[BioC] Oligo error on OS X Leopard

[Daniel Brewer]

Doh.  That gives 4, looks like I am running the 32bit version.  Off to
look for a 64bit binary.

Thanks

Dan

Tobias Straub wrote:
> Hi Dan,
> 
> are you running 64bit R?
> what's your output of .Machine$sizeof.pointer
> 
> Tobias
> 
> On Jun 23, 2009, at 12:17 PM, Daniel Brewer wrote:
> 
>> Just trying out the oligo package on some Human Exon 1.0 ST microarrays
>> and I get an error while doing a read.celfiles.  I am running OS X
>> Leopard on a macpro with 10GB memory.
>>
>>> yoda <- read.celfiles(list.celfiles("CEL",full.names=T))
>> Platform design info loaded.
>> Reading in : CEL/1208_CoC(3)25_ExH_PRC125.CEL
>> Reading in : CEL/1208_CoC(3)26_ExH_PRC126.CEL
>> Reading in : CEL/1208_CoC(3)27_ExH_PRC127.CEL
>> Reading in : CEL/1208_CoC(3)28_ExH_PRC128.CEL
>> Reading in : CEL/1208_CoC(3)29_ExH_PRC129.CEL
>> Reading in : CEL/1208_CoC(3)30_ExH_PRC130.CEL
>> Reading in : CEL/1208_CoC(3)31_ExH_NP1.CEL
>> Reading in : CEL/1208_CoC(3)32_ExH_NP2.CEL
>> Reading in : CEL/1208_CoC(3)33_ExH_NP3.CEL
>> Reading in : CEL/1208_CoC(3)34_ExH_NP4.CEL
>> Reading in : CEL/1208_CoC(3)35_ExH_NP5.CEL
>> Reading in : CEL/1208_CoC(3)36_ExH_NP6.CEL
>> Reading in : CEL/1208_CoC(3)37_ExH_NP7.CEL
>> Reading in : CEL/1208_CoC(3)38_ExH_ST1.CEL
>> R(2640) malloc: *** mmap(size=734007296) failed (error code=12)
>> *** error: can't allocate region
>> *** set a breakpoint in malloc_error_break to debug
>> R(2640) malloc: *** mmap(size=734007296) failed (error code=12)
>> *** error: can't allocate region
>> *** set a breakpoint in malloc_error_break to debug
>> Error: cannot allocate vector of size 700.0 Mb
>>
>>
>> Any ideas whats going on?
>>
>> Dan
>>
>> -- 
>> **************************************************************
>> Daniel Brewer, Ph.D.
>>
>> Institute of Cancer Research
>> Molecular Carcinogenesis
>> Email: daniel.brewer at icr.ac.uk
>> **************************************************************
>>
>> The Institute of Cancer Research: Royal Cancer Hospital, a charitable
>> Company Limited by Guarantee, Registered in England under Company No.
>> 534147 with its Registered Office at 123 Old Brompton Road, London SW7
>> 3RP.
>>
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> 
> ----------------------------------------------------------------------
> Tobias Straub   ++4989218075439   Adolf-Butenandt-Institute, München D
> 
> 
> 
> 

-- 
**************************************************************

Daniel Brewer, Ph.D.

Institute of Cancer Research
Molecular Carcinogenesis
MUCRC
15 Cotswold Road
Sutton, Surrey SM2 5NG
United Kingdom

Tel: +44 (0) 20 8722 4109

**************************************************************

The Institute of Cancer Research: Royal Cancer Hospital, a charitable Company Limited by Guarantee, Registered in England under Company No. 534147 with its Registered Office at 123 Old Brompton Road, London SW7 3RP.

This e-mail message is confidential and for use by the a...{{dropped:2}}