On Fri, Jan 2, 2009 at 6:57 PM, kcrisman <kcris...@gmail.com> wrote:
>
> Dear support,
> Because I only have OSX and there is this scary warning about it in
> the documentation for r.install_packages (which incidentally the test
> for it has no "s", but I don't know if that matters), I was trying to
> load one on the sagenb site. Probably this is a gross violation of
> bandwidth or something,
It will surely fail with a permission denied error at some point. What
package would you like to install?
> but anyway the surprise result under the R
> interface was
>
> install_packages(MASS)
> Error: could not find function "install_packages"
Try typing
r.install_packages("MASS")
in a normal Sage input cell. You probably forgot the quotes.
Trying this on OS X it definitely fails for me. There is this message:
"sage: r.install_packages("MASS")
** You are using OS X. Unfortunately, the R optional package system
currently doesn't support OS X very well. We are working on this. **"
I wonder who the "We" refers to? :-)
I tried the above on sagenb.org (I'm the admin, so I have permissions).
It seems to fail as well:
s...@sagenb:~$ sage
----------------------------------------------------------------------
| Sage Version 3.2.2, Release Date: 2008-12-18 |
| Type notebook() for the GUI, and license() for information. |
----------------------------------------------------------------------
sage: r.install_packages("MASS")
0.00user 0.02system 0:00.03elapsed 82%CPU (0avgtext+0avgdata 0maxresident)k
64inputs+0outputs (1major+209minor)pagefaults 0swaps
R version 2.6.1 (2007-11-26)
Copyright (C) 2007 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> options(repos="http://cran.r-project.org/";); install.packages("MASS")
trying URL 'http://cran.r-project.org/src/contrib/VR_7.2-45.tar.gz'
Content type 'application/x-gzip' length 465054 bytes (454 Kb)
opened URL
==================================================
downloaded 454 Kb
WARNING: ignoring environment value of R_HOME
/home/sage/sage/local/lib/R/library
WARNING: ignoring environment value of R_HOME
* Installing *source* package 'MASS' ...
** libs
gcc -std=gnu99 -I/home/sage/sage/local/lib/R/include
-I/home/sage/sage/local/lib/R/include -I/home/sage/sage/local/inlcude
WARNING: ignoring environment value of R_HOME -fpic
-I/home/sage/sage/local/include -L/home/sage/sage/local/lib/ -c lqs.c
-o lqs.o
gcc: WARNING:: No such file or directory
gcc: ignoring: No such file or directory
gcc: environment: No such file or directory
gcc: value: No such file or directory
gcc: of: No such file or directory
gcc: R_HOME: No such file or directory
make: *** [lqs.o] Error 1
ERROR: compilation failed for package 'MASS'
** Removing '/home/sage/sage/local/lib/R/library/MASS'
** Removing '/home/sage/sage/local/lib/R/library/class'
** Removing '/home/sage/sage/local/lib/R/library/nnet'
** Removing '/home/sage/sage/local/lib/R/library/spatial'
The downloaded packages are in
/tmp/RtmpoUnbs5/downloaded_packages
Updating HTML index of packages in '.Library'
Warning message:
In install.packages("MASS") :
installation of package 'VR' had non-zero exit status
>
>
> which was surprising since tab-completion was how I found this
> function in the first place. I also got this in the Sage interface
> with r.install_packages.
>
> If anyone knows how I might do this, or if it's not good to do, or
> whether my Mac will actually allow me to install the optional package
> after all, OR whether Sage actually includes these by default (which
> doesn't seem to be the case, but I might have typed something wrong),
> I would greatly appreciate any information you might have.
>
> Thanks!
> - kcrisman
> >
>
--
William Stein
Associate Professor of Mathematics
University of Washington
http://wstein.org
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