[Bioc-devel] Bioconductor git-svn bridge is available

[Dan Tenenbaum]

Hi Moritz,

----- Original Message -----
> From: "Moritz Gerstung" <mg14 at sanger.ac.uk>
> To: "Kasper Daniel Hansen" <kasperdanielhansen at gmail.com>
> Cc: "Dan Tenenbaum" <dtenenba at fhcrc.org>, bioc-devel at r-project.org, "Sean Davis" <sdavis2 at mail.nih.gov>
> Sent: Monday, May 12, 2014 1:32:38 AM
> Subject: Re: [Bioc-devel] Bioconductor git-svn bridge is available
> 
> Hi all
> 
> Following Kasper's idea from a couple of months ago: Would it be
> possible to have the git-svn bridge synchronise a branch other than
> master?
> 
> If so, one could use the git subtree command,
> 
> git subtree split -P minfi -b biocsvn
> 
> to create a branch 'biocsvn' only containing minfi directory
> [package]. This branch would then be synchronised over the git-svn
> bridge. Changes in the biocsvn branch can be merged back into the
> master branch and the correct directory with
> 
> git subtree merge -P minfi biocsvn
> 
> I would also fancy a directory structure as Kasper suggested, where
> the actual R package is a subdirectory. This would allow for placing
> extra files such as README.md or Makefile into the root directory
> and other project related data which shouldn't go into the package,
> but may be useful, in other directories. As a side effect one can
> also screw up the git master branch without breaking the devel
> repository.
> 
> I'm not a git guru, so maybe I'm missing something here, but it seems
> feasible.
> 

It does seem doable. It may take a while before I have time to implement this.
Thanks.
Dan


> Cheers,
> 
> Moritz
> 
> PS. Resent as it bounced from list before.
> 
> 
> On 21 Feb 2014, at 17:00, Kasper Daniel Hansen
> <kasperdanielhansen at gmail.com> wrote:
> 
> > Thanks everyone, it was worth a question.
> > 
> > Perhaps I will figure out how to use submodules.
> > 
> > Kasper
> > 
> > 
> > On Fri, Feb 21, 2014 at 11:45 AM, Dan Tenenbaum
> > <dtenenba at fhcrc.org> wrote:
> > 
> >> 
> >> 
> >> ----- Original Message -----
> >>> From: "Sean Davis" <sdavis2 at mail.nih.gov>
> >>> To: "Kasper Daniel Hansen" <kasperdanielhansen at gmail.com>
> >>> Cc: bioc-devel at r-project.org, "Dan Tenenbaum"
> >>> <dtenenba at fhcrc.org>
> >>> Sent: Friday, February 21, 2014 7:08:21 AM
> >>> Subject: Re: [Bioc-devel] Fwd: Bioconductor git-svn bridge is
> >>> available
> >>> 
> >>> 
> >>> 
> >>> I doubt this is possible given the atomic nature of a git
> >>> repository.
> >>> You might look at using a second git repository and including the
> >>> minfi package as a git submodule of that second repository. Then,
> >>> you can keep things in sync, but the minfi repository remains
> >>> atomic.
> >>> 
> >> 
> >> I think Sean is correct.
> >> Dan
> >> 
> >> 
> >>> Sean
> >>> On Feb 21, 2014 9:44 AM, "Kasper Daniel Hansen" <
> >>> kasperdanielhansen at gmail.com > wrote:
> >>> 
> >>> 
> >>> Question: is it possible to synchronize a subset of a github
> >>> repos?
> >>> For
> >>> minfi, I would like my github to be
> >>> 
> >>> minfi-devel
> >>> /minfi
> >>> OTHER SCRIPTS
> >>> 
> >>> where OTHER SCRIPTS could be notes or test scripts I use for
> >>> internal
> >>> development. I then only want to synchronize the
> >>> minfi-devel/minfi
> >>> directory with Bioc.
> >>> 
> >>> Kasper
> >>> 
> >>> 
> >>> On Sun, Feb 9, 2014 at 9:55 AM, Kasper Daniel Hansen <
> >>> kasperdanielhansen at gmail.com > wrote:
> >>> 
> >>>> Seems to work for me; I have now populated my github repo.
> >>>> 
> >>>> Thanks for the help,
> >>>> Kasper
> >>>> 
> >>>> 
> >>>> On Sun, Feb 9, 2014 at 2:35 AM, Dan Tenenbaum <
> >>>> dtenenba at fhcrc.org
> >>>>> wrote:
> >>>> 
> >>>>> This should be fixed now.
> >>>>> Thanks.
> >>>>> Dan
> >>>>> 
> >>>>> 
> >>>>> ----- Original Message -----
> >>>>>> From: "Kasper Daniel Hansen" < kasperdanielhansen at gmail.com >
> >>>>>> To: "Dan Tenenbaum" < dtenenba at fhcrc.org >
> >>>>>> Cc: bioc-devel at r-project.org
> >>>>>> Sent: Saturday, February 8, 2014 7:07:44 PM
> >>>>>> Subject: Re: [Bioc-devel] Fwd: Bioconductor git-svn bridge is
> >>>>>> available
> >>>>>> 
> >>>>>> 
> >>>>>> 
> >>>>>> Yes, see screenshot
> >>>>>> 
> >>>>>> 
> >>>>>> (I do know I have a whitespace in front of the github url and
> >>>>>> I
> >>>>>> get a
> >>>>>> note and I fixed it.
> >>>>>> 
> >>>>>> 
> >>>>>> Kasper
> >>>>>> 
> >>>>>> 
> >>>>>> On Sat, Feb 8, 2014 at 9:56 PM, Dan Tenenbaum <
> >>>>>> dtenenba at fhcrc.org >
> >>>>>> wrote:
> >>>>>> 
> >>>>>> 
> >>>>>> 
> >>>>>> https://github.com/kasperdanielhansen/minfi
> >>>>>> 
> >>>>>> 
> >>>>> 
> >>>> 
> >>>> 
> >>> 
> >>> [[alternative HTML version deleted]]
> >>> 
> >>> _______________________________________________
> >>> Bioc-devel at r-project.org mailing list
> >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >>> 
> >> 
> > 
> > 	[[alternative HTML version deleted]]
> > 
> > _______________________________________________
> > Bioc-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> 
> 
> 
> 
> --
>  The Wellcome Trust Sanger Institute is operated by Genome Research
>  Limited, a charity registered in England with number 1021457 and a
>  company registered in England with number 2742969, whose registered
>  office is 215 Euston Road, London, NW1 2BE.
>