Steve:
Are you running R64.app? If not, grab it from here:
http://r.research.att.com/R-2.9.0.pkg
(http://r.research.att.com/ under "Leopard build") .
As far as I know (and I actually just tried it this morning), the
standard R 2.9.1 package off the CRAN website is the 32 bit version, so
you won't be able to access > 4GB of RAM.
--j
Steve Ellis wrote:
Dear R-helpers,
I am running R version 2.9.1 on a Mac Quad with 32Gb of RAM running
Mac OS X version 10.5.6. With over 20Gb of RAM "free" (according to
the Activity Monitor) the following happens.
> x <- matrix(rep(0, 6600^2), ncol = 6600)
# So far so good. But I need 3 matrices of this size.
> y <- matrix(rep(0, 6600^2), ncol = 6600)
R(3219) malloc: *** mmap(size=348483584) failed (error code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
R(3219) malloc: *** mmap(size=348483584) failed (error code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
Error: cannot allocate vector of size 332.3 Mb
Now a 6600 x 6600 matrix should take up less than 400Mb of RAM. So
the question is, with 20Gb of RAM free how come I can't create more
than one matrix of this size? (In fact, sometimes R won't even create
one of them.) More to the point, is there some simple remedy?
(Rewriting all my code to use the "Matrix" library, for example, is
not a simple remedy.)
I tried launching R in a terminal with
R --min-vsize=10M --max-vsize=5G --min-nsize=500k --max-nsize=900M
and that didn't work either. Finally, let me remark that I had the
same problem with an older version of R.
-- Steve Ellis
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--
Jonathan A. Greenberg, PhD
Postdoctoral Scholar
Center for Spatial Technologies and Remote Sensing (CSTARS)
University of California, Davis
One Shields Avenue
The Barn, Room 250N
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Cell: 415-794-5043
AIM: jgrn307, MSN: jgrn...@hotmail.com, Gchat: jgrn307
______________________________________________
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and provide commented, minimal, self-contained, reproducible code.
