[BioC] makecdfenv error for custom cdf

[James W. MacDonald]

Hi Tarun,

Tarun Nayar wrote:
> Hi,
>  
> I'm trying to use the makecdfenv package (v1.10) to make a cdf package
> for a custom affy grape chip. I'm getting the following error:
>  
> 
>>library(makecdfenv)
>>make.cdf.package("GrapeGena520510F.cdf",
> 
> package.path="/home/tnayar/R-2.3.1/library/", species="Vitis_vinifera")
> Reading CDF file.
> Creating CDF environment
> Wait for about 231
> dots....................................................................
> ........................................................................
> ........................................................................
> ....................................................
> Creating package in /home/tnayar/R-2.3.1/library//grapegena520510fcdf 
> [1] "grapegena520510fcdf"
> 
> 
>>library(grapegena520510fcdf)
> 
> Error in library(grapegena520510fcdf) : 'grapegena520510fcdf' is not a
> valid package -- installed < 2.0.0?
>  
> Any ideas? Using R-2.3.1

You don't make the package directly in your library directory. Just make 
it somewhere like /home/tnayar/ and then in a terminal do

R CMD INSTALL <packagename>

which will install the package into your library directory.

If your R directory isn't in your PATH, then you may have to do 
/home/tnayar/R-2.3.1/bin/R CMD INSTALL <packagename>

I would also upgrade to a current R version. The one you are using is 
pretty old now.

Best,

Jim


>  
> Thanks
>  
> Tarun Nayar
> Genome Sciences Centre
> Vancouver BC
> 
> 
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> 
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-- 
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623


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