[BioC] Running time for make.cdf.package

[Jiang, Zhen]

It's a company server. I don't have much freedom to install software.
Do you think the version could be the problem?
But I have build packages before without any problem. 

Thanks,

Zhen Jiang


-----Original Message-----
From: Wolfgang Huber [mailto:huber at ebi.ac.uk] 
Sent: Monday, February 16, 2009 10:13 AM
To: Jiang, Zhen
Cc: bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] Running time for make.cdf.package


Hi Jiang,

other people may have more specific suggestion on what to do with 
Window, but what does task manager say about the CPU usage and memory 
footprint of this R process?

Also, it is never a mistake to use the most recent release of 
R/Bioconductor, i.e. R 2.8.1 and Bioc 2.3

  Best wishes
	Wolfgang


Jiang, Zhen wrote:
> Dear list,
> 
> I have a CDF file of size 404,514KB.  I'm using the following code to
> build a package from it.
> 
> library(affy)
> library(makecdfenv)
> 
> ## CDF Package
> make.cdf.package("xxxx.CDF",
>                  species="Homo_sapiens",
>                  version="0.0.1",unlink=TRUE,
>                  verbose=TRUE)
> 
> It has been running for two and half days.  Is it because the CDF is
too
> large for R to handle or something is wrong with my code?
> I have successfully build R packages for other much smaller CDF files
> using the same code, only with different CDF name.
> 
> The sessionInfo() is listed below.
> 
>> sessionInfo()
> R version 2.7.0 (2008-04-22) 
> i386-pc-mingw32 
> 
> locale:
> LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
> States.1252;LC_MONETARY=English_United
> States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252
> 
> attached base packages:
> [1] tools     stats     graphics  grDevices utils     datasets
methods
> 
> [8] base     
> 
> other attached packages:
> [1] makecdfenv_1.18.0    affy_1.18.2          preprocessCore_1.2.1
> [4] affyio_1.8.1         Biobase_2.0.1       
> 
> Thank you very much.
> 
> Zhen Jiang
> 
> 
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-- 

Best wishes
      Wolfgang

----------------------------------------------------
Wolfgang Huber, EMBL-EBI, http://www.ebi.ac.uk/huber
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