Sure these sections would probably be useful in your situation. pushing to github and bioconductor http://contributions.bioconductor.org/git-version-control.html#push-to-github-bioc
And fixing bugs in release and devel http://contributions.bioconductor.org/git-version-control.html#bug-fix-in-release-and-devel Cheers, Lori Shepherd - Kern Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Paul Brennan <brennanpincard...@gmail.com> Sent: Wednesday, March 6, 2024 1:03 PM To: Kern, Lori <lori.sheph...@roswellpark.org> Cc: bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: Re: [Bioc-devel] Having problems pushing changes to Bioconductor... Dear Lori, Thanks for your prompt and helpful email. I think I've managed to make the necessary changes to stop the build error. I think it did it quite manually changing my Github, the Bioconductor dev code and the Bioconductor RELEASE_3_18 for drawProteins. The way I did it felt a bit hacky but I'm hoping it will work. I did have to set up new SSH - so thanks for the pointers for that too. If you have a moment and you can point me towards a resource that makes it more obvious how to push code changes from Github -> dev -> release, I would be grateful. I feel sure the advice is somewhere there and I just don't understand it or utilise it properly. Well thanks again, Paul On Wed, Mar 6, 2024 at 2:23 PM Kern, Lori <lori.sheph...@roswellpark.org<mailto:lori.sheph...@roswellpark.org>> wrote: Could you please show the commands you are trying along with a git remote -v I've check the configuration on our end and everything looks correct. You'll need to make sure you are pointing to one of the uploaded ssh keys on the BiocCredentials account (or create a new one if you are on a different machine) There is useful information found at http://contributions.bioconductor.org/git-version-control.html#new-package-workflow<http://secure-web.cisco.com/1QxkeTBgOjDQWowLH33SIzsQ5nwdfnitZGgHfL1nKsLZD7BtJWaMk-UfR1Y1h_BZGthvWZUWWw6AiX_yGntIck11RQDneK0ND5RBdZU7ZDDwDAs4EGTWoIWevk5_ShFCXbzv3K61_rVu52TDhufaPHHQnNy2obIOA-ZKzCnYs-A5baSlyCGK1Yw1L5pWuzcpq1MZY21fVWsOHpB6MgmiCOlTFjQ-16fw8JyrXVzbEpXbGA0c27yb4qnxpNet0MC1o12G013E71Q5tz5Nv1iJ9BuNZoPTtabZHKKLfhNkmHSwykhHzQNKVT2wxJyfGItHk/http%3A%2F%2Fcontributions.bioconductor.org%2Fgit-version-control.html%23new-package-workflow> and a FAQ section http://contributions.bioconductor.org/git-version-control.html#faq<http://secure-web.cisco.com/1R0e7MthE8CqR6G411NYVIS4b_5iHo3Y0twFCWL17QMmeVy3KXEmZ0qTJrF1kpf5dCv44_KBIZ6Vo46MpvbQmODzK8FBZcPhoUqmwRcfCz-1cwYB83CzO6iQApY0HuwkgsSZ_Z0AIhBVSiA2EztAl3IUZ-k__Gzn8DAv85_gZPuQ4aarnDhxCQxXPUUqM_VqP8J2Un5lpOMd5wvMkzvkDF9ZFRtva9QCO0EAgE67wwLLz5kfR-L-DKCC7CizBR0PpanHB1X3NQLSEgt1n-mFrKpujtkrVR3IaNhB5salxLGUHhA_TsQNsHVJunz5CWeXr/http%3A%2F%2Fcontributions.bioconductor.org%2Fgit-version-control.html%23faq> See especially: #13, #14, and#15 Lori Shepherd - Kern Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org<mailto:bioc-devel-boun...@r-project.org>> on behalf of Paul Brennan <brennanpincard...@gmail.com<mailto:brennanpincard...@gmail.com>> Sent: Wednesday, March 6, 2024 9:00 AM To: bioc-devel@r-project.org<mailto:bioc-devel@r-project.org> <bioc-devel@r-project.org<mailto:bioc-devel@r-project.org>> Subject: [Bioc-devel] Having problems pushing changes to Bioconductor... Sorry to bother you I feel as if I am asking a very stupid question but I can't solve it on my own. I am getting build errors and I worked out why (a failed test) and changed my code on Github to correct this: https://secure-web.cisco.com/1C-fx1Fhx9rZfPJTM0FHB-mLGMfkL6M96AEW9fEr4L0xDKiuAu--2umi29DrHFpl_pWRTIjKBCcIalvMrcKCt2WFZENpLe4QuvKhgBOx9FOmJ1VkGT_u2Tv-bmbWgK1bzBmO2mPC6LF_ZnTpUJjRkDpIsTOP-BtsjhP3a6yGUvmLlwtIfo1lMUD4Gl1ipcUIn7CVHqgGN2GERwAMmnTyqjQtg2yb1035kNIfkRFrK8s40RCrbUytSiymWgBBR8Exk1s3xX51m2KFuuiCSEk9Bhc0bxKl3CUW_V5exgMKWeQS9aGPOCh6NCLMQ6kSbtKPF/https%3A%2F%2Fgithub.com%2Fbrennanpincardiff%2FdrawProteins I have checked R CMD Check and it is fine with no errors or warnings :-) Now it is time to try to push these onto Bioconductor but I can't do this. I've tried various sources and it seems the key point is that I haven't organised the correct access rights to push upstream. Can some one advise or point towards a resource that I can work with please? Thanks, Paul Paul Brennan package maintainer for drawProteins https://secure-web.cisco.com/1AJF0ylkW0LYxK_qOGPSaOg0tBDtXraJO8oy5e6dogibE4DF9ygkXszBgGnaEAuTrFGo8tVABQpcGRhBGJi9SSrdtEVRh8gBIMdRVbgktq3CMRZeMflbYC9d5e_qX0SnD0y2A9PnkuC6gdiIW369zhL3MSRmVe0PjaYJGksjmc8O6tGYJo5LVpBjWefmt_eKLvyGwCEaBKxAo6V8iytwL4fjjFWGteiCsqbbIu6j-Hk3P3ABsPR6VryZv0WAqfOAjEpTBtuNxXP3ziZ4lc5nJxjjJLETQ9eerV-4QBseU5jxIACFREUJWt0g3Qzsnw24D/https%3A%2F%2Fbioconductor.org%2Fpackages%2Frelease%2Fbioc%2Fhtml%2FdrawProteins.html which is giving a build error. 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