[Bioc-devel] Remotes in DESCRIPTION not supported for BioC?

[Vincent Carey]

My understanding is that we will not permit dependencies outside of Bioc or
CRAN.  If a repository
is created that is at least as rigorous in package admission as CRAN,
perhaps it needs to be
considered.  If there are details known about alternate repositories that
we should learn about, please supply.

On Tue, Mar 2, 2021 at 1:20 PM Henrik Bengtsson <henrik.bengtsson using gmail.com>
wrote:

> Related: Does Bioconductor support 'Additional_repositories'? From RWE:
>
> The ‘Additional_repositories’ field is a comma-separated list of
> repository URLs where the packages named in the other fields may be
> found. It is currently used by R CMD check to check that the packages
> can be found, at least as source packages (which can be installed on
> any platform).
>
> FWIW, CRAN allows/supports them (I've only used them for packages
> under 'Suggests:').
>
> /Henrik
>
> On Tue, Mar 2, 2021 at 4:02 AM Rainer Johannes
> <Johannes.Rainer using eurac.edu> wrote:
> >
> > thanks for the quick reply Lori!
> >
> > OK, so we will have to submit the package to Bioc ASAP.
> >
> > cheers, jo
> >
> > > On 2 Mar 2021, at 12:51, Kern, Lori <Lori.Shepherd using RoswellPark.org>
> wrote:
> > >
> > > Currently the builders do not allow the user of remotes and you would
> have to wait for it to be submitted to CRAN or Bioconductor.  All
> Bioconductor dependencies must be on CRAN or Bioconductor.
> > >
> > > Get Outlook for iOS
> > > From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of
> Rainer Johannes <Johannes.Rainer using eurac.edu>
> > > Sent: Tuesday, March 2, 2021 4:36:05 AM
> > > To: bioc-devel <bioc-devel using r-project.org>
> > > Subject: [Bioc-devel] Remotes in DESCRIPTION not supported for BioC?
> > >
> > > Dear All!
> > >
> > > in one of the xcms vignettes we are using a R package which is not yet
> in Bioconductor and I added
> > >
> > > Remotes:
> > >     RforMassSpectrometry/MsBackendMgf
> > >
> > > to the DESCRIPTION thinking that on the BioC build machines the
> package might get installed (from github). It does apparently not as we get
> ERROR for this vignette. Is there any way I can use a non-Bioconductor and
> non-CRAN package or do I have to wait until the package is included in
> Bioconductor?
> > >
> > > thanks for any feedback!
> > >
> > > cheers, jo
> > > _______________________________________________
> > > Bioc-devel using r-project.org mailing list
> > >
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