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

[Dirk Eddelbuettel]

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