Re: Making Pau Badia the maintainer of dorothea. This has been taken care of. Please update the maintainer in the Description of the package.
In the future please create a new thread rather than replying to an unrelated thread for requests. 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> on behalf of Daniel, Dimitrov <daniel.dimit...@uni-heidelberg.de> Sent: Tuesday, February 21, 2023 3:27 AM To: bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: Re: [Bioc-devel] Cannot push to BioC git repo Dear all, How can I make Pau Badia i Mompel (cc'd) the maintainer of DoRothEA <https://secure-web.cisco.com/1ClpdjjJZOViiCJLwIv0tA2DEAqfkthQzDg5Qd4-o6WxpyWRdXl3HAZ4dOwZ9S3DxnrB4ZDHprwiEqtVkTnB8xuISf_IXGGmbhZIjc4E8TFJu-4vwsh-qnZfgrGDsjc_OxzSUVHWaMdKLDbR2IryRY1Pr502UdHWgyO-4f4iSzJ2VUeQQqECxrgHnT3qpNAqIlOox4ZkRQMy9EbZ6iDfRlzNC7fFXTmeVtxGX0VRzni96yT0grx5Dewi1F0_M0eAklzG3Dvkei-NaazPfz2nlPxEVkFVXUjAXSJyhtBl8Q2O43vgxzMrwwNE1OAeG8Ki6ZV22XhhPesiTVNQDvnzRIA/https%3A%2F%2Fbioconductor.org%2Fpackages%2Frelease%2Fdata%2Fexperiment%2Fhtml%2Fdorothea.html>? He's already registered in BioC and is a maintainer of another package (decoupleR). Thanks in advance! Best, Daniel On 21.02.23 07:58, Martin Grigorov wrote: > Hi Ulrich, > > Your problem looks like another problem of which the Bioc core team is > aware but yours looks a bit different so it might be something new. > > Last Friday another developer shared > <https://secure-web.cisco.com/1kNivHquhiGv-xnef5cUAzKZwy4LJjKnhHM6eUTS0jr6kUFz--n8Tyx8OnFDPaq26mT4oHol3kUDtgcbJL6HDngYAo3VEzZ5JPS9QfIQAtaOOYjiea1r8R0U839QBeeVNcPFIrAUBbWR6_G4Qa_ZirWH2swviwNbf7t0Y9P0NyZBVWMLztiAP_mhcruq4fAMbrJvdnCtU5XsWoZ6ovwdcC2wD_1_GRUg9xp04omiwOM667sbDnuuul2qrYsLNTaIRvsyhoLQPU508mqqciOWOtkmr5FTN5xXo1nR56PqNnsU0RIlWEx_22Wo8CE2Lv-BLItv0RgP_CkxD457TNp6Llg/https%3A%2F%2Fcommunity-bioc.slack.com%2Farchives%2FC6MVC96AZ%2Fp1676638521702469> > this in the Slack #bioc_git channel: > > OSCA.basic % git push upstream RELEASE_3_16 > Enumerating objects: 13, done. > Counting objects: 100% (13/13), done. > Delta compression using up to 4 threads > Compressing objects: 100% (8/8), done. > Writing objects: 100% (8/8), 829 bytes | 165.00 KiB/s, done. > Total 8 (delta 5), reused 0 (delta 0) > remote: Traceback (most recent call last): > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", > line 89, in <module> > remote: apply_hooks(hooks_dict) > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", > line 71, in apply_hooks > remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable hook > remote: KeyError: 'pre-receive-hook-merge-markers' > To git.bioconductor.org:packages/OSCA.basic > ! [remote rejected] RELEASE_3_16 -> RELEASE_3_16 (pre-receive hook declined) > error: failed to push some refs to > 'g...@git.bioconductor.org:packages/OSCA.basic' > > > and here is the answer of Lori Shepherd: > > Lori Shepherd 2:21 PM > <https://secure-web.cisco.com/1dIgBFl35sNpQytZ9b-aHJm8arPXRRuLebC6-YOiuye-oEHlZ7oINHHAm9vHz2sNirxFA4vWI3mbrUb_nizuJhS1Kgawif_2ECFsoVCWLp8Nq6DmZ9fT9tVIkJgAN0k_Go4rP6suushLGMHDJWWDlniW59Tjmj9oIm_RQRY0k3MONSTWljzqO1f-ZozDbNQZomV4Cuha6XgRDSva5Euekt0J8JWAJub-vfFfueXmfvstRoydR7Bb_SFlIaN1C90iXSdoVyMGNCkQfYEGjzjKN4IcFoDOYDXyOtlf4FyJ40qBGmle144zF_xVGgifaAS83BI0iPn17GTih9KsD88BFlQ/https%3A%2F%2Fcommunity-bioc.slack.com%2Farchives%2FC6MVC96AZ%2Fp1676636473133529> > sorry thats on me most likely -- I updated the hooks yesterday . I'll > investigate (edited) > I found the issue and am actively working on the remedy. This should not > affect software packages but data experiment, workflows, and books are > affected. I hope to have it remedied shortly. > > On Mon, Feb 20, 2023 at 5:33 PM Ulrich Bodenhofer<bodenho...