[Bioc-devel] CNEr fails to build; patch available.

[Damir Baranašić]

Hi Ge,

Thank you for your email, and thank you, Charles, for bringing it to our
attention. Since CNEr was originally developed in the Lenhard group, and
the members of the Lenhard group, as well as mine, use it regularly, in
consultation with Boris Lenhard (cc'd), we decided it would be beneficial
for both the Lenhard group and mine to continue maintaining and
developing it further.

Can Boris and I be maintainers for now, so we can promptly react when
needed, until we discuss who will take the active maintenance role in the
following weeks?

Thank you in advance.

Kind regards,
Damir Baranasic

On Wed, 25 Jun 2025 at 21:43, Ge Tan <ge_tan using live.com> wrote:

> Dear all,
>
> Sorry not monitoring this email for some time. I no longer have the time
> to maintain the CNEr package and would like to deprecate it unless there is
> some volunteer to keep maintaining it.
>
> Thanks,
> Ge
>
> From: Lori Shepherd <shepherd.bioc using gmail.com>
> Date: Monday, 23 June 2025 at 13:05
> To: Charles Plessy <charles.plessy using oist.jp>
> Cc: bioc-devel using r-project.org <bioc-devel using r-project.org>, Ge Tan <
> ge_tan using live.com>, gtan using me.com <gtan using me.com>
> Subject: Re: [Bioc-devel] CNEr fails to build; patch available.
>
> We hope that the maintainer is still active and willing to maintain their
> package;  Bioconductor admin will not push for a maintainer to ensure all
> packages are actively maintained.  If we do not hear from the maintainer or
> have an explicit request to deprecate the package from them,  we can have
> someone in the community volunteer to maintain the package consistent with
> Bioconductors end of life policy and package naming policy that maintainers
> agree to on submission; but that is only if the current maintainer does not
> respond and most ideally with the current maintainers permission. Let us
> see if Ge Tan responds shortly.
>
>
>
> Lori Shepherd - Kern
>
> Bioconductor Core Team
>
> Roswell Park Comprehensive Cancer Center
>
>
> On Sun, Jun 22, 2025 at 9:22 PM Charles Plessy <charles.plessy using oist.jp
> <mailto:charles.plessy using oist.jp>> wrote:
> Hi Ge and Bioc admins,
>
> CNEr fails to build with recent GCC, preventing the installation of its
> dependency chain.
>
>      https://github.com/ge11232002/CNEr/issues/28
>
> A patch is available from NixOS. It looks sane to me.
>
>
>
> https://patch-diff.githubusercontent.com/raw/NixOS/nixpkgs/pull/411384.patch
>
> Can Ge or an admin push it?
>
> Have a nice day,
>
> Charles
>
> --
> Charles Plessy - - ~ ~ ~ ~ ~ ~~~~ ~ ~ ~ ~ ~ - - charles.plessy using oist.jp
> <mailto:charles.plessy using oist.jp>
> Okinawa  Institute  of  Science  and  Technology  Graduate  University
> Senior staff scientist ~~ Luscombe Unit ~~ https://groups.oist.jp/grsu
> Toots from work - ~~ ~~~~ ~~ - https://fediscience.org/@charles_plessy
>
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-- 
Damir Baranasic
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