[Bioc-devel] RMassBank (almost) builds ...

Hervé Pagès hpages at fredhutch.org
Thu Oct 13 12:35:24 CEST 2016

Hi Emma,

On 10/12/2016 01:18 PM, Schymanski, Emma wrote:
> Hi all,
> Thanks to Laurent and Jo for updating MSnbase and thanks to the BioC team for getting the email updates working again! The good news is that RMassBank now builds on most platforms... but ...
> 1) we have a build error due to a Java version issue with rcdk, this has been a problem on release for ages.
> http://bioconductor.org/checkResults/3.4/bioc-LATEST/RMassBank/morelia-buildsrc.html
> Will someone on the BioC side follow up with that?

We're aware of this and will try to install Java 1.8 on morelia
soon. It might not happen in time for the release though, sorry.
Please ignore the error on morelia for now.

> 2) Our build error notification said the problem was with malbec1
> http://bioconductor.org/checkResults/3.4/bioc-LATEST/RMassBank/malbec1-buildsrc.html
> We seem to be OK and OK but "build bin" is blank - is this a problem?

It's blank because we don't build package binaries on Linux. Only on
Windows and Mac.

> If so, how can we find the error message, because it does not appear in the build report for malbec1? Is it also related to java?

The fact that you received a build failure notification with a link
to a result that is actually OK is probably due to the quirk I
explained in my email from yesterday. See:


I think I've addressed the issue with the script so hopefully this
shouldn't happen again today. So today you shouldn't receive any
build failure notification because we only send them for failures
on the Linux builder (i.e. malbec1). Please let me know if this
happens again.


> Thanks,
> Emma
> 	[[alternative HTML version deleted]]
> _______________________________________________
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Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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E-mail: hpages at fredhutch.org
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