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

Hi Lori, Thank you very much for your help! Sincerely, Charles From: Shepherd, Lori Sent: Tuesday, March 24, 2020 5:39 AM To: Charles Warden ; 'Martin Morgan' ; 'Alexey Sergushichev' Cc: 'bioc-devel@r-project.org' Subject: Re: [Bioc-devel] Issue Reproducing

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

ppreciate that. Thanks Again, Charles -Original Message- From: Charles Warden Sent: Friday, March 20, 2020 1:40 PM To: Martin Morgan ; Alexey Sergushichev Cc: bioc-devel@r-project.org Subject: RE: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message Hi Martin, That is probably wh

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

: Charles Warden Sent: Friday, March 20, 2020 1:40 PM To: Martin Morgan ; Alexey Sergushichev Cc: bioc-devel@r-project.org Subject: RE: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message Hi Martin, That is probably what happened. Thank you again for your help! Sincerely, Charles

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

exey Sergushichev Cc: bioc-devel@r-project.org Subject: Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message Can you be precise about the concern about 1.33.1 as a version number (what precise note / error / warning you received)? This scheme is very standard for

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

Sincerely, Charles -Original Message- From: Martin Morgan Sent: Friday, March 20, 2020 1:09 PM To: Charles Warden ; Alexey Sergushichev Cc: bioc-devel@r-project.org Subject: Re: [Bioc-devel] Issue Reproducing BioC 3.11 COHCAP Error Message

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

ichev Sent: Thursday, March 19, 2020 3:00 PM To: Charles Warden Cc: Shepherd, Lori ; bioc-devel@r-project.org Subject: 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

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

2020 3:00 PM To: Charles Warden Cc: Shepherd, Lori ; bioc-devel@r-project.org Subject: 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,

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

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 mailto:cwar...@coh.org>> wrote: Hi Lori, Thank you very much. If I use R-4.0 (instea

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

-project.org Subject: 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 mailto:cwar...@coh.org>> wrote: Hi 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 wor

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 Bi

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: Thursda

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 c