Your message dated Sat, 26 Nov 2011 12:42:28 -0600
with message-id <[email protected]>
and subject line Re: Bug#650117: littler: user installed packages not found
has caused the Debian Bug report #650117,
regarding littler: user installed packages not found
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650117: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=650117
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--- Begin Message ---
Package: littler
Version: 0.1.5-1
Severity: normal
Dear Debian folks,
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.
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?
Thanks,
Paul
[1] http://dirk.eddelbuettel.com/blog/2011/09/08/
[2] http://packages.debian.org/search?keywords=r-cran-rcpp
-- System Information:
Debian Release: wheezy/sid
APT prefers unstable
APT policy: (500, 'unstable'), (500, 'testing'), (500, 'stable'), (1,
'experimental')
Architecture: i386 (x86_64)
Kernel: Linux 3.1.0-1-amd64 (SMP w/2 CPU cores)
Locale: LANG=de_DE.UTF-8, LC_CTYPE=de_DE.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/bash
Versions of packages littler depends on:
ii libatlas3gf-base [liblapack.so.3gf] 3.8.4-3
ii libblas3gf [libblas.so.3gf] 1.2.20110419-2
ii libc6 2.13-21
ii liblapack3gf [liblapack.so.3gf] 3.3.1-1
ii r-base-core 2.14.0-1
littler recommends no packages.
Versions of packages littler suggests:
pn r-cran-getopt <none>
-- no debconf information
signature.asc
Description: This is a digitally signed message part
--- End Message ---
--- Begin Message ---
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.
| 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:~$
So on my system an installation __done with littler__ goes to
/usr/local/lib/R/site-library
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:~$
| 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.
Mit besten Gruessen, Dirk
| Thanks,
|
| Paul
|
|
| [1] http://dirk.eddelbuettel.com/blog/2011/09/08/
| [2] http://packages.debian.org/search?keywords=r-cran-rcpp
|
| -- System Information:
| Debian Release: wheezy/sid
| APT prefers unstable
| APT policy: (500, 'unstable'), (500, 'testing'), (500, 'stable'), (1,
'experimental')
| Architecture: i386 (x86_64)
|
| Kernel: Linux 3.1.0-1-amd64 (SMP w/2 CPU cores)
| Locale: LANG=de_DE.UTF-8, LC_CTYPE=de_DE.UTF-8 (charmap=UTF-8)
| Shell: /bin/sh linked to /bin/bash
|
| Versions of packages littler depends on:
| ii libatlas3gf-base [liblapack.so.3gf] 3.8.4-3
| ii libblas3gf [libblas.so.3gf] 1.2.20110419-2
| ii libc6 2.13-21
| ii liblapack3gf [liblapack.so.3gf] 3.3.1-1
| ii r-base-core 2.14.0-1
|
| littler recommends no packages.
|
| Versions of packages littler suggests:
| pn r-cran-getopt <none>
|
| -- no debconf information
| xapplication/pgp-signature [Click mouse-2 to save to a file]
--
"Outside of a dog, a book is a man's best friend. Inside of a dog, it is too
dark to read." -- Groucho Marx
--- End Message ---
