_SITE-'/usr/local/lib/R/site-library:/usr/lib/R/site-library:/usr/lib/R/library'}
| > 
| > 
| > Dirk
| > 
| > 
| > | before installing from source and before invoking the
| > libraries might be useful.
| > | 
| > | Have nice days
| > | D.Brion
| > | 
| > | 
| > | --- En date de : Lun 27.9.10, Jose Brasil <c2o.pro.br at gmail.com>
| > a écrit :
| > | 
| > | > De: Jose Brasil <c2o.pro.br at gmail.com>
| > | > Objet: [R-sig-Debian] Howto compile chemometrics
| > package from source
| > | > À: r-sig-debian at r-project.org
| > | > Date: Lundi 27 septembre 2010, 21h30
| > | > Dear friends,
| > | > 
| > | > I'm confused about how to install packages from
| > source.
| > | > 
| > | > I just updated R in Lenny from http://cran.fiocruz.br/bin/linux/debian/
| > | > 
| > | > I included in sources.list:
| > | > 
| > | > deb http://cran.fiocruz.br/bin/linux/debian
| > | > lenny-cran/
| > | > deb-src  http://cran.fiocruz.br/bin/linux/debian lenny-cran/
| > | > 
| > | > Then:
| > | > apt-get update
| > | > apt-get install r-base r-base-dev
| > | > 
| > | > Then I downloaded the package
| > chemometrics_0.8.tar.gz 
| > | > from
| > | > http://cran.r-project.org/src/contrib/chemometrics_0.8.tar.gz
| > | > 
| > | > After untar I copied the dir chemometrics to
| > | > /usr/lib/R/library and 
| > | > tried install.package(chemometrics) from R prompt
| > (as
| > | > root):
| > | > 
| > | > install.packages(chemometrics)
| > | > Erro em install.packages(chemometrics) : 
| > | >   objeto 'chemometrics' não encontrado
| > | > 
| > | > Could anyone give any help?
| > | > 
| > | > Thanks in advance,
| > | > Jose
| > | > 
| > | > _______________________________________________
| > | > R-SIG-Debian mailing list
| > | > R-SIG-Debian at r-project.org
| > | > https://stat.ethz.ch/mailman/listinfo/r-sig-debian
| > | > 
| > | 
| > | 
| > | 
| > | 
| > | _______________________________________________
| > | R-SIG-Debian mailing list
| > | R-SIG-Debian at r-project.org
| > | https://stat.ethz.ch/mailman/listinfo/r-sig-debian
| > 
| > -- 
| > Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com
| > 
| 
| 
| 

-- 
Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com