[Bioc-devel] bioconductor/metabolomics Docker image available

[Dan Tenenbaum]

----- Original Message -----
> From: "Steffen Neumann" <sneumann at ipb-halle.de>
> To: "Dan Tenenbaum" <dtenenba at fredhutch.org>
> Cc: "bioc-devel" <bioc-devel at r-project.org>
> Sent: Wednesday, July 27, 2016 5:02:22 AM
> Subject: bioconductor/metabolomics Docker image available

> Hi Dan and BioC community!
> 
> I now cleaned up my Bioconductor/bioc_docker
> and opened a pull request to add a Metabolomics
> Bioconductor [1].
> 
> This works on our Jenkins installation, where I regularly
> build the devel_metabolomics [2] and release [3] images.
> 
> The image for the previous devel version (BioC-3.3) does build,
> but the image for the old release version (BioC-3.2) does not,
> due to the mzR issue on new gcc we talked about a few months ago.
> 
> If you want, I can send a second pull request
> and modify bioc_docker/config.yml to use the current
> versions 3.3 for release, and 3.4 for devel.
> 

Yes, please do this.

> A more general question, what is the current docker strategy
> for Bioconductor. Are they build/tested on a regular basis ?

Built daily, but not tested.


> Are failure reported to package maintainers, or should they ?

Failure is not reported to anyone, it probably should be.

> Should the docker images be part of the regular checkResults report ?

I think they should be in a separate report, but perhaps one that lives under /checkResults.

Dan

> 
> Yours,
> Steffen
> 
> [1] https://github.com/Bioconductor/bioc_docker/pull/4
> [2] http://phenomenal-h2020.eu/jenkins/job/bioc_docker_devel_metabolomics/
> [3] http://phenomenal-h2020.eu/jenkins/job/bioc_docker_release_metabolomics
> 
> 
> --
> IPB Halle                    AG Massenspektrometrie & Bioinformatik
> Dr. Steffen Neumann          http://www.IPB-Halle.DE
> Weinberg 3                   Tel. +49 (0) 345 5582 - 1470
> 06120 Halle                       +49 (0) 345 5582 - 0
> sneumann(at)IPB-Halle.DE     Fax. +49 (0) 345 5582 - 1409