[BioC] Making a CDF environment

[James W. MacDonald]

Sung-Chur Sim wrote:
> Dear All:
>  
> I am a new user of Bioconductor and have been trying to create my own
> CDF environment using the "makecdfenv" package.  After I ran
> "R>make.cdf.env (my.CDF file)", it seems that the CDF environment was
> created. However, when I proceed to further analysis such as the
> functions in "affy" library, I got an error message as follows:
>  
> R> mytomatocdf <- make.cdf.env("myTOMATO.cdf")
> Reading CDF file.
> Creating CDF environment
> Wait for about 228
> dots....................................................................
> ........................................................................
> .......................................................................
>  
> R> Data <- ReadAffy()
> R> eset <- rma(Data)
> Error in getCdfInfo(object) : Could not obtain CDF environment, problems
> encountered:
> Specified environment does not contain myTOMATO
> Library - package mytomatocdf not installed
> Data for package affy did not contain mytomatocdf
> Bioconductor - mytomatocdf not available

Try naming your environment myTOMATO instead of mytomatocdf.

Best,

Jim


>  
> Can anyone give me any idea to solve this problem?
>  
> Sung-Chur Sim
> Postdoctoral Researcher
> Ohio State University, OARDC
> 1680 Madison Ave.
> Wooster, OH 44691
>  
>  
> 
> 	[[alternative HTML version deleted]]
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor


-- 
James W. MacDonald
University of Michigan
Affymetrix and cDNA Microarray Core
1500 E Medical Center Drive
Ann Arbor MI 48109
734-647-5623



**********************************************************
Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.