Re: [PATCH] gnu: Add r-genomationdata.

[Efraim Flashner <efraim@flashner.co.il>]

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On Mon, May 23, 2016 at 04:57:16PM +0200, Ricardo Wurmus wrote:
> * gnu/packages/bioinformatics.scm (r-genomationdata): New variable.
> ---
>  gnu/packages/bioinformatics.scm | 26 ++++++++++++++++++++++++++
>  1 file changed, 26 insertions(+)
> 
> diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
> index fbaae12..51c371c 100644
> --- a/gnu/packages/bioinformatics.scm
> +++ b/gnu/packages/bioinformatics.scm
> @@ -5002,6 +5002,32 @@ genomic feature data as long as it has minimal information on the locations of
>  genomic intervals.  In addition, it can use BAM or BigWig files as input.")
>      (license license:artistic2.0)))
>  
> +(define-public r-genomationdata
> +  (package
> +    (name "r-genomationdata")
> +    (version "1.4.0")
> +    (source (origin
> +              (method url-fetch)
> +              ;; We cannot use bioconductor-uri here because this tarball is
> +              ;; located under "data/annotation/" instead of "bioc/".
> +              (uri (string-append "https://bioconductor.org/packages/"
> +                                  "release/data/experiment/src/contrib/"
> +                                  "genomationData_" version ".tar.gz"))
> +              (sha256
> +               (base32
> +                "1xzq2j722d8lcn5bc3aq3yb34xwis2d0bpsf6jsq4xw1bg0bsy79"))))
> +    (build-system r-build-system)
> +    (arguments `(#:substitutable? #f))
                    ^^^^
                why not?

> +    (native-inputