[Bioc-devel] Short URLs for packages?

I guess my problem is that there is even an "if" at the beginning of that
sentence.  That's not an attack on you, I know that the above reflects the
current state of affairs, I'm simply saying that perhaps Bioconductor, as a
project, can help/encourage people to do better.


Quite true.  Perhaps that could be emphasized as part of adding the
redirect rules.  I am always delighted when people cite the version number
of a package, as it shows that they care about the quality of their work,
and the stability of its conclusions.

People rarely do what they know is right; they do what is convenient, then
repent.  (Bob Dylan pointed this out a while ago...)

Thus it is more likely that a person will do the right thing if it happens
to be the most convenient thing IMHO. Anything to advance this strategy
would be a step in the right direction

Best,

--t


~G

--t

On Mar 23, 2015, at 8:38 AM, Gabe Becker <becker.gabe at gene.com> wrote:

On Mon, Mar 23, 2015 at 8:05 AM, Fischer, Bernd <
b.fischer at dkfz-heidelberg.de> wrote:

During the production process of the paper we want to link to the
accompanying
BioC package that is in devel, but not yet in release. Before the first
release, the
link (e.g. www.bioconductor.org/<packagename>) should go to the devel
version
(maybe with an additional warning that it is only available in devel),
before the
first release of the package and should go to release afterwards.

I understand the appeal of this, but decoupling publications from the
actual, exact versions they discuss or use seems like a relatively large
step backwards in terms of reproducibility. At the very least, I think
there is some nuance here that warrants careful consideration before we
adopt a single-silently-changing-link-per-package paradigm.

~G

Bernd

On 23.03.2015, at 11:45, Sean Davis <seandavi at gmail.com> wrote:

Just so we don't lose the thoughts that have come before, here is a

link

to

a similar proposal from last year.

https://stat.ethz.ch/pipermail/bioc-devel/2014-February/005292.html

Sean

On Mon, Mar 23, 2015 at 6:17 AM, Wolfgang Huber <whuber at embl.de>

wrote:

I wonder whether it?d possible to have the website understand URLs

like

      http://www.bioconductor.org/<pkgname>

This could resolve to
http://www.bioconductor.org/packages/release/bioc/html/

<pkgname>.html

or
http://www.bioconductor.org/packages/devel/bioc/html/<pkgname>.html
depending on whether the package was yet released.

This could be handy in papers or grants that mention packages.

Wolfgang


----
Wolfgang Huber
Principal Investigator, EMBL Senior Scientist
Genome Biology Unit
European Molecular Biology Laboratory (EMBL)
Heidelberg, Germany

T +49-6221-3878823
wolfgang.huber at embl.de
http://www.huber.embl.de

     [[alternative HTML version deleted]]

--
Gabriel Becker, Ph.D
Computational Biologist
Genentech Research

   [[alternative HTML version deleted]]

--
Gabriel Becker, Ph.D
Computational Biologist
Genentech Research