[Bioc-devel] Request for undeprecation of motifbreakR

2023-06-27 Thread Coetzee, Simon via Bioc-devel
Dear bioc-devel, I am sorry for not being responsive to the error messages related to the building of motifbreakR. As you can likely see, I was responsive to errors earlier in the year, entering many changes to keep up to date with the changing conditions of the Bioc universe, and bugs that I

Re: [Bioc-devel] psygenet2r bioconductor question

2023-06-27 Thread Kern, Lori
To get rid of the BiocStyle you need to add BiocStyle to your DESCRIPTION in the suggests field. To have the changes be on the release branch, you need to alter and push changes on RELEASE_3_17 branch of git.bioconductor.org instead of to devel on git.bioconductor.org. See:

[Bioc-devel] psygenet2r bioconductor question

2023-06-27 Thread alba gutierrez
Dear Bioconductor Team, I have been trying to fix my package that was failing in Bioconductor due to a warning (not an error) on the code. I updated my github and try to push the changes to Bioconductor, and for some reason, I cannot update the main one. As you can see, my last push to the dev

[Bioc-devel] List of Deprecated Packages for Bioc3.18

2023-06-27 Thread Kern, Lori
The Bioconductor Team is continuing to identify packages that will be deprecated in the next release to allow for the Bioconductor community to respond accordingly. This is the current list of deprecated packages for Bioc 3.17: Software: Unresponsive: * baySeq * BGmix * BioMM

Re: [Bioc-devel] SVMDO Bioc 3.18 Kunpeng2 error

2023-06-27 Thread Martin Grigorov
Hi, Last week we updated R from 4.3.0 to 4.3.1 with empty site-library/ folder. All packages are being re-installed and some of them timed out. I just checked and both klaR and org.Hs.eg.db are installed. Please re-check the results later today! Regards, Martin On Tue, Jun 27, 2023 at 11:25 AM

[Bioc-devel] SVMDO Bioc 3.18 Kunpeng2 error

2023-06-27 Thread erhanozer19 via Bioc-devel
Dear Bioconductor Community, In BioC 3.18 build/check, kunpeng2 linux ARM64 reports this error: ERROR: dependencies ‘klaR’, ‘org.Hs.eg.db’ are not available for package ‘SVMDO’ Is this a kunpeng2 related problem? ___ Bioc-devel@r-project.org