You need to ask this question on the Bioconductor mailing list.
---------------------------------------------------------------------------
Jeff Newmiller The ..... ..... Go Live...
DCN:<jdnewmil@dcn.davis.ca.us> Basics: ##.#. ##.#. Live Go...
Live: OO#.. Dead: OO#.. Playing
Research Engineer (Solar/Batteries O.O#. #.O#. with
/Software/Embedded Controllers) .OO#. .OO#. rocks...1k
--------------------------------------------------------------------------- 
Sent from my phone. Please excuse my brevity.

ascendo <ascendo@dongguk.edu> wrote:

Dear R-help

Hi,

I'm Won.

I try to do microarray normalization by R.

I use justRMA function within affy package, got error about segment fault.

I don't know why it happen.

I attached error below.

Please help me.

Thank you.

Cheers,

Won

=======================
OS : Redhat linux
Cpu : intel xeon X5570
Memory : 26Gb

&

OS : Ubuntu
Cpu : intel q6600
Memory : 8Gb

=======================
Loading required package: Biobase
Loading required package: methods

Welcome to Bioconductor

Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: gcrma
Loading required package: preprocessCore

Attaching package: 'affyPLM'

The following object(s) are masked from 'package:stats':

resid, residuals, weights


*** caught segfault ***
address 0xc609000, cause 'memory not mapped'

Traceback:
1: .Call("rma_c_complete", probeintensities$pm, pNList, ngenes, 
normalize, background, bgversion, verbose, PACKAGE = "affy")
2: just.rma(filenames = l$filenames, phenoData = l$phenoData, description =
l$description, notes = notes, compress = compress, rm.mask = rm.mask,
rm.outliers = rm.outliers, rm.extra = rm.extra, verbose = verbose,
normalize = normalize, background = background, bgversion = bgversion,
destructive = destructive, cdfname = cdfname)
3: justRMA()
aborting ...
/var/spool/sge/tachyon1145/job_scripts/477103: line 21: 22829 Segmentation
fault /home01/e133ywc/R/R-2.13.0/bin/Rscript
/scratch/e133ywc/big/198/198.R

--
View this message in context: http://r.789695.n4.nabble.com/cause-memory-not-mapped-tp3593833p3593833.html
Sent from the R help mailing list archive at Nabble.com.

_____________________________________________

R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.


	[[alternative HTML version deleted]]

