[Bioc-devel] R: Bioconductor package DaMiRseq
Dear all, I need to update my package (DaMiRseq<https://www.bioconductor.org/packages/release/bioc/html/DaMiRseq.html>) in order to fix a bug that makes the package fail in devel and release. I tried, as usual, to pull the latest version of package with: git pull upstream master but a connection error occurs: ssh_exchange_identification: read: Connection reset by peer fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. I asked to Lori who kindly invites me to write you. What should I do? In addition, I cannot activate the Bioconductor Git Credentials, even though I mantain the package since 2017. Thanks in advance, Mattia
Da: Kern, Lori <Lori.Shepherd at RoswellPark.org>
Inviato: marted? 27 luglio 2021 14:29 A: Mattia Chiesa <mattia.chiesa at hotmail.it> Oggetto: Re: Bioconductor package DaMiRseq Regardless of whether it stems from a dependency package or not, your package is still failing in release and devel which is problematic. If the change is intentional from a dependent package, you would still have to modify your code. If you find it is from a dependent package and consider it a bug, I encourage you to reach out to their maintainer directly as well. Please ask further git access issues on bioc-devel at r-project.org mailing list as there are dedicated members of the team to assist with access. To start, make sure you have a valid ssh key on the computer you are using, and that the key is uploaded to the git credentials app. If you have not activated the git credentials app, be sure to activate your account first. Links to the app and other useful git workflow can be found here: http://bioconductor.org/developers/how-to/git/new-package-workflow/ Cheers, Lori Shepherd Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Mattia Chiesa <mattia.chiesa at hotmail.it> Sent: Tuesday, July 27, 2021 5:06 AM To: Kern, Lori <Lori.Shepherd at RoswellPark.org> Subject: R: Bioconductor package DaMiRseq Dear Lori, Since I haven't modified DaMiRseq for several months, I think the the problem could be related to some Damirseq dependencies. Anyway, I tried to go deep into the problem, but when I type: git pull upstream master a connection error occurs: ssh_exchange_identification: read: Connection reset by peer fatal: Could not read from remote repository. Please make sure you have the correct access rights and the repository exists. It's the first time I have experinced this problem. What should I do? Thanks In advance. Mattia ________________________________ Da: Kern, Lori <Lori.Shepherd at RoswellPark.org> Inviato: luned? 26 luglio 2021 16:55 A: mattia.chiesa at hotmail.it <mattia.chiesa at hotmail.it> Oggetto: Bioconductor package DaMiRseq We would like to bring to your attention that your package is failing to build or check on our release and devel build machines: Devel: http://bioconductor.org/checkResults/3.14/bioc-LATEST/<http://secure-web.cisco.com/1UyHFFpElhlwoJASYNWNnZo294YfOAS2eA-p2cjmz_DSDOF7yfSSvnTsaWfgpR1F03jqoFKgAspBBEeYNfj1PZhObI9jNDtfIEciWCb5icLfNgkIPsjNScxTtUrhAiUJfpwX1edKaYyjjfRmcH0tpo8_bG7M1111bqZWqkyL1PcWBQwLbjU_fO4UKLxjBmK_VXNwz6SsMCrYCO27DgHBRWvvQi5im5uzCiGg1HlXwSSVi_1Y5fDp8kh52CbA_eo7SuaKaCcjsfEn5qVvTrl6YIlBCANzv2HubDATSyRHIu9nGNZG7mF3Ky8x4fk2dXP45/http%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.14%2Fbioc-LATEST%2FCHETAH%2F>DaMiRseq Release: http://bioconductor.org/checkResults/3.13/bioc-LATEST/<http://secure-web.cisco.com/1h7aSKHWtsfb4cOI13Zh8EU4a5W856Zce40L3uyRNdZTtbeGJQMra08tCbRLlaKugtrt2IECy6CVe6neRyat4TcRkKG4IEZyrSEipziS7yH_RNNvEAkRC8zauoM6Ai7f_9UZojDR7tXXczshLqKDLZteLqLDX9baox4e-VZG8wMfuKwpTvE6cNGtDHFMEZ3rzhOR1IT3M_3xSYbknmx0Q71qZxihn2YtiYhjU4Up9pe4bXUjhWRxl6LOhqp9PgND-GKfgV5YeyM3XFZKfynGIEcs8lF-8eZl1GbgEzIcKHUJ1FupgfLANKtUF7v_ibzB6/http%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.13%2Fbioc-LATEST%2FCHETAH%2F>DaMiRseq Would you mind taking a look at this? Don't hesitate to ask on the bioc-devel mailing list if you have any question or need help. This is very problematic. If no action is taken over the next few weeks we will begin the deprecation process for your package. We appreciate your assistance on pushing changes to remedy these errors. Lori Shepherd Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 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.