Message-ID: <156343808.879707.1469635816368.JavaMail.zimbra@fredhutch.org>
Date: 2016-07-27T16:10:16Z
From: Dan Tenenbaum
Subject: [Bioc-devel] bioconductor/metabolomics Docker image available
In-Reply-To: <assp.2016dfb3b1.1469620942.1792.116.camel@ipb-halle.de>
----- 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