Thanks! That worked. I've installed these packages (or the hgu133a versions) in the past using biocLite. So, I assumed they were part of bioconductor. On Thu, Mar 31, 2011 at 8:54 PM, Vincent Carey <stvjc@channing.harvard.edu>wrote: > This is not a Bioconductor package, so biocLite will not work. I had > success with > > > install.packages("hgu133plus2hsentrezgprobe", repos=" > http://nugo-r.bioinformatics.nl/2.7/bioc/") > > > sessionInfo() > R version 2.13.0 Under development (unstable) (2011-03-01 r54628) > Platform: x86_64-apple-darwin10.4.0/x86_64 (64-bit) > > locale: > [1] C > > attached base packages: > [1] stats graphics grDevices datasets tools utils methods > [8] base > > other attached packages: > [1] weaver_1.17.0 codetools_0.2-8 digest_0.4.2 > > > On Thu, Mar 31, 2011 at 7:48 PM, Obi Griffith <olgriffith@lbl.gov> wrote: > >> Hi all, >> >> I am trying to install libraries: "hgu133plus2hsentrezgprobe" and >> "hgu133plus2hsentrezg.db". >> >> I tried: >> > biocLite("hgu133plus2hsentrezg.db") >> Using R version 2.11.1, biocinstall version 2.6.9. >> Installing Bioconductor version 2.6 packages: >> >> But, get the error: >> Error : package 'AnnotationDbi' 1.10.2 was found, but >= 1.12.0 is >> required >> by 'hgu133plus2hsentrezg.db' >> >> I tried updating 'AnnotationDbi'. But it seems this is the most up to date >> version for R version 2.11.1, Bioconductor version 2.6. >> >> >> So, I installed the most current version of R (2.12.2). Now, AnnotationDbi >> is at the required version (1.12.0). But, when I go to install >> 'hgu133plus2hsentrezg.db': >> > biocLite("hgu133plus2hsentrezgprobe") >> Using R version 2.12.2, biocinstall version 2.7.4. >> Installing Bioconductor version 2.7 packages: >> >> I get the following error: >> package ‘hgu133plus2hsentrezgprobe’ is not available >> >> >> This seems like a catch-22. To get the required AnnotationDbi for >> 'hgu133plus2hsentrezg.db' I need to install a version of R/Bioconductor >> that >> no longer contains the 'hgu133plus2hsentrezg.db'. >> >> Any suggestions? >> >> -- >> Obi L. Griffith, PhD >> Post-doctoral fellow >> Lawrence Berkeley Laboratory >> Life Sciences Division, Cancer & DNA Damage Responses >> One Cyclotron Rd. >> Mailstop: 977-250 >> Berkeley, CA 94720 >> (510) 495-2841 >> www.obigriffith.org >> >> [[alternative HTML version deleted]] >> >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > -- Obi L. Griffith, PhD Post-doctoral fellow Lawrence Berkeley Laboratory Life Sciences Division, Cancer & DNA Damage Responses One Cyclotron Rd. Mailstop: 977-250 Berkeley, CA 94720 (510) 495-2841 www.obigriffith.org [[alternative HTML version deleted]]