I see it is now building and checking cleanly. We will un-deprecate the package.
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 Kern, Lori via Bioc-devel <bioc-devel@r-project.org> Sent: Monday, April 22, 2024 9:08 AM To: bioc-devel@r-project.org <bioc-devel@r-project.org>; Joshua Campbell <c...@bu.edu> Subject: Re: [Bioc-devel] singleCellTK Please try to push the change to fix the gvsa issue. We generally will only un-deprecate when we see a clean build/check report for at least the linux platform especially since the package has been failing for an extended period of time (since early December). ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Joshua Campbell via Bioc-devel <bioc-devel@r-project.org> Sent: Monday, April 22, 2024 8:34 AM To: bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: [Bioc-devel] singleCellTK Hello, The package singleCellTK <https://secure-web.cisco.com/1wq8O1kSgJOUZsgHipzl-RZLqngGu3sumYdSdeICLNbaEfv7UgjYXQCq-KjeIeo2IQebPljENPurqCjIR52uece6VGfVOR-pnD8SRKU7TLNkof3-XXl98Suki3qq41FV9qTh0qMkw36ptlfnb5pMgdYmdhLXFrHQSI33LXovrzEMqTSDVL5de0eChB4wYWt3WCM4pyThcGUs8dT_vTluBqZAKWBrVmF1MLLCDZLuFLNpqplrox9UptS5DvdVoeo95UpfzRtKyVgJ8srififHUpyiaeEPGT7RAB5OqGqMaZkIyLzR0ZB1BWnV73JDTOuGO/https%3A%2F%2Fbioconductor.org%2FcheckResults%2Fdevel%2Fbioc-LATEST%2FsingleCellTK%2F> is currently slated for depreciation in Bioc devel (3.19). We have been actively fixing the dependency issues, mainly the underlying changes in Seurat update. We are fixing one last issue to be compatible with an update in the GSVA package which should allow the linux and macos builds to pass (should be done in the next day). The remaining windows build failing is due to other BioC packages not currently passing, but this is outside of our control. We have also changed the maintainer as the previous maintainer left the lab. We were hoping that the depreciation tag could be removed. We will continue to address any other issues that pop up going forward in release/devel. Thanks, Josh -- Joshua D. Campbell, Ph.D. Section of Computational Biomedicine BU Chobanian & Avedisian School of Medicine 72 East Concord Street, E604B | Boston, MA 02118 Phone: (617) 358-7260 | Email: c...@bu.edu [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://secure-web.cisco.com/1kHZyNpWrzZ49GVVB7LC0EHpn2zWBDsZ4oEMuAhFq7PZ4Th9UsuXT6TZwg8b4sdcneEfcvE92siDBIdi30iYXG6OucDI-zeq4RlzBbIZ9XDJcNwKOqwrPsdP6MTRPC_25Jj4o01IgwEekV0DzsdKjG1-o68OFoGi73jj8ZbOMYPSPGZeGoIE2gfbkQ7JyXVfXTK0mPqon_HxmJsAwvqGWtiBTJOUqtkP2v4PPKwPbCtZOWOM2AYtH5sPZMFXDhmygMQ_DQ_mk5tmUxUmBmis__v5Z8IJkoj7-ZRNiBC0P7ab3m5nQdQl25EAkwje-xc5Z/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://secure-web.cisco.com/1waBFK7le1TvQqQIwl85K8t4zQVdplrP2Hb8928HPDViq59J23LSdAIo4OqkKlfgYmBBfRRGV2ctzFQAsvwZGyubdn09BaIcf58CJkBmKhJ4iwD_gMseFWkgEFG6NNYugpVD2XE7cTSU_d5H5ckp9D3pWx2POhQamqPDLUwaPCPSBqldRMSs6NA6YzPWp3hR4eo1cj2eZSJVB7--VYjNtFSu3_pkZQ7PzMOIW_0kz59eX5Sl38cP1vUvhTnSjFYUdQR34u0k2QIExiPWVaKG-eDRUzSmvLA1gfiG1t8Ot9RS4n0r-NAbvvm_TlZ9LRKcw/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
