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 > > > > > > > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor