bug#36798: closed ([PATCH 09/11] gnu: Add r-flowsom.)

[GNU bug Tracking System]

Your message dated Fri, 21 Feb 2020 18:07:33 +0100
with message-id <CAJ3okZ2GnkOKAPNwz8FwmRbZ+W+pYHiwB=address@hidden>
and subject line patches merged
has caused the debbugs.gnu.org bug report #36797,
regarding [PATCH 09/11] gnu: Add r-flowsom.
to be marked as done.

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-- 
36797: http://debbugs.gnu.org/cgi/bugreport.cgi?bug=36797
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> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH 09/11] gnu: Add r-flowsom.
>
>
>
>
> Date: 
>
> Wed, 24 Jul 2019 20:22:02 +0200
>
>
>
>
> * gnu/packages/bioconductor.scm (r-flowsom): New variable.
> ---
>  gnu/packages/bioconductor.scm | 29 +++++++++++++++++++++++++++++
>  1 file changed, 29 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index ab4d9f4075..dd6570ed17 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -4930,3 +4930,32 @@ and to both short and long sequence reads.")
>        "This package provides a fast and automatic clustering to classify the 
> cells into subpopulations based on finding the peaks from the overall density 
> function generated by K-means.")
>      (license license:artistic2.0)))     ;TODO: artistic1.0 does not exist
>  
> +(define-public r-flowsom
> +  (package
> +    (name "r-flowsom")
> +    (version "1.16.0")
> +    (source
> +      (origin
> +        (method url-fetch)
> +        (uri (bioconductor-uri "FlowSOM" version))
> +        (sha256
> +          (base32
> +            "03wl3xk7g7vajc4kkrqa0gsbjfxlqr918qi849h5nir31963398l"))))
> +    (properties `((upstream-name . "FlowSOM")))
> +    (build-system r-build-system)
> +    (propagated-inputs
> +      `(("r-biocgenerics" ,r-biocgenerics)
> +        ("r-consensusclusterplus"
> +         ,r-consensusclusterplus)
> +        ("r-flowcore" ,r-flowcore)
> +        ("r-flowutils" ,r-flowutils)
> +        ("r-igraph" ,r-igraph)
> +        ("r-tsne" ,r-tsne)
> +        ("r-xml" ,r-xml)))
> +    (home-page "http://www.r-project.org";)
> +    (synopsis
> +      "Using self-organizing maps for visualization and interpretation of 
> cytometry data")
> +    (description
> +      "FlowSOM offers visualization options for cytometry data, by using 
> Self-Organizing Map clustering and Minimal Spanning Trees.")
> +    (license license:gpl2+)))
> +
> -- 
> 2.21.0
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> patches merged
>
>
>
>
> Date: 
>
> Fri, 21 Feb 2020 18:07:33 +0100
>
>
>
>
> Dear,
>
> All the patches are merged now; except r-flowpeaks. Because this
> package use Artistic1.0 which is not enough clear to be considered
> "free" [1,2] (GNU's point of view [3]) and upstream are not
> responsive, let clean the bug tracker. :-)
>
> [1] https://debbugs.gnu.org/cgi/bugreport.cgi?bug=36797#16
> [2] https://lists.gnu.org/archive/html/guix-devel/2019-12/msg00286.html
> [3] https://www.gnu.org/licenses/license-list.en.html#ArtisticLicense
>
> All the best,
> simon
>
>
> --- End Message ---