no they have not. right now i have no way of doing it. ill ask the gurus. -rafael On Wed, 20 Nov 2002, Ben Bolstad wrote: > I can duplicate your errors on a fresh windows 2000 installation of R > 1.6.1 and bioconductor (getBioC), both using mgu74av2cdf and hgu95acdf > data. > > No such problem trying the equivalent on a linux machine. > > On a linux machine > > > library(mgu74av2cdf) > > mgu74av2cdf > <environment: 0x8b3a8b0=""> > > On a windows machine > > > library(mgu74av2cdf) > > mgu74av2cdf > Error: object "mgu74av2cdf" not found > > Rafael: have the cdfenvs been tested on win? digging around in the > installed cdfenvs on win i can't find the equivalent to the .First.lib, > does not appear that the datafiles are being attached properly on win. > > Thanks, > > Ben > > > > I did a complete reinstall of R 1.6.1 and Bioconductor 1.1. I also got mgu74av2cdf_0.1.zip from http://www.bioconductor.org/data/cdfenvs/cdfenvs.html and installed that. > > > > Here are the main details: > > > > > library(affy) > > > library(Biobase) > > > library(mgu74av2cdf) > > > Data <- ReadAffy() > > > eset <- rma(Data) > > Error in get(x, envir, mode, inherits) : variable "mgu74av2cdf" was not found > > > Data > > AffyBatch object > > size of arrays=640x640 features (12803 kb) > > Error in get(x, envir, mode, inherits) : variable "mgu74av2cdf" was not found > > Error in inherits(cdf.env, "try-error") : Object "cdf.env" not found > > > > > > > I am using Windows 2000 and I use: > > > > "C:\Program Files\R\rw1061\bin\Rgui.exe" --max-mem-size=768M > > > > to start R. > > > > > > In Bioconductor 1.0, things work better. For example: > > >Data <- ReadAffy() > > >Data > > object > > CDF used=MG_U74Av2.CDF > > number of chips=4 > > number of genes=12488 > > number of probe pairs=197993 > > annotation= > > description= > > notes= > > size of chip=640x640 > > chip names= > > NL_OMCATHR_H1A > > NL_OWTHR_H1A > > NL_YMCATHR_H1A > > NL_YWTHR_H1A > > > > I am not sure what to do next. > > > > Thanks much, > > 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 > > >

On 20 Nov 2002, Ben Bolstad wrote: > I can duplicate your errors on a fresh windows 2000 installation of R > 1.6.1 and bioconductor (getBioC), both using mgu74av2cdf and hgu95acdf > data. I have uploaded new CDF data packages to the website for Win32. As near as I can tell, they correct this problem, although if someone can confirm this, it would be much appreciated. -J