[BioC] Wow, what have I done

[Benilton Carvalho]

In that case, assuming that R-2.6.1 behaves just like R-2.6.0-patched  
in terms of memory management, you might want to define beforehand  
what you're going to be doing and, probably, use functions like  
justRMA().

b

On Dec 8, 2007, at 12:13 AM, Loren Engrav wrote:

> Thank you so much for the prompt help
>
> Having been "scolded" for this before I now use sessionInfo which  
> returned
>
>> sessionInfo()
> R version 2.6.0 Patched (2007-11-09 r43408)
> powerpc-apple-darwin8.10.1
>
> locale:
> en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] tools     stats     graphics  grDevices utils     datasets   
> methods
> base
>
> other attached packages:
> [1] affy_1.16.0          preprocessCore_1.0.0 affyio_1.6.1
> Biobase_1.16.1
>
>
>> From: Benilton Carvalho <bcarvalh at jhsph.edu>
>> Date: Sat, 8 Dec 2007 00:06:07 -0500
>> To: Loren Engrav <engrav at u.washington.edu>
>> Cc: "bioconductor at stat.math.ethz.ch" <bioconductor at stat.math.ethz.ch>
>> Subject: Re: [BioC] Wow, what have I done
>>
>> I'd first make sure that you have the latest version (of R and the
>> packages) installed...
>> b
>>
>> On Dec 7, 2007, at 11:59 PM, Loren Engrav wrote:
>>
>>> So I enter
>>>
>>>> GibranGlue70 <- ReadAffy() # to read in 70 .cel files
>>>
>>> And I get this, all in bright red
>>>
>>> Error: cannot allocate vector of size 723.6 Mb
>>> R(22621,0xa000ed88) malloc: *** vm_allocate(size=758743040) failed
>>> (error
>>> code=3)
>>> R(22621,0xa000ed88) malloc: *** error: can't allocate region
>>> R(22621,0xa000ed88) malloc: *** set a breakpoint in szone_error to
>>> debug
>>> R(22621,0xa000ed88) malloc: *** vm_allocate(size=758743040) failed
>>> (error
>>> code=3)
>>> R(22621,0xa000ed88) malloc: *** error: can't allocate region
>>> R(22621,0xa000ed88) malloc: *** set a breakpoint in szone_error to
>>> debug
>>>
>>> I have 2.5 gb DDR SDRAM in the dual G5 Mac
>>>
>>> Is the only answer, buy more RAM?
>>>
>>> [[alternative HTML version deleted]]
>>>
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