[Bioc-devel] LOBSTAHS dev build failing on toluca2; version does not update in devel

Kasper Daniel Hansen kasperdanielhansen at gmail.com
Thu Jan 26 20:04:01 CET 2017

Traditionally we have had daily builds, which then takes more than 12h to
complete.  Recently, the daily build schedule has been more intermitten - I
don't know for sure but I thought we were back to daily builds.

Still, there can be a big delay due to build time and start, like up to
36h.  But it is 1.1.3 in subversion, so I think it is a build delay.

On Thu, Jan 26, 2017 at 11:04 AM, James Collins <
james.r.collins at aya.yale.edu> wrote:

> Thanks, Kasper. On your second point: Yes, several recent updates. The
> bump to v1.1.2 was two days ago, so I figured that would have been
> reflected in a newer build already. I will give it a few more days.
> Jamie
> On Jan 26, 2017, at 11:57 AM, Kasper Daniel Hansen <
> kasperdanielhansen at gmail.com> wrote:
> It happens in devel that your dependencies fail and then your package
> fails.  Right now XCMS fails in devel because mzR fails.  That will
> presumably be sorted out.
> The latest build report
>   http://bioconductor.org/checkResults/3.5/bioc-LATEST/LOBSTAHS/
> is 1.1.1.  Did you do a couple of updates very recently - remember the
> build system gets run (at most) daily.
> Best,
> Kasper
> On Thu, Jan 26, 2017 at 9:53 AM, James Collins <james.r.collins at aya.
> yale.edu> wrote:
>> Hi all:
>> Two questions regarding the LOBSTAHS package:
>> 1. Dev build seems to be failing (“error”) on toluca2 after I pushed some
>> updates from our git repository to Bioc svn. Error is:
>> * installing to library ‘/Library/Frameworks/R.framewo
>> rk/Versions/3.4/Resources/library’
>> ERROR: dependencies ‘xcms’, ‘CAMERA’ are not available for package
>> * removing ‘/Library/Frameworks/R.framework/Versions/3.4/Resources/
>> library/LOBSTAHS’
>> However, seems to build fine on oaxaca. Any ideas why this is happening?
>> xcms and CAMERA should be available for the package, correct?
>> 2. After bumping the version number (from 1.1.1 to 1.1.2 and then 1.1.3)
>> with the updates, the latest version (1.1.3) does not appear to be showing
>> on the dev page, which leads me to believe it is not the version being
>> disseminated with biocLite()
>> http://bioconductor.org/packages/3.5/bioc/html/LOBSTAHS.html <
>> http://bioconductor.org/packages/3.5/bioc/html/LOBSTAHS.html>
>> Perhaps this is because I cherry-pick all my commits when committing from
>> git to the Bioc svn? Or because of the error message?
>> Thanks in advance!
>> Jamie Collins
>>         [[alternative HTML version deleted]]
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