[Bioc-devel] CRAN packages depending on broken Bioc 3.11 packages may be archived

[James W. MacDonald]

Hi Lori,

Let me know if you don't hear from Benilton. It shouldn't be much work to
fix oligo - we could convert to using Gviz for the graphic that is
currently using GenomeGraphs. I can make the change next week if necessary.

Best,

Jim



On Tue, Nov 26, 2019 at 12:57 PM Shepherd, Lori <
Lori.Shepherd using roswellpark.org> wrote:

> typo -  heatplus and topGO have responded directly.
>
>
> 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-bounces using r-project.org> on behalf of
> Shepherd, Lori <Lori.Shepherd using RoswellPark.org>
> Sent: Tuesday, November 26, 2019 12:54 PM
> To: Henrik Bengtsson <henrik.bengtsson using gmail.com>;
> bioc-devel using r-project.org <bioc-devel using r-project.org>
> Subject: Re: [Bioc-devel] CRAN packages depending on broken Bioc 3.11
> packages may be archived
>
> All of these package have been notified from the Bioconductor side as
> well.  We hope the maintainers will respond shortly.
> heatmap and topGO  have responded directly and are working on fixes.  I
> hope the others are too.
>
>
>
> 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-bounces using r-project.org> on behalf of Henrik
> Bengtsson <henrik.bengtsson using gmail.com>
> Sent: Tuesday, November 26, 2019 12:47 PM
> To: bioc-devel using r-project.org <bioc-devel using r-project.org>
> Subject: [Bioc-devel] CRAN packages depending on broken Bioc 3.11 packages
> may be archived
>
> In case it's not known, paraphrasing from CRAN notification email,
> CRAN [sic!] packages:
>
>   TROM, demi, diffMeanVar, maGUI, metaboGSE
>
> risk being archived on December 7 because broken Bioconductor dependencies:
>
>   Heatplus, missMethyl, oligo, oligoClasses, topGO
>
> prevent pdInfoBuilder from being installed.
>
> I don't maintain any of the above - I'm just the messenger.
>
> /Henrik
>
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-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099

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