Sorry now posting to the list On Tue, Jan 18, 2011 at 10:01 PM, Dan Tenenbaum <dtenenba@fhcrc.org> wrote: > > > On Mon, Jan 17, 2011 at 6:45 AM, Pedro Gomez-Fabre <pedro.fabre@gmail.com>wrote: > >> Hi guys, >> >> >> >> I am trying to update bioconductor for an old release 2.10.1 >> >> >> >> I have tried >> >> >> >> -------------------------- >> >> BIO_R_Library <- .Library >> BIO_R_Downloads_Allowed <- TRUE >> source("http://bioconductor.org/biocLite.R") >> update.packages(repos=biocinstallRepos(), ask=FALSE) >> >> -------------------------- >> >> >> >> The error I am getting is >> >> ======== >> >> Warning: unable to access index for repository >> http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.10 >> >> ======== >> >> >> >> Looking at the url I could see the location is not available any longer. >> >> >> >> If I do a fresh installation of R and issue the same commands somehow it >> passed the missing repository and looks for the information at fhcrc.org. >> >> >> >> -------------------------- >> >> Warning: unable to access index for repository >> http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.10 >> >> also installing the dependencies 'multcomp', 'abind', 'miscTools', 'coin', >> 'zoo', 'strucchange', 'gam', 'lmtest', 'colorspace', 'robustbase' >> >> >> >> trying URL ' >> http://cran.fhcrc.org/bin/windows/contrib/2.10/multcomp_1.2-3.zip' >> >> Content type 'application/zip' length 976410 bytes (953 Kb) >> >> opened URL >> >> ... >> >> -------------------------- >> >> >> >> Issuing the same command again produce the error seen first. >> >> >> >> Do you know how I can select a valid location? Is there any way I can >> decide >> what server I have to be looking at? Alternatives? >> >> >> >> > Hi Pedro, > > This is just a warning and can be safely ignored. Your packages should have > updated correctly. Email the list if that is not the case, and include the > output of sessionInfo(). > > Thanks, > Dan > > > Hi Dan, Thanks for responding. Please find the information you requested. > sessionInfo() R version 2.10.1 (2009-12-14) i386-pc-mingw32 locale: [1] LC_COLLATE=English_United Kingdom.1252 [2] LC_CTYPE=English_United Kingdom.1252 [3] LC_MONETARY=English_United Kingdom.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United Kingdom.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base > BIO_R_Library <- .Library > BIO_R_Downloads_Allowed <- TRUE > source("http://bioconductor.org/biocLite.R") Warning messages: 1: In safeSource() : Redefining ‘biocinstall’ 2: In safeSource() : Redefining ‘biocinstallPkgGroups’ 3: In safeSource() : Redefining ‘biocinstallRepos’ > update.packages(repos=biocinstallRepos(), ask=FALSE) Warning: unable to access index for repository http://www.stats.ox.ac.uk/pub/RWin/bin/windows/contrib/2.10 > sessionInfo() R version 2.10.1 (2009-12-14) i386-pc-mingw32 locale: [1] LC_COLLATE=English_United Kingdom.1252 [2] LC_CTYPE=English_United Kingdom.1252 [3] LC_MONETARY=English_United Kingdom.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United Kingdom.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_2.10.1 > How can I bypass the error? > > >> Thanks in advance for your help. >> >> Pedro >> >> [[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 >> > > [[alternative HTML version deleted]]