[Bioc-devel] updating released version of package
There is information on this page: http://bioconductor.org/developers/how-to/troubleshoot-build-report/ Lori Shepherd Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Ted Natoli <ted.e.natoli at gmail.com>
Sent: Thursday, December 10, 2020 1:17 PM
To: jmacdon at u.washington.edu <jmacdon at u.washington.edu>
Cc: Bioc-devel <bioc-devel at r-project.org>
Subject: Re: [Bioc-devel] updating released version of package
Sent: Thursday, December 10, 2020 1:17 PM
To: jmacdon at u.washington.edu <jmacdon at u.washington.edu>
Cc: Bioc-devel <bioc-devel at r-project.org>
Subject: Re: [Bioc-devel] updating released version of package
Ah, I see. Ok thanks for that clarification. Do you know roughly how long it might take to build? On Thu, Dec 10, 2020 at 11:15 AM James W. MacDonald <jmacdon at uw.edu> wrote: > You also have a commit from yesterday in master that isn't yet reflected > on the build machine, again because it takes time for the build machine to > build stuff. IIRC we are over 24 hours per build, but that may be old news > (FAKE NEWS!). > > On Thu, Dec 10, 2020 at 11:09 AM James W. MacDonald <jmacdon at uw.edu> > wrote: > >> It looks like you bumped it just yesterday: >> >> commit 5a9929aed33e40c11609f3d064b114d95d95e6cb >> Author: Ted Natoli <ted.e.natoli at gmail.com> >> Date: Wed Dec 9 16:42:16 2020 -0500 >> >> fixing version bump >> >> commit accd8a5871fe38a8a1f63b32b4e79d2640e86792 >> Author: Ted Natoli <ted.e.natoli at gmail.com> >> Date: Wed Dec 9 16:32:47 2020 -0500 >> >> update RELEASE version number >> >> And it takes a while to propagate, so you are probably being too >> impatient. >> >> Jim >> >> On Thu, Dec 10, 2020 at 10:59 AM Ted Natoli <ted.e.natoli at gmail.com> >> wrote: >> >>> Hi James, >>> >>> Thanks for the response. The corresponding changes were committed to the >>> master branch on November 23. The development build report seems to be >>> using the correct code, or at least close to it, as the most recent commit >>> it shows there is from December 8. I did push to both github and >>> bioconductor repos and I did bump the version number too, which is >>> reflected in the development build report but not release. >>> >>> Here are links to the build reports if it's helpful. >>> >>> devel: https://secure-web.cisco.com/1-1x1XOPmgvcYx-uk9wqvKLIcUzB7NcY56Pl8ujqdH2sTHkZOp4H9RJF5e6K5nU6Sqj3nEwtgA6xpUpSLSL7jiqF3JVwEJgmM4q79UaY1iBvLOfA9kU-gTk9_iwmL00kzN2yMCcY9orTK4fcvihoDj-ldKOYZFzQBRkqDdPzRAs4rQn-ZPfmEUkO3OAB8zDf-aVja6j87lZ86Jrrb9fzEWxB0K9jeD3DVLXoIyBIYgx_yjwAVl15_o9dwI2X1KOuHTS0sVqytOnv0RfJ8czSExzqpXpl82czloCYNOaCM9zkZpOoAmdKDcwLSutSxheHL/https%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.13%2Fbioc-LATEST%2FcmapR%2F >>> release: https://secure-web.cisco.com/12_5xQ-XfxLpJNnk5VC8wKtBoVDDTo0Z8wxemZfI-18YLzB0Noy8MuPwvTY72U3wVYWjsKLzIN9A3mqVArwHY_ESztUpa3THjf9rZELyOTFXSuFOf4om6nypiil9jQPWQSIGiruvqNIwG1gL2xjyO7nRWSCTGVaULgKR1Ns64Y8JTvdlsSzH6ZZ24tAPmKNDEKx9l29inU1vq0_aQKKGX7F8C9RK8DCt4J44ZefPNPZLpHvaCA-_Ndt0wuoIgoLEIA2336TC85zU4sZRuV6PJeFTdnRg6R2Jdk8KOSJjVqKg9GN9xKqx9sOwCwx5-SzBo/https%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.12%2Fbioc-LATEST%2FcmapR%2F >>> >>> Thanks again, >>> Ted >>> >>> On Thu, Dec 10, 2020 at 10:41 AM James W. MacDonald <jmacdon at uw.edu> >>> wrote: >>> >>>> Did you bump your version number? How long has it been since you >>>> committed the changes? If you have a github repo, you remembered to push to >>>> both the Bioconductor and GitHub repos? >>>> >>>> On Thu, Dec 10, 2020 at 10:19 AM Ted Natoli <ted.e.natoli at gmail.com> >>>> wrote: >>>> >>>>> Hello all, >>>>> >>>>> I'm trying to update the released version of my package, cmapR, >>>>> because one >>>>> of the packages it depends on has been deprecated and hence install of >>>>> cmapR now fails. >>>>> >>>>> I've followed the instructions here in order to get those changes over >>>>> to >>>>> the released version of the package: >>>>> >>>>> https://secure-web.cisco.com/1D5P1egX7dz5hm7CM0oANiK3VX-_MXhLCtIy8BsnJvMcVmQAonSNdwUsMDCsFqAhODKVOxwjOJErSovxX-JBMdBt1duxe5jNPQyGakv2UzVkZSysCvZVW9eDE3Ki7G8CaatM1godiuNSYPgglczPbeiooK1bQHITsl_9EpRiABQM5mLKJ3aAoiGsNpFlj4csvQ5_TlbGHH75lA87kcNZ89PdeJaSlRSGVsIjtmthogIWhYDRBXQkD3jpzUU1c2t3_aXkhpm6x6tA7M7BOJxOlBFy1nATTUw__TbC2tYXgKHdiT58URhaHLgZvn-o4K0iH/https%3A%2F%2Fbioconductor.org%2Fdevelopers%2Fhow-to%2Fgit%2Fbug-fix-in-release-and-devel%2F >>>>> >>>>> However, I don't see that the released version has been updated. >>>>> Looking at >>>>> the build reports, the latest commit reflected there is from before I >>>>> made >>>>> the code changes. How do I get these changes to propagate to the >>>>> release >>>>> branch? >>>>> >>>>> I'm sure I must be missing something very basic, but any help would be >>>>> appreciated. >>>>> >>>>> Thanks in advance, >>>>> Ted >>>>> >>>>> [[alternative HTML version deleted]] >>>>> >>>>> _______________________________________________ >>>>> Bioc-devel at r-project.org mailing list >>>>> https://secure-web.cisco.com/1Bbk5zhzZQCGLOzdeyngfDDg5gS-0079cppW1TDP0iqcVR8yfBvWE60I0sVi7khG_Gig4WNu5rFQ9XFyI_Gi7b93ZUuDH4BOzuIhtCtvuCsjbATYFikwJ_5Y0RGNlfomkBngiZyqfghdilLcPYXFDG79SGhl8OG-o_R_-PN0F5gAi_EGRSk3PXeF_TzeW-CHS8Bl-vjU0i89IoYpETBSiFcB8eVwfTpArlkaRW7KqNAQZKeMnRyd7UBJiX07FerFDyoqzEJ4DUEiBi-0h9ahH5SMqVmloom1fWj221XRQDw4VydJ_g7W30sk9Mj0TRINl/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel >>>>> >>>> >>>> >>>> -- >>>> James W. MacDonald, M.S. >>>> Biostatistician >>>> University of Washington >>>> Environmental and Occupational Health Sciences >>>> 4225 Roosevelt Way NE, # 100 >>>> Seattle WA 98105-6099 >>>> >>> >> >> -- >> James W. MacDonald, M.S. >> Biostatistician >> University of Washington >> Environmental and Occupational Health Sciences >> 4225 Roosevelt Way NE, # 100 >> Seattle WA 98105-6099 >> > > > -- > James W. MacDonald, M.S. > Biostatistician > University of Washington > Environmental and Occupational Health Sciences > 4225 Roosevelt Way NE, # 100 > Seattle WA 98105-6099 > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel at r-project.org mailing list https://secure-web.cisco.com/1Bbk5zhzZQCGLOzdeyngfDDg5gS-0079cppW1TDP0iqcVR8yfBvWE60I0sVi7khG_Gig4WNu5rFQ9XFyI_Gi7b93ZUuDH4BOzuIhtCtvuCsjbATYFikwJ_5Y0RGNlfomkBngiZyqfghdilLcPYXFDG79SGhl8OG-o_R_-PN0F5gAi_EGRSk3PXeF_TzeW-CHS8Bl-vjU0i89IoYpETBSiFcB8eVwfTpArlkaRW7KqNAQZKeMnRyd7UBJiX07FerFDyoqzEJ4DUEiBi-0h9ahH5SMqVmloom1fWj221XRQDw4VydJ_g7W30sk9Mj0TRINl/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-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.