Hi Mikhail, The RSS issue should be fixed now.
Best regards, Nitesh > On Sep 8, 2020, at 7:45 AM, Shepherd, Lori <lori.sheph...@roswellpark.org> > wrote: > > Yes I can see the updates 1.17.1 on the master branch on > git.bioconductor.org <http://git.bioconductor.org/>. We are looking into the > RSS git ERROR. > > We only allow corrections to the current release (RELEASE_3_11) and devel > (master) branches. We do not allow updates to past releases for legacy and > reproducibility. > > Cheers, > > > 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-boun...@r-project.org > <mailto:bioc-devel-boun...@r-project.org>> on behalf of Spivakov, Mikhail > <mikhail.spiva...@lms.mrc.ac.uk <mailto:mikhail.spiva...@lms.mrc.ac.uk>> > Sent: Tuesday, September 8, 2020 7:22 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] Hotfix rejected by git > > Hello! > > We�ve identified a small bug in our Chicago package that we�ve updated on the > master branch and now wanted to update retrospectively in releases 3.9, 3.10 > and 3.11. > > I initially updated and pushed just the master branch, and got this: > > $ git push > > > remote: fatal: this operation must be run in a work tree > > remote: ERROR:root:Exception: Command '['git', 'rev-parse', > '--show-toplevel']' returned non-zero exit status 128 > > remote: ERROR:root:local variable 'package_name' referenced before assignment > > remote: Note: failed to update RSS feed;git repository updated successfully. > > To g...@git.bioconductor.org:packages/Chicago > > 05d4c19..73223a0 master -> master > > From the above I presumed that the issues with RSS update were not critical, > and that the git repo itself was updated successfully. Please correct me if > I�m wrong� > > I then switched to the corresponding release branches, backpropagated the > changes from master using $ git cherry-pick and, after some initial rejects > due to illegal version numbering, managed to push RELEASE_3_11 successfully. > However, I�m still getting the changes into RELEASE_3_9 and RELEASE_3_10 > rejected for reasons that do not seem to be related to version numbering: > > remote: FATAL: W refs/heads/RELEASE_3_10 packages/Chicago m.spivakov DENIED > by fallthru > remote: error: hook declined to update refs/heads/RELEASE_3_10 > remote: FATAL: W refs/heads/RELEASE_3_9 packages/Chicago m.spivakov DENIED by > fallthru > remote: error: hook declined to update refs/heads/RELEASE_3_9 > remote: fatal: this operation must be run in a work tree > remote: ERROR:root:Exception: Command '['git', 'rev-parse', > '--show-toplevel']' returned non-zero exit status 128 > remote: ERROR:root:local variable 'package_name' referenced before assignment > remote: Note: failed to update RSS feed;git repository updated successfully. > To g...@git.bioconductor.org:packages/Chicago > 9658bab..73bfc0a RELEASE_3_11 -> RELEASE_3_11 > ! [remote rejected] RELEASE_3_10 -> RELEASE_3_10 (hook declined) > ! [remote rejected] RELEASE_3_9 -> RELEASE_3_9 (hook declined) > error: failed to push some refs to > 'g...@git.bioconductor.org:packages/Chicago' > > I would very much appreciate any advice on how to fix this. > > Thanks so much, > Mikhail > > > -- > Mikhail Spivakov, PhD > Group Leader and Honorary Senior Lecturer (Associate Professor) > MRC London Institute of Clinical Sciences > Imperial College Faculty of Medicine > Hammersmith Hospital Campus > Du Cane Road > London W12 0NN > > http://secure-web.cisco.com/1U822-uvoL9om08hwQO041V4JXFHowXUFi7YivT8ac5MmHwuMQ9e1Q_dzOj_KxgfdBUW5rtuFYCsadFAQ3RDO1s-AF2X6Gte7-lOuT4sTKbcfLHPm1ZdUtj0hQonw3kKtHRRSMsOmP9kmAXiyLus_lsUgfBn4BNrRtlxWAiwLTSj1YZO3MNRj1PfIheRS00LWVoko5gxhXFycg4YpReoX1KSvlC9qXYbxcCOq05HOmVHsvwSNifKqp0VpuEcxb7YVUPYTNazSqz52SbXEhM2JZgnfmOBHEyCUdBA_8oFxO3i4426E1oG5nlT9vm1JIZf8/http%3A%2F%2Fwww.FunctionalGeneControl.group > > <http://secure-web.cisco.com/1U822-uvoL9om08hwQO041V4JXFHowXUFi7YivT8ac5MmHwuMQ9e1Q_dzOj_KxgfdBUW5rtuFYCsadFAQ3RDO1s-AF2X6Gte7-lOuT4sTKbcfLHPm1ZdUtj0hQonw3kKtHRRSMsOmP9kmAXiyLus_lsUgfBn4BNrRtlxWAiwLTSj1YZO3MNRj1PfIheRS00LWVoko5gxhXFycg4YpReoX1KSvlC9qXYbxcCOq05HOmVHsvwSNifKqp0VpuEcxb7YVUPYTNazSqz52SbXEhM2JZgnfmOBHEyCUdBA_8oFxO3i4426E1oG5nlT9vm1JIZf8/http%3A%2F%2Fwww.FunctionalGeneControl.group> > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org <mailto:Bioc-devel@r-project.org> mailing list > https://secure-web.cisco.com/1vB6suqSvUY3x_ju9SwX0QaXzGUN_e5pY5o-gc0dZArjaO6MeGpNNUJzSrL6fQV5dAJYmPNPynepXImGuId4424d_TCNooXUeW6hSsj3OUfvV4DpFCVxSRixzgUq93jhnDa3xts6dmjfa4L0lqo7N-i9wkAKY2mgro1P0jiR6iZZ8oayjcFCGyYoGGNDrh7_KoAllpWkVpjfdSWUMAL42Iy8cKskKOFKT0M1xo-bwbh-Ei2D1hojDuoR9O1qzX2vkx2bfrk0OqLcVu5iF6hAAl8hOaBzm9CP4kcbEwgeOtEF7M1mHN_Nflhe93VBTkfFI/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel > > <https://secure-web.cisco.com/1vB6suqSvUY3x_ju9SwX0QaXzGUN_e5pY5o-gc0dZArjaO6MeGpNNUJzSrL6fQV5dAJYmPNPynepXImGuId4424d_TCNooXUeW6hSsj3OUfvV4DpFCVxSRixzgUq93jhnDa3xts6dmjfa4L0lqo7N-i9wkAKY2mgro1P0jiR6iZZ8oayjcFCGyYoGGNDrh7_KoAllpWkVpjfdSWUMAL42Iy8cKskKOFKT0M1xo-bwbh-Ei2D1hojDuoR9O1qzX2vkx2bfrk0OqLcVu5iF6hAAl8hOaBzm9CP4kcbEwgeOtEF7M1mHN_Nflhe93VBTkfFI/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel> > > > This email message may contain legally privileged and/or confidential > information. 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