Dear all,
this is my first message to this list. I hope it is not off topic
(and should have been posted to R-help for example).
I have R-2.3.0 installed on a couple of systems, including powermac
G5, iBook G4 (both with MacOSX 10.4.6), windows xp and linux (kubuntu
5.10). When trying to install package aroma from authors web site I
found that R for macosx crashes with segfault. This does not happens
with windows/linux. After contacting the package maintainer I
realized that in fact R segfaults every time I try to download a file
with a wrong url (e.g. that not exists).
For example, this works:
(sorry some R messages in spanish locale I will try to translate it)
> install.packages("ape")
--- Please select a CRAN mirror for use in this session ---
Loading Tcl/Tk interface ... done
probando la URL 'http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_1.8-2.tgz'
Content type 'application/x-gzip' length 548537 bytes
URL abierta
=================================================downloaded 535Kb
where "probando la URL" means "trying URL" and "URL
abierta" means
"URL opened", the file is correctly installed. If I specifically use
download.file() it still works:
> download.file("http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_1.8-2.tgz", "foo.tgz")
probando la URL 'http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_1.8-2.tgz'
Content type 'application/x-gzip' length 548537 bytes
URL abierta
=================================================downloaded 535Kb
but when using a wrong url (note change version number from 1.8 to
10.8):
> download.file("http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_10.8-2.tgz", "foo.tgz")
probando la URL 'http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_10.8-2.tgz'
*** caught segfault ***
address 0x5f4d4550, cause 'memory not mapped'
Traceback:
1: download.file("http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_10.8-2.tgz", "foo.tgz")
Possible actions:
1: abort (with core dump)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection:
So the package I have tryed to install crashes R because not finding
some file, something that don't happens in CRAN repositories, so
maybe this is the reason why it has not been noted before. I supposed
this is an unintended behaviour for R and so I decided to submit it.
May it be a bug or I have something wrong with my installation?
I have installed R-2.3.0 binaries for macosx (the linux version is
compiled from sources). For the macosx:
> sessionInfo()
Version 2.3.0 (2006-04-24)
powerpc-apple-darwin8.6.0
attached base packages:
[1] "methods" "stats" "graphics"
"grDevices" "utils"
"datasets"
[7] "base"
just after running R. R crashes when running on the console, not the
R-GUI... wait, let me try...
Very interestingly I have just tryed running the code in the R-GUI
and there it does not crash but throws a 404 file not found message:
> download.file("http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_10.8-2.tgz", "foo.tgz")
probando la URL 'http://cran.cnr.Berkeley.edu/bin/macosx/powerpc/
contrib/2.3/ape_10.8-2.tgz'
Erro en download.file("http://cran.cnr.Berkeley.edu/bin/macosx/
powerpc/contrib/2.3/ape_10.8-2.tgz", :
no fue posible abrir la URL 'http://cran.cnr.Berkeley.edu/bin/macosx/
powerpc/contrib/2.3/ape_10.8-2.tgz'
Además: Warning message:
no fue posible abrir: el status HTTP fue '404 Not Found'
where "no fue posible abrir la URL" means "not possible to open
URL"
and "no fue posible abrir: el status HTTP fue '404 Not Found'"
means
"not possible to open: HTTP status '404 Not Found'".
If you need any more information let me know.
Thank you very much for your help!
Diego.
-----------------------------------------
Diego Díez, PhD.
Bioknowledge systems, Kanehisa lab.
Bioinformatics center,
Institute for Chemical Research,
Kyoto University.
Gokasho, Uji, Kyoto 611-0011 JAPAN.
e-mail: diez@kuicr.kyoto-u.ca.jp
url: http://
tlf: +81-774-38-3296
fax: +
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