@bioinf.jku.at> > wrote: > >> Hi, >> >> I am the maintainer of the 'msa' package which has been in Bioconductor >> for eight years now. The package is hosted on github and synchronized with >> the BioC git repo. Today I merged a pull request that had been contributed >> by a github user. I further updated the package's DESCRIPTION and inst/NEWS >> file and wanted to push the latest version to the BioC git repo. No matter >> what I did, I did not succeed. The error messages are attached below. I am >> not a very skilled git user. Does anybody have an idea what I could/should >> do? Any help is gratefully appreciated! >> >> Thanks, >> Ulrich >> >> -- >> >> Enumerating objects: 22, done. >> Counting objects: 100% (22/22), done. >> Delta compression using up to 8 threads >> Compressing objects: 100% (13/13), done. >> Writing objects: 100% (13/13), 19.57 KiB | 1.96 MiB/s, done. >> Total 13 (delta 9), reused 0 (delta 0), pack-reused 0 >> remote: Traceback (most recent call last): >> remote: File "hooks/pre-receive.h00-pre-receive-hook-software", line 93, >> in <module> >> remote: apply_hooks(hooks_dict) >> remote: File "hooks/pre-receive.h00-pre-receive-hook-software", line 79, >> in apply_hooks >> remote: prevent_duplicate_commits(oldrev, newrev, refname) >> remote: File >> "/home/git/.gitolite/local/hooks/repo-specific/prevent_duplicate_commits.py", >> line 67, in prevent_duplicate_commits >> remote: rev2 = get_svn_revision(second) >> remote: File >> "/home/git/.gitolite/local/hooks/repo-specific/prevent_duplicate_commits.py", >> line 43, in get_svn_revision >> remote: revision = SVN_COMMIT_REGEX.match(body.decode()) >> remote: UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa1 in >> position 25709: invalid start byte >> To git.bioconductor.org:packages/msa.git >> ! [remote rejected] master -> master (pre-receive hook declined) >> error: failed to push some refs to 'git.bioconductor.org:packages/msa.git' >> >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://secure-web.cisco.com/1AP_1NZc14kI4bvPlkEI1hv1GhoSpE4l4Z7TdqMlVjVEzTZ8gC1pb4OgviJFMIc7E65uipZIP_F1VPn5SBQDoKggieJP_9yarTbyZyA51IvSOU0vKnkvFDk6e-QdZWfqe2CjGZsSp328Vb4icTSghaENYpCwGb3nBbu_tKnwGkinrB9LinHGzuEq--asrFVlP96BIRGPuPyT9TRatSNWvUkTQohMICiSKR2IZ3jy9mG8U336ad9ApfAiTeY7MK1QFwubUzq9Q1Vx8WdviwzTCkeX3b9-WI51gn-fTjDLEPThkpZlN5vG2PYKLX8dyZdaoAy6Pllpgw7PM-eEUzFDYlg/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel >> > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://secure-web.cisco.com/1AP_1NZc14kI4bvPlkEI1hv1GhoSpE4l4Z7TdqMlVjVEzTZ8gC1pb4OgviJFMIc7E65uipZIP_F1VPn5SBQDoKggieJP_9yarTbyZyA51IvSOU0vKnkvFDk6e-QdZWfqe2CjGZsSp328Vb4icTSghaENYpCwGb3nBbu_tKnwGkinrB9LinHGzuEq--asrFVlP96BIRGPuPyT9TRatSNWvUkTQohMICiSKR2IZ3jy9mG8U336ad9ApfAiTeY7MK1QFwubUzq9Q1Vx8WdviwzTCkeX3b9-WI51gn-fTjDLEPThkpZlN5vG2PYKLX8dyZdaoAy6Pllpgw7PM-eEUzFDYlg/https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://secure-web.cisco.com/1AP_1NZc14kI4bvPlkEI1hv1GhoSpE4l4Z7TdqMlVjVEzTZ8gC1pb4OgviJFMIc7E65uipZIP_F1VPn5SBQDoKggieJP_9yarTbyZyA51IvSOU0vKnkvFDk6e-QdZWfqe2CjGZsSp328Vb4icTSghaENYpCwGb3nBbu_tKnwGkinrB9LinHGzuEq--asrFVlP96BIRGPuPyT9TRatSNWvUkTQohMICiSKR2IZ3jy9mG8U336ad9ApfAiTeY7MK1QFwubUzq9Q1Vx8WdviwzTCkeX3b9-WI51gn-fTjDLEPThkpZlN5vG2PYKLX8dyZdaoAy6Pllpgw7PM-eEUzFDYlg/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. [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
