[BioC] can't get CDF variable

[Ben Bolstad]

mgu74av2cdf is working fine for me with affy 1.1

Make sure you have all the current versions of packages like biobase
etc.



> Hi Rafael,
> 
> Actually, it is a little more obscure.  I rolled back to affy_1.0.9.zip, and I did not get the error message.  So I suppose something broke between affy_1.0.9.zip and affy_1.1.zip.
> 
> Thanks,
> Dick
> 
> *******************************************************************************
> Richard P. Beyer, Ph.D.	University of Washington
> Tel.:(206) 616 7378	Environmental Health, Box 354695
> Fax: (206) 685 4696	4225 Roosevelt Way NE, # 100
> 			Seattle, WA 98105-6099
> *******************************************************************************
> 
> 
> 
> 
> 
> 
> 
> 
> On Tue, 19 Nov 2002, Rafael A. Irizarry wrote:
> 
> > in version 1.1, except for hgu95av2 and hgu133a chips, you must 
> > download probe location infromation in the form of a package.
> > 
> > downlaod  and install the package
> > 
> > mgu74av2cdf
> > 
> > from
> > 
> > http://www.bioconductor.org/data/cdfenvs/cdfenvs.html
> > 
> > notice there is a "whats different" section 
> > in the vignette 
> > 
> > hope this helps,
> > rafael
> > 
> > On Tue, 19 
> > Nov 2002, 
> > Dick Beyer wrote:
> > 
> > > I get an error when running rma: variable "mgu74av2cdf" was not found.  I have loaded the relevant package.  Here are more details:
> > > 
> > > R : Copyright 2002, The R Development Core Team
> > > Version 1.6.1  (2002-11-01)
> > > > library(affy)
> > > Welcome to Bioconductor 
> > >          To view some introductory material -- look at our vignettes
> > >          Simply type: openVignette() 
> > >          to see the available vignettes
> > >          To read a vignette see the openVignette help page for details
> > > Creating a new generic function for "summary" in package Biobase 
> > > 
> > > Attaching package `Biobase':
> > > 
> > > 
> > >         The following object(s) are masked from package:base :
> > > 
> > >          split summary 
> > > 
> > > 
> > > Attaching package `affy':
> > > 
> > > 
> > >         The following object(s) are masked from package:base :
> > > 
> > >          barplot boxplot colnames hist history image ncol nrow 
> > > 
> > > > library(mgu74av2cdf)
> > > > Data <- ReadAffy()
> > > > eset <- rma(Data)
> > > Error in get(x, envir, mode, inherits) : variable "mgu74av2cdf" was not found
> > > > 
> > > 
> > > Not sure what to do next.
> > > 
> > > Thanks,
> > > Dick
> > > *******************************************************************************
> > > Richard P. Beyer, Ph.D.	University of Washington
> > > Tel.:(206) 616 7378	Environmental Health, Box 354695
> > > Fax: (206) 685 4696	4225 Roosevelt Way NE, # 100
> > > 			Seattle, WA 98105-6099
> > > *******************************************************************************
> > > 
> > > _______________________________________________
> > > Bioconductor mailing list
> > > Bioconductor@stat.math.ethz.ch
> > > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> > > 
> > 
> >
> 
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