Re: Presentation of Debian Med on local Next Generation Sequencing workshop (April)
On Wed, 19 Mar 2014, Diane Trout wrote:
> > I think the more effort we spent in autopkgtest suites the more we will
> > be able to come closer to reproducibility. I hope that this effort will
> > be rewarded by such projects who for whatever reason do not (yet) trust
> > our work.
> There's also the issue of upgrades changing your environment.
> We've had issues with newer versions of cufflinks and tophat introducing new
> bugs.
and possibly fixing some of the existing ones ;)
> As a result the scientists our group tend to want to have consistent
> versions installed.
this project of Michael Hanke could be of interest for you if you are
keen to join: https://testkraut.readthedocs.org The idea is to make
it easy to create regression tests of arbitrary (user) processing
pipelines. I bet he would welcome contributions!
> I'm not sure if there's a good way of having multiple versions of a debian
> package available on a single system.
Theoretically it is possible and done for some packages. But in general
it is too much burden and all boils down to man power.
--
Yaroslav O. Halchenko, Ph.D.
http://neuro.debian.net http://www.pymvpa.org http://www.fail2ban.org
Senior Research Associate, Psychological and Brain Sciences Dept.
Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755
Phone: +1 (603) 646-9834 Fax: +1 (603) 646-1419
WWW: http://www.linkedin.com/in/yarik
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