[Bioc-devel] Missed deadline

Kenneth Condon roonysgalbi at gmail.com
Wed Apr 4 12:31:47 CEST 2018

Hi Gabe & Levi,

Here is my current plan:

1 - complete the requirements checklist (
2 - get feedback the in-house NGS team, and then from the rest of in-house
bioinformatics (others who use R more may spot some issues)
3 - set up pull requests release on github for community testing
4 - advertise github repo on bioconductor and biostars forums
5 - compare to other packages
6 - write paper (decide which journal)
7 - have submission of paper + package ready for October deadline.

Regarding the sequence of events - do other authors usually release on
bioconductor before submission of a paper or at the same time?
What would you recommend?

Thanks for the help


On Tue, Apr 3, 2018 at 4:56 PM, Gabe Becker <becker.gabe at gene.com> wrote:

> Indeed, and to be a bit more explicit about Levi's point, you *can*
> publish your package to bioconductor any time after the deadline, it will
> simply go to the development repo for ~6 months, which, as he points out,
> may not be a bad thing if it's not ready yet.
> On Tue, Apr 3, 2018 at 8:06 AM, Levi Waldron <lwaldron.research at gmail.com>
> wrote:
>> On Tue, Apr 3, 2018 at 5:32 AM, Kenneth Condon <roonysgalbi at gmail.com>
>> wrote:
>> > Have I missed the deadline for the latest release? I have created a
>> > package, that runs great but there are a number of errors still from R
>> CMD
>> > check that I am sorting out.
>> >
>> > This is my first R package so I'm not sure if development is far enough
>> > along, although I suspect it might be.
>> >
>> IMHO, when you're not sure a package is mature enough, and especially for
>> a
>> first package, it's actually better to miss the release deadline and allow
>> bioc-devel users test your package for 6 months before entering the
>> release
>> cycle. Making significant bug fixes and other changes becomes more
>> complicated and more of a pain for you and your users once you are in the
>> release...
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>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
> --
> Gabriel Becker, Ph.D
> Scientist
> Bioinformatics and Computational Biology
> Genentech Research

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