Hi all. I'm trying to install the hugene10st.db package. I was unsuccessful with the standard approach of: ------------------ > source("http://bioconductor.org/biocLite.R") > biocLite("hugene10st.db") Using R version 2.9.1, biocinstall version 2.4.12. Installing Bioconductor version 2.4 packages: [1] "hugene10st.db" Please wait... Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/universal/contrib /2.9 Warning message: In getDependencies(pkgs, dependencies, available, lib) : package 'hugene10st.db' is not available > biocLite("mogene10st.db") Using R version 2.9.1, biocinstall version 2.4.12. Installing Bioconductor version 2.4 packages: [1] "mogene10st.db" Please wait... Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/universal/contrib /2.9 Warning message: In getDependencies(pkgs, dependencies, available, lib) : package 'mogene10st.db' is not available > biocLite("limma") Using R version 2.9.1, biocinstall version 2.4.12. Installing Bioconductor version 2.4 packages: [1] "limma" Please wait... Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/universal/contrib /2.9 trying URL 'http://bioconductor.org/packages/2.4/bioc/bin/macosx/universal/contri b/2.9/limma_2.18.2.tgz' Content type 'application/x-gzip' length 1121233 bytes (1.1 Mb) opened URL ================================================== downloaded 1.1 Mb ------------------ ... although you can see that works for other BioC packages, so its not simply a connection issue. Correspondingly, the hyperlinks to the various version of the package do not work for me: http://www.bioconductor.org/packages/2.4/data/annotation/html/hugene10 st.db.html (The same appears true of the 2.5 links). Am I doing something silly here? Cheers, Mark

Hi Mark, In the latest versions of Bioconductor, that package has been replaced by TWO packages (depending on which revision you want to used): hugene10stprobeset.db <http: www.bioconductor.org="" packages="" 2.4="" data="" annotation="" html="" hugene1="" 0stprobeset.db.html=""> and hugene10sttranscriptcluster.db <http: www.bioconductor.org="" packages="" 2.4="" data="" annotation="" html="" hugene1="" 0sttranscriptcluster.db.html=""> You can simply go to the links above, decide which version you need, and then use biocLite() as usual to get the package you want. Marc Mark Robinson wrote: > Hi all. > > I'm trying to install the hugene10st.db package. > > I was unsuccessful with the standard approach of: > > ------------------ > >> source("http://bioconductor.org/biocLite.R") >> biocLite("hugene10st.db") >> > Using R version 2.9.1, biocinstall version 2.4.12. > Installing Bioconductor version 2.4 packages: > [1] "hugene10st.db" > Please wait... > > Warning: unable to access index for repository > http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/universal/contr ib/2.9 > Warning message: > In getDependencies(pkgs, dependencies, available, lib) : > package 'hugene10st.db' is not available > >> biocLite("mogene10st.db") >> > Using R version 2.9.1, biocinstall version 2.4.12. > Installing Bioconductor version 2.4 packages: > [1] "mogene10st.db" > Please wait... > > Warning: unable to access index for repository > http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/universal/contr ib/2.9 > Warning message: > In getDependencies(pkgs, dependencies, available, lib) : > package 'mogene10st.db' is not available > >> biocLite("limma") >> > Using R version 2.9.1, biocinstall version 2.4.12. > Installing Bioconductor version 2.4 packages: > [1] "limma" > Please wait... > > Warning: unable to access index for repository > http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/universal/contr ib/2.9 > trying URL > 'http://bioconductor.org/packages/2.4/bioc/bin/macosx/universal/cont rib/2.9/limma_2.18.2.tgz' > Content type 'application/x-gzip' length 1121233 bytes (1.1 Mb) > opened URL > ================================================== > downloaded 1.1 Mb > ------------------ > > ... although you can see that works for other BioC packages, so its not > simply a connection issue. Correspondingly, the hyperlinks to the various > version of the package do not work for me: > > http://www.bioconductor.org/packages/2.4/data/annotation/html/hugene 10st.db.html > > (The same appears true of the 2.5 links). > > Am I doing something silly here? > > Cheers, > Mark > > _______________________________________________ > 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 > >