[Bioc-devel] Missed deadline

[Kasper Daniel Hansen]

This is a subjective question. As a paper reviewer I like to see the
package accepted. That increases trust.  As a package reviewer I like some
idea of what the package actually does, so a statement like "we implement X
which is described in (XX, in preparation), is also irritating.

Unless you're trying to not show anything prior to publication (which
happens) I like submitting the package first.

On Wed, Apr 4, 2018 at 12:31 PM, Kenneth Condon <roonysgalbi at gmail.com>
wrote:

> Hi Gabe & Levi,
>
> Here is my current plan:
>
> 1 - complete the requirements checklist (
> http://www.bioconductor.org/developers/package-submission/)
> 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
>
> Kenneth
>
> 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...
> >>
> >>         [[alternative HTML version deleted]]
> >>
> >> _______________________________________________
> >> 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
> >
>
>         [[alternative HTML version deleted]]
>
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>

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