Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

Hi Alexey, Thank you very much – I will look into that. It does look like at least 1 demo dataset is being read incorrectly. Sincerely, Charles From: Alexey Sergushichev [mailto:alserg...@gmail.com] Sent: Thursday, March 19, 2020 3:00 PM To: Charles Warden Cc: Shepherd, Lori ;

Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

I think one of the major changes recently is setting stringsAsFactors option to FALSE by default. Best, Alexey On Fri, Mar 20, 2020 at 12:48 AM Charles Warden wrote: > Hi Lori, > > Thank you very much. > > If I use R-4.0 (instead of R-3.6), then I can reproduce the error message. > > I will

Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

Yes I sent the link in the first response but here it is again http://bioconductor.org/developers/how-to/troubleshoot-build-report/ Get Outlook for Android From: Charles Warden Sent: Thursday, March 19, 2020 5:47:42 PM To: Shepherd, Lori ;

Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

Hi Lori, Thank you very much. If I use R-4.0 (instead of R-3.6), then I can reproduce the error message. I will work in figuring out why the code works with R-3.6 but not R-4.0, but it seems like this might affect other packages as well (since I received error messages for 2 out of 2 of the

Re: [Bioc-devel] help with Win10 TLS problem?

Did it work? On 3/18/20 15:41, Egon Willighagen wrote: Thanks, in going to try your suggestion tomorrow! On Wed, Mar 18, 2020, 23:22 Hervé Pagès > wrote: mmh.. for some reason the original post in this thread is only showing up now in my mailbox i.e. way

Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

Yes that is the correct version of R to use. Thank you for taking the time to make sure everything is correct to debug. We appreciate your effort and contributors to bioconductor. Get Outlook for Android From: Charles Warden Sent:

Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

Hi Lori, Thank you very much for your response. I was testing building the Bioconductor development branch, but I was using R-3.6. On the Ubuntu server where I have all the necessary dependencies configured, I tested compiling R-devel but it didn't exactly say R-4.0. So, in order to see if I

Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

It is not okay to ignore the emails you are getting. You need to investigate to find out if the ERROR is from your package or a package you depend on. While you have not made changes to the package, R has made a lot of changes to its base code that have broken a lot of packages. Most of the

Re: [Bioc-devel] proper way to define an S4 method for 'plot'

Not sure if its worth mentioning but I saw this type of ERROR when we first started the release in R 4.0.0 when S3 plot functions were not defined in the NAMESPACE. http://bioconductor.org/developers/how-to/troubleshoot-build-report/#s3method But it could also be from plot() generic moving

Re: [Bioc-devel] BiSeq package

Please see the related post https://stat.ethz.ch/pipermail/bioc-devel/2020-March/016361.html Were you registered on the support site as well with your old email? I can assist in updating that for you. You will need to fix your package before the April release for the package to be

Re: [Bioc-devel] Bioconductor Developers Forum - Thursday 19th March

Dear all, Just a reminder that the next Bioconductor Developers' Forum is scheduled for Thursday 19th March at 09:00 PDT/ 12:00 EDT / 17:00 CET (Note: Due to daylight savings this is 1 hour earlier than normal in Europe, Check here!