[Bioc-devel] singleCellTK

[Joshua Campbell]

Thank you, much appreciated!

On Tue, Apr 23, 2024 at 1:08 PM Kern, Lori <Lori.Shepherd using roswellpark.org>
wrote:

> 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-bounces using r-project.org> on behalf of Kern,
> Lori via Bioc-devel <bioc-devel using r-project.org>
> *Sent:* Monday, April 22, 2024 9:08 AM
> *To:* bioc-devel using r-project.org <bioc-devel using r-project.org>; Joshua
> Campbell <camp using 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-bounces using r-project.org> on behalf of Joshua
> Campbell via Bioc-devel <bioc-devel using r-project.org>
> Sent: Monday, April 22, 2024 8:34 AM
> To: bioc-devel using r-project.org <bioc-devel using 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: camp using bu.edu
>
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-- 
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: camp using bu.edu

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