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xiong mody0911 | 15 May 04:29
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help about ReadAffy() erro

 when I type the command
Data<-ReadAffy()
Error: cannot allocate vector of size 831.6 Mb

my system is ArchLinux ,and
free the memory infomation like this
  total       used       free     shared    buffers     cached
Mem:       2075116    1980384      94732          0      94840    1030020
-/+ buffers/cache:     855524    1219592
Swap:      2048248     226472    1821776

what can I  do if I want to read the cel files one time?
 thans .
melody

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James W. MacDonald | 15 May 15:32
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Re: help about ReadAffy() erro

Hi Melody,

First off, note that a simple search for 'cannot allocate vector' using 
the Gmane search functions on the BioC website would have come up with 
probably hundreds of hits that would have answered this question for you.

xiong mody0911 wrote:
>  when I type the command
> Data<-ReadAffy()
> Error: cannot allocate vector of size 831.6 Mb
> 
> my system is ArchLinux ,and
> free the memory infomation like this
>   total       used       free     shared    buffers     cached
> Mem:       2075116    1980384      94732          0      94840    1030020
> -/+ buffers/cache:     855524    1219592
> Swap:      2048248     226472    1821776
> 
> what can I  do if I want to read the cel files one time?

Not sure what you are asking here, but there are three things you can do.

First, try justRMA() or justGCRMA().

Second, use RMAexpress (Google it).

Third, buy RAM.

Best,
(Continue reading)

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Tony Chiang | 19 May 12:04
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Re: help about ReadAffy() erro

Just to add to Jim's remarks...

I found that if you have at least 1GB or RAM, and you are running firefox
with multiple tabs (or any other software that uses lots of RAM), R cannot
do what it wants. If you have just enough ram for what you want to do, try
closing down all other applications lest you run into this error.

Tony

On Thu, May 15, 2008 at 2:32 PM, James W. MacDonald <jmacdon@...>
wrote:

> Hi Melody,
>
> First off, note that a simple search for 'cannot allocate vector' using the
> Gmane search functions on the BioC website would have come up with probably
> hundreds of hits that would have answered this question for you.
>
> xiong mody0911 wrote:
>
>>  when I type the command
>> Data<-ReadAffy()
>> Error: cannot allocate vector of size 831.6 Mb
>>
>> my system is ArchLinux ,and
>> free the memory infomation like this
>>  total       used       free     shared    buffers     cached
>> Mem:       2075116    1980384      94732          0      94840    1030020
>> -/+ buffers/cache:     855524    1219592
>> Swap:      2048248     226472    1821776
(Continue reading)

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