Entering edit mode
If I am not mistaken, R simply takes whatever memory is available
under
linux (unlike win32 where you have the --max-memory-size flag), so if
you are running out of memory all you can do is get more.
And yes, justRMA() does exactly the same as ReadAffy() followed by
rma(), only without an AffyBatch that can be used for certain QC
plots,
etc.
Best,
Jim
James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623
>>> "Dipl.-Ing. Johannes Rainer" <johannes.rainer@tugraz.at> 11/25/04
11:47 AM >>>
hi,
i want to read in 67 CEL files (hgu133plus2 chips), but i get
everytime
the
error message: "Error: cannot allocate vector of size 709203KB"
i run R (version 2.0.1, bioconductor 1.5) on a linux workstation with
2
GB
physical RAM and 6 GB swap space... so there should not be any problem
regarding the memory installed on the system. is there a possibility
to
increase the memory that can be allocated by R?
other question: the justRMA() function, does this function exactly the
same as
ReadAffy() and then rma() ?
thanks for your help!
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