Hi, First of all, thank you very much for pointing me to the resources -- and apologies for my confusion!
I have now applied changes correctly to both RELEASE_3_8 and devel branches in order to fix the warnings on tokay2 arising from missing links when calling external functions. By looking at the build report for the devel branch, I see that I dealt with one warning, but the other one persists ("file link 'stri_locate_all' in package 'stringi' does not exist and so has been treated as a topic"). I cannot reproduce this warning when running devtools::check() in the latest RStudio on a Windows 10 machine. I also noticed that the latest build report from RELEASE_3_8 is not including the Windows server so I don't know if the warning shows up there too. Do you have any advice? Thanks, Alina On Fri, 12 Apr 2019 at 12:29, Alina Selega <alina.sel...@gmail.com> wrote: > Okay, thank you very much! > > On Fri, 12 Apr 2019 at 12:25, Shepherd, Lori < > lori.sheph...@roswellpark.org> wrote: > >> That is not correct. The webhook was only for the package submission >> process. >> >> See the link provided on linking to Bioconductor. >> >> Other helpful github links can be found here: >> http://bioconductor.org/developers/how-to/git/ >> >> >> >> >> >> Lori Shepherd >> >> Bioconductor Core Team >> >> Roswell Park Cancer Institute >> >> Department of Biostatistics & Bioinformatics >> >> Elm & Carlton Streets >> >> Buffalo, New York 14263 >> ------------------------------ >> *From:* Alina Selega <alina.sel...@gmail.com> >> *Sent:* Friday, April 12, 2019 12:22:40 PM >> *To:* Shepherd, Lori >> *Cc:* bioc-devel >> *Subject:* Re: [Bioc-devel] New build report >> >> Thank you for the instructions! >> >> Can I just clarify -- I was pushing changes to my Github repository that >> has a webhook set up (as per instructions from when I first submitted the >> package to Bioconductor). I thought that pushes to master branch with >> version bump should trigger package builds. Am I wrong about this? >> >> Thanks, >> Alina >> >> On Fri, 12 Apr 2019 at 12:15, Shepherd, Lori < >> lori.sheph...@roswellpark.org> wrote: >> >> We are not seeing the changes pushed to the git.bioconductor server. I >> am assuming you are referring to the RELEASE_3_8 branch since you are >> referencing 1.6.1. >> >> >> Have set up the remote upstream to point to Bioconductor, >> >> http://bioconductor.org/developers/how-to/git/sync-existing-repositories/ >> >> >> On your repository you can check your remotes with >> git remote -v >> >> It should include something like the following: >> upstream g...@git.bioconductor.org:packages/BUMHMM.git (fetch) >> upstream g...@git.bioconductor.org:packages/BUMHMM.git (push) >> >> Make sure you pushed to the upstream remote: >> >> >> >> http://bioconductor.org/developers/how-to/git/bug-fix-in-release-and-devel/ >> >> and that you are working on the RELEASE_3_8 branch >> >> git fetch --all >> >> git checkout RELEASE_3_8 (or git checkout upstream RELEASE_3_8) >> >> # make your changes >> >> # commit your changes >> >> # push the changes to Bioconductor with the following: >> >> git push upstream RELEASE_3_8 >> >> >> >> >> Lori Shepherd >> >> Bioconductor Core Team >> >> Roswell Park Cancer Institute >> >> Department of Biostatistics & Bioinformatics >> >> Elm & Carlton Streets >> >> Buffalo, New York 14263 >> ------------------------------ >> *From:* Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Alina >> Selega <alina.sel...@gmail.com> >> *Sent:* Friday, April 12, 2019 12:04:03 PM >> *To:* bioc-devel >> *Subject:* Re: [Bioc-devel] New build report >> >> Hi, >> >> Sorry, I think I must have done something wrong as the build report is not >> showing the updates to my package from 2 days ago. Could you please help >> me >> with this? I thought I updated the version of BUMHMM correctly (from 1.6.1 >> to 1.6.2 and 1.6.3) but it is not been picked up? >> >> Thanks, >> Alina >> >> On Thu, 11 Apr 2019 at 12:47, Alina Selega <alina.sel...@gmail.com> >> wrote: >> >> > Hi, >> > >> > I have made some minor updates to my package (BUMHMM) yesterday to fix >> the >> > warnings arising on the Windows server and pushed the changes with a >> > version bump from its current version 1.6.1. (actually, two bumps.) >> > >> > I don't see any changes in today's build report; has the build happened >> > yet? >> > >> > Thanks, >> > Alina >> > >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> >> This email message may contain legally privileged and/or confidential >> information. If you are not the intended recipient(s), or the employee or >> agent responsible for the delivery of this message to the intended >> recipient(s), you are hereby notified that any disclosure, copying, >> distribution, or use of this email message is prohibited. If you have >> received this message in error, please notify the sender immediately by >> e-mail and delete this email message from your computer. Thank you. >> >> >> This email message may contain legally privileged and/or confidential >> information. If you are not the intended recipient(s), or the employee or >> agent responsible for the delivery of this message to the intended >> recipient(s), you are hereby notified that any disclosure, copying, >> distribution, or use of this email message is prohibited. If you have >> received this message in error, please notify the sender immediately by >> e-mail and delete this email message from your computer. Thank you. > > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel