Re: [Bioc-devel] cannot reproduce the build error with InTAD package

2020-12-28 Thread Dario Strbenac
It looks like you are creating a MultiAssayExperiment in your vignette. Numerous Bioconductor packages relying on MultiAssayExperiment infrastructure started failing a few days ago with the release of version 1.17.3, but I don't see the breaking change explained in the News file. ___

Re: [Bioc-devel] Recent change in MultiAssayExperiment for inferred MAE-level colData

2020-12-28 Thread Dario Strbenac
This also happens to ClassifyR. ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel

[Bioc-devel] Fwd: Bioconductor package EnMCB

2020-12-28 Thread xin wwa
Dear bioconductor team, I am working on our package EnMCB, which recently have some problems on developing branch, I fixed most of the errors but our package still has a warning in check as follows: * checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically

Re: [Bioc-devel] cannot reproduce the build error with InTAD package

2020-12-28 Thread Nitesh Turaga
Hi Konstantin, It seems this is a new issue. Please give the devel build machine one more cycle and we'll see if the issue persists. Did you try to build it using the command in the build machine log (although I doubt it'll change the end result of successfully building on the bioconductor_do

[Bioc-devel] cannot reproduce the build error with InTAD package

2020-12-28 Thread Konstantin Okonechnikov
Hi! I got a note about failing for InTAD package only in Bioc-devel version: http://bioconductor.org/checkResults/devel/bioc-LATEST/InTAD/machv2-buildsrc.html Notably, there were no changes to the package before this error started occurring thus I suppose it might be connected to some updates in

[Bioc-devel] Recent change in MultiAssayExperiment for inferred MAE-level colData

2020-12-28 Thread Andrea Rau
Hello Marcel, Thanks to you for your very useful MultiAssayExperiment package, it has provided a very useful framework that I have made use of in my multi-omic package padma. I've noticed that padma has started breaking in devel due to a recent change in MultiAssayExperiment (v1.17.3, which is