[BioC] R memory limit
beniltoncarvalho at gmail.com
Mon Jun 14 16:01:11 CEST 2010
FYI: the latest R is 2.11.1, so my recommendation is to upgrade.
If you installed R.app (ie, you have R under /Applications) you should
have R64.app there too...
If you're using the terminal, load R using
R --arch x86_64
You will need to reinstall the packages in order to use them in 64 bit.
On 14 June 2010 14:57, Hernando Martínez <hernybiotec at gmail.com> wrote:
> sorry, I am trying to analize an expression microarray of nearly 350
> samples. My R version is R 2.10.1 GUI 1.31 Leopard build 32-bit (5537). How
> do I load R in 64 bit? (maybe this is a trivial question for you but it is
> not for me, as I have no computer background).
> Thank you very much again,
> 2010/6/14 Benilton Carvalho <beniltoncarvalho at gmail.com>
>> You didn't provide us the information described in the post guide
>> (sessionInfo and description of the issue).
>> R does not impose any limit.
>> What is the type of array you're trying to analyze? And what
>> preprocessing strategy would you like to apply? How many samples do
>> you have? Are you using R in 32 or 64 bit mode?
>> You may be interested in taking a look at justRMA(), if RMA is your
>> choice. If you're in 32 bit mode, you definitely want to load R in 64
>> With more detailed information, we're going to be able to help you out.
>> On 14 June 2010 14:36, Hernando Martínez <hernybiotec at gmail.com> wrote:
>> > Hi, I am working with large data, and when I try to read it into R using
>> > 'ReadAffy', I get the following error message: "cannot allocate a vector
>> > size 712Mb". I have a MacBook Pro with 4Gb of memory. I have been
>> > reading
>> > some posts online, but I haven't found a clear solution. Maybe is a
>> > limit in
>> > R, or an imposed limit of my system that I should change. Does anyone
>> > knows
>> > how to do it? Any ideas?
>> > Many thanks,
>> > --
>> > Hernando Martínez Vergara
>> > [[alternative HTML version deleted]]
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> Hernando Martínez Vergara
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