[Bioc-devel] Fwd: BiocInstaller::useDevel() Error: 'devel' version requires a more recent R

[Kevin RUE]

Hi all,

First of all, thanks for the question and answers, it helped me a lot on my
local machine.

While we're on the topic, does anyone know when R-devel (R-3.4) will be
available on Travis CI ? Because it is running R-3.3.1, and therefore
produces the same error message when I instruct Travis to install packages
from the devel branch.

I suppose this is something that I need to post on the Travis GitHub isse
tracker, right, considering the following message?

R for Travis-CI is not officially supported, but is community maintained.
Please file any issues at https://github.com/travis-ci/travis-ci/issues
and mention @craigcitro, @hadley and @jimhester in the issue
Best,
Kevin

On Thu, Oct 20, 2016 at 11:06 AM, Rodriguez Martinez, Andrea <
andrea.rodriguez-martinez13 at imperial.ac.uk> 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-bounces at r-project.org> on behalf of Martin
> Morgan <martin.morgan at roswellpark.org>
> Sent: 20 October 2016 10:28:34
> To: Michael Lawrence; bioc-devel at 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-martinez13@
> 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.michael at 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.michael at gene.com>
> > Sent: 19 October 2016 23:02:17
> > To: Rodriguez Martinez, Andrea
> > Cc: bioc-devel at 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-martinez13 at 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 at r-project.org mailing list
> >> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >
> > _______________________________________________
> > Bioc-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >
>
>
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>
> _______________________________________________
> Bioc-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>
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>
>
> _______________________________________________
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