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new installation of R 2.8.1 hangs on Mac OS X 10.5.6
5 messages · Simon Urbanek, Massimo Pinto
On Apr 14, 2009, at 8:57 AM, Massimo Pinto wrote:
Greetings, I am having troubles getting R to work on a Mac OS X 10.5.6, Leopard. I have installed R 2.8.1 (R 2.8.1 GUI 1.27 Tiger build 32-bit) from a .dmg file using the Mac OS installer, and, apparently, everything went smoothly.
From R, I would like to install a few basic packages that I will need to run
in conjunction with "Agi4x44PreProcess" which I need to use to
preprocess my
cDNA microarray data. This is what I do from the R console:
source("http://bioconductor.org/biocLite.R")
biocLite()
I do get a list of the packages that will be installed, but then the
system
hangs and I have to resort to a "Force Quit".
I get the same behaviour when I try the package installer, right
from the R
GUI. Again, I got a hang.
How long is the "hang"? Note that the installation can take a while depending on your connection since some of the packages are big. If R hangs for a while even installing one package, then there may be some problem with your internet connection. In that case you may want to download the files manually (e.g. thorough a proxy) and install them from local files. Cheers, Simon
I would greatly appreciate any suggestion toward the resolution of this problem. Yours, Massimo -- Massimo Pinto Post Doctoral Research Fellow Enrico Fermi Centre and Italian Public Health Research Institute (ISS), Rome http://claimid.com/massimopinto [[alternative HTML version deleted]]
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On Apr 14, 2009, at 9:26 , Massimo Pinto wrote:
Hi Simon, Thank you. It's a several minutes hang, on a relatively fast 'university' LAN. But more interestingly, perhaps, Mac OS 'believes' that R is not responding while it goes ahead and installs packages. Does that suffice to claim that installation of extra packages is dysfunctional on my platform?
No, that is (sort of) normal. The installation is synchronous, i.e. R won't come back until the installation has finished, so the R GUI won't be able to respond to the OS until R handles the control back. The OS interprets this as not responding, since the GUI cannot process event while R is installing away happily.
I have successfully managed to install packages by hand, few days ago, after I had dowloaded them manually, and this had worked - but for "genefilter". Since I was getting stuck with the installation of genefilter, I erased R (following instructions) and re-installed it from the .dmg package. That, however, does not seem to have helped much.
Well, why don't you tell us what is your problem with genefilter? (Actually you may even take this to the BioC list since this appears to be really a BioC question ...). Cheers, Simon
Cheers again. Massimo On Tue, Apr 14, 2009 at 3:10 PM, Simon Urbanek <simon.urbanek at r-project.org
wrote:
On Apr 14, 2009, at 8:57 AM, Massimo Pinto wrote: Greetings, I am having troubles getting R to work on a Mac OS X 10.5.6, Leopard. I have installed R 2.8.1 (R 2.8.1 GUI 1.27 Tiger build 32-bit) from a .dmg file using the Mac OS installer, and, apparently, everything went smoothly.
From R, I would like to install a few basic packages that I will
need to run
in conjunction with "Agi4x44PreProcess" which I need to use to
preprocess my
cDNA microarray data. This is what I do from the R console:
source("http://bioconductor.org/biocLite.R")
biocLite()
I do get a list of the packages that will be installed, but then the
system
hangs and I have to resort to a "Force Quit".
I get the same behaviour when I try the package installer, right
from the R
GUI. Again, I got a hang.
How long is the "hang"? Note that the installation can take a while
depending on your connection since some of the packages are big. If
R hangs for a while even installing one package, then there may be
some problem with your internet connection. In that case you may
want to download the files manually (e.g. thorough a proxy) and
install them from local files.
Cheers,
Simon
I would greatly appreciate any suggestion toward the resolution of
this
problem.
Yours,
Massimo
--
Massimo Pinto
Post Doctoral Research Fellow
Enrico Fermi Centre and Italian Public Health Research Institute
(ISS), Rome
http://claimid.com/massimopinto
[[alternative HTML version deleted]]
_______________________________________________ R-SIG-Mac mailing list R-SIG-Mac at stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac -- Massimo Pinto Post Doctoral Research Fellow Enrico Fermi Centre and Italian Public Health Research Institute (ISS), Rome http://claimid.com/massimopinto
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