[Bioc-devel] Coverage test badge not updating
Hi Leo, I can confirm that while Bioc 3.4 was in devel, package coverage was computed only for the devel version of packages. When we released BioC 3.4, I moved the compute_coverage script that used to run on zin1 (which used to be the central build node for BioC 3.4 for months) to malbec2, which is the central build node for BioC 3.5. So yes, package coverage is still only computed for devel packages at the moment. We'll see if we can restore package coverage for release. If, for whatever reason, this is not possible or is too complicated, we'll remove the badges from the release landing pages. Thanks for the reminder! Cheers, H.
On 11/01/2016 12:18 PM, Leonardo Collado Torres wrote:
Hi, I know that there are several old threads about the coverage badges including this thread. Basically, while Bioc 3.4 was in devel, the coverage badges didn't work for Bioc release (3.3). However, now that 3.4 has been released, the badges for Bioc-release (3.4) are still not working and they only work for Bioc-devel (3.5). In one of the threads, Dan mentioned that something at codecov had changed and that he was going to ask for advice on how to proceed. I'm just curious if there are any updates on this issue. If it's only possible to have the coverage badges work for one branch, then it might be best to leave them in Bioc-devel (given Jim's arguments earlier) and remove them from Bioc-release. Best, Leo On Mon, Nov 23, 2015 at 4:25 PM, Leonardo Collado Torres <lcollado at jhu.edu> wrote:
Thank you for fixing this Jim! I noticed it working now on devel. However, I believe that is still not working for the release branch. Cheers, Leo On Fri, Nov 20, 2015 at 3:37 PM, Jim Hester <james.f.hester at gmail.com> wrote:
The coverage tests were inadvertently not running, but they are now re-enabled. Please let us know if you notice any other problems Jim On Tue, Nov 17, 2015 at 12:16 PM, Leonardo Collado Torres <lcollado at jhu.edu> wrote:
Hi, In my packages I enabled testing (via testthat) a few weeks ago. I did so as can be seen in https://github.com/leekgroup/derfinderHelper/commit/26d9d5543d9082f85bbb2d0ae9f02c5c309b9a48 for the changes to tests/test-all.R You can see that the tests are actually being run at http://bioconductor.org/checkResults/devel/bioc-LATEST/derfinderHelper/zin2-checksrc.html Specifically at the lines: * checking tests ... Running ?test-all.R? [3s/13s] [3s/14s] OK I'm wondering if the coverage tests are only run at a less frequent pace (say once per month) or if my tests/test-all.R file is still posing problems to covr. Thanks, Leo
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