Dear Dirk,
thank you again for your quick response.
Am Samstag, den 26.11.2011, 15:35 -0600 schrieb Dirk Eddelbuettel:
> On 26 November 2011 at 22:10, Paul Menzel wrote:
> | Am Samstag, den 26.11.2011, 12:42 -0600 schrieb Dirk Eddelbuettel:
> | > On 26 November 2011 at 18:57, Paul Menzel wrote:
> | > | Package: littler
> | > | Version: 0.1.5-1
> | > | Severity: normal
> | > |
> | > | Dear Debian folks,
> | >
> | > There is a single maintainer for the littler package, and his name is
> Dirk.
> |
> | I am sorry. I used that term because all Debian developers and users
> | should try to fix bugs. And sometimes the maintainers are not as devoted
> | as you are.
>
> What makes you think all developers would read a bug report against one
> particular package?
not all. But for example for GNOME packages a lot of times Debian
developers deal with bug reports although they are not the maintainer.
> | > | since the package rbenchmark is not packaged in Debian I installed it
> using `install.packages()`. Then it was installed in my home directory I
> believe.
> | >
> | > Your problem. Always check what .libPaths() says:
> | >
> | > edd@max:~$ r -e 'print(.libPaths())'
> | > [1] "/usr/local/lib/R/site-library" "/usr/lib/R/site-library"
> | > [3] "/usr/lib/R/library"
> | > edd@max:~$
> |
> | It says the same on my system.
> |
> | > So on my system an installation __done with littler__ goes to
> /usr/local/lib/R/site-library
> |
> | Well, since I have not changed anything by default using
> | `install.packages()` it goes into `~/R/i486-pc-linux-gnu-library/2.14/`.
>
> You shouldn't have to change anything. Apart maybe from making sure you (and
> not jyst root) can write into /usr/local/lib/R/site-library/
>
> This is set from /etc/R/Renviron
Looking at `/etc/R/Renviron` I see the following line.
R_LIBS_USER=${R_LIBS_USER-'~/R/i486-pc-linux-gnu-library/2.14'}
Could that be added to littler’s default path when looking for packages?
> | > In fact littler comes with two short example scripts 'install.r' and
> | > 'update.r' I use all the time. Eg (for a not-required re-installation:)
> | >
> | > edd@max:~$ ~/bin/install.r rbenchmark
> | > trying URL 'http://cran.r-project.org/src/contrib/rbenchmark_0.3.tar.gz'
> | > Content type 'application/x-gzip' length 3504 bytes
> | > opened URL
> | > ==================================================
> | > downloaded 3504 bytes
> | >
> | > * installing *source* package ‘rbenchmark’ ...
> | > ** R
> | > ** preparing package for lazy loading
> | > ** help
> | > *** installing help indices
> | > ** building package indices ...
> | > ** testing if installed package can be loaded
> | >
> | > * DONE (rbenchmark)
> | >
> | > The downloaded packages are in
> | > ‘/tmp/downloaded_packages’
> | > edd@max:~$ r -lrbenchmark -e 'res <- benchmark(function() {}); print(res)'
> | > test replications elapsed relative user.self sys.self user.child
> | > 1 function() { 100 0.001 1 0 0 0
> | > sys.child
> | > 1 0
> | > edd@max:~$
> |
> | I did not know about these scripts and that they should be used for
> | installing packages. See #648981 [3].
>
> "Should be used" is too strong. I wrote them for my use as I find them
> convenient.
I see. But not having a references to them in for example the README I
will find them too late because I am not checking out everything before
starting to use a program.
> | > | Executing `R` and then `library(rbenchmark)` works.
> | > |
> | > | Now I wanted to try `fibonacci.r` from the examples of the Rcpp package
> (`r-cran-rcpp` [2]).
> | > |
> | > | $ cp /usr/lib/R/site-library/Rcpp/examples/Misc/fibonacci.r
> /tmp/
> | > | $ r fibonacci.r # includes `library(rbenchmark)`
> | > |
> | > | This aborts with an error that the package `rbenchmark` cannot be found.
> | > |
> | > | $ LANG=C r fibonacci.r
> | > | Loading required package: inline
> | > | Loading required package: methods
> | > | Loading required package: compiler
> | > | Error in library(rbenchmark) : there is no package called
> 'rbenchmark'
> | > | Execution halted
> | > |
> | > | Is littler supposed to work in such a setup?
> | >
> | > Well, yes. I use littler for all the blog posts you refer to.
> | >
> | > Read help(Startup) and figure out your paths.
> | >
> | > Not a bug. Next time, just ask on r-sig-debian, please.
> |
> | Is there a way to get that working by default? Should the path `~/R/`
> | which gets used by default for installing packages be added somewhere?
> | Or a new item to the FAQ in `README.gz`?
>
> Please do read 'help(Startup)' and how you can influence .ldPaths() -- and if
> you prefer to install in ~/R you have to figure out how to make sure littler
> looks there too.
As written above, that path seems to be taken from `/etc/R/Renviron`.
Amicalement,
Paul
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