Hi,
Sorry for my slow response. I have just tried again and it worked, but then I was not able to install packages from the devel branch, with the warning: >Warning: unable to access index for repository >https://bioconductor.org/packages/3.5/data/experiment/bin/macosx/mavericks/contrib/3.4: cannot download all files I guess this is all related with what has been discussed in this loop of emails. Thanks, Andrea ________________________________ From: Martin Morgan <martin.mor...@roswellpark.org> Sent: 20 October 2016 13:31:31 To: Rodriguez Martinez, Andrea; Michael Lawrence; bioc-devel@r-project.org Subject: Re: [Bioc-devel] Fwd: BiocInstaller::useDevel() Error: 'devel' version requires a more recent R Sorry, can you try one more time? Thanks, Martin On 10/20/2016 06:06 AM, Rodriguez Martinez, Andrea wrote: > Thanks for your reply. > > > I have successfully removed BiocInstaller by hand, restart R, and then, > installed with: > > >> source("https://bioconductor.org/biocLite.R";) > Warning in install.packages : > URL > 'https://bioconductor.org/packages/3.4/bioc/bin/macosx/mavericks/contrib/3.4/PACKAGES.gz': > status was '404 Not Found' > Warning in install.packages : > URL > 'https://bioconductor.org/packages/3.4/bioc/bin/macosx/mavericks/contrib/3.4/PACKAGES': > status was '404 Not Found' > Warning in install.packages : > unable to access index for repository > https://bioconductor.org/packages/3.4/bioc/bin/macosx/mavericks/contrib/3.4: > cannot download all files > installing the source package �BiocInstaller� > > trying URL > 'https://bioconductor.org/packages/3.4/bioc/src/contrib/BiocInstaller_1.24.0.tar.gz' > Content type 'application/x-gzip' length 17756 bytes (17 KB) > ================================================== > downloaded 17 KB > > * installing *source* package �BiocInstaller� ... > ** R > ** inst > ** preparing package for lazy loading > ** help > *** installing help indices > ** building package indices > ** testing if installed package can be loaded > Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help > Warning: Bioconductor version 3.4 is too old for R version 3.4.0; see > https://bioconductor.org/install/#troubleshoot-biocinstaller > * DONE (BiocInstaller) > > The downloaded source packages are in > �/private/var/folders/z8/8jwlrtqx3270h05ncg1xwzs80000gn/T/RtmpRmVsc5/downloaded_packages� > Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help > >> BiocInstaller::useDevel() > Error: 'devel' version requires a more recent R > > > Thanks very much, > > Andrea > > > > ------------------------------------------------------------------------ > *From:* Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of > Martin Morgan <martin.mor...@roswellpark.org> > *Sent:* 20 October 2016 10:28:34 > *To:* Michael Lawrence; bioc-devel@r-project.org > *Subject:* Re: [Bioc-devel] Fwd: BiocInstaller::useDevel() Error: > 'devel' version requires a more recent R > > On 10/20/2016 12:00 AM, Michael Lawrence wrote: >> ---------- Forwarded message ---------- >> From: Rodriguez Martinez, Andrea <andrea.rodriguez-martine...@imperial.ac.uk> >> Date: Wed, Oct 19, 2016 at 3:33 PM >> Subject: Re: [Bioc-devel] BiocInstaller::useDevel() Error: 'devel' >> version requires a more recent R >> To: Michael Lawrence <lawrence.mich...@gene.com> >> >> >> Sorry again, >> >> I have just installed the R-devel version and now I get the following >> error: "Bioconductor does not yet support R version 3.4.0" > > Thank you, you installed BiocInstaller in R-devel (R-3.4) before > Bioconductor officially supported R-3.4, and need to manually remove and > re-install BiocInstaller. > > I have updated the online configure, so in a new session, try to load > the BiocInstaller package and you should now see > > Bioconductor version 3.4 is too old for R version 3.4.0; see > https://bioconductor.org/install/#troubleshoot-biocinstaller > > The instructions are to remove BiocInstaller by hand > > remove.packages("BiocInstaller") > remove.packages("BiocInstaller") # fails, if not then investigate > > and install again > > source("https://bioconductor.org/biocLite.R";) > > Martin > >> >> Thanks, >> >> Andrea >> >> ________________________________ >> From: Rodriguez Martinez, Andrea >> Sent: 19 October 2016 23:13:06 >> To: Michael Lawrence >> Subject: Re: [Bioc-devel] BiocInstaller::useDevel() Error: 'devel' >> version requires a more recent R >> >> >> Thanks! >> >> ________________________________ >> From: Michael Lawrence <lawrence.mich...@gene.com> >> Sent: 19 October 2016 23:02:17 >> To: Rodriguez Martinez, Andrea >> Cc: bioc-devel@r-project.org >> Subject: Re: [Bioc-devel] BiocInstaller::useDevel() Error: 'devel' >> version requires a more recent R >> >> Bioconductor 3.5 requires R-devel. >> >> On Wed, Oct 19, 2016 at 2:57 PM, Rodriguez Martinez, Andrea >> <andrea.rodriguez-martine...@imperial.ac.uk> wrote: >>> Hi, >>> >>> >>> I was just trying to use the devel branch, but I get this error message >>> (using R.3.3.1) >>> >>> >>>> BiocInstaller::useDevel() >>> >>>> Error: 'devel' version requires a more recent R >>> >>> >>> Any help with this? >>> >>> Thanks very much in advance, >>> >>> Andrea >>> >>> [[alternative HTML version deleted]] >>> >>> _______________________________________________ >>> Bioc-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> > > > This email message may contain legally privileged and/or...{{dropped:2}} > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel This email message may contain legally privileged and/or confidential information. 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