Dear Martin and Everybody, Here is a record of the session: > Data<-ReadAffy() > sessionInfo() R version 2.6.0 (2007-10-03) i386-apple-darwin8.10.1 locale: en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] tools stats graphics grDevices utils datasets methods base other attached packages: [1] affy_1.16.0 preprocessCore_1.0.0 affyio_1.6.1 [4] Biobase_1.16.1 loaded via a namespace (and not attached): [1] simpleaffy_2.14.05 > image(Data[,1]) #produced image which I closed > image(Data[,2]) #produced image, which I closed > image(Data[,3]) # R disappears and I get an error message that states The application R quit unexpectedly Are you interested in what I see when I click "Report". it is long. THANKS! Rich On Oct 31, 2007, at 2:03 PM, Martin Morgan wrote: > Hi Richard -- > > what does sessionInfo() say? My guess (in a bit of rut on this!) is > that you need to update packages so that Bioconductor and R agree. See > > http://www.bioconductor.org/docs/install-howto.html > > Please report back to the list, and if you do not have success include > the output of sessionInfo(). Also provide additional detail about what > 'crash' means (R error message? windows error dialog box?) > > Martin > > Richard Friedman <friedman at="" cancercenter.columbia.edu=""> writes: > >> correction to post below: >> >> I tried >> >> image(Data[,1]) >> >> where data was an affybatch object >> >> Rich >> On Oct 31, 2007, at 12:31 PM, Richard Friedman wrote: >> >>> Dear Bioconductor Users. >>> >>> I am trying to do Image array plots of hgu133plus2 chips with the >>> new release of Bioconductor (includiong affy 1.16.0) >>> under R 2.60 on a Mac (10.4) . I am using the command >>> >>>> image(eset[,1]) >>> >>> and I get an image array. But R crashes after the second image. >>> >>> I then tried it with the latest version of R and Bioconductor on >>> my PC, >>> this time with AffylmGUI ( I have not yet got the GUI to work on the >>> Mac, but >>> that is not the problem I am writing about now). >>> >>> R didn't crash but again after 2 images I couldn't get another >>> image. >>> >>> I seemed to remember this operation working properly with earlier >>> versions >>> of R and Bioconductor on the same chip. So I tried it with AffylmGUI >>> 1.5.4 >>> using Limma 2.7.6 unde R 2.31 on the PC. I was just able to get 3 >>> chip >>> images in a row without mishap. >>> >>> So it seems that I am doing something that once worked and now >>> no longer does. >>> >>> Any suggestions would be appreciated. >>> >>> Thanks and best wishes, >>> Rich >>> -------------------------------------------------------- >>> Richard A. Friedman, PhD >>> Biomedical Informatics Shared Resource >>> Lecturer >>> Department of Biomedical Informatics >>> Educational Coordinator >>> Center for Computational Biology and Bioinformatics >>> National Center for Multiscale Analysis of Genomic Networks >>> Box 95, Room 130BB or P&S 1-420C >>> Columbia University Medical Center >>> 630 W. 168th St. >>> New York, NY 10032 >>> (212)305-6901 (5-6901) (voice) >>> friedman at cancercenter.columbia.edu >>> http://cancercenter.columbia.edu/~friedman/ >>> >>> "The last 250 pages of the last Harry Potter >>> book took place in one day because alot >>> happened in that day. All of Ulysses takes >>> place in one day and nothing happened in that day." >>> -Rose Friedman, age 11 >>> >>> _______________________________________________ >>> 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 >> >> _______________________________________________ >> 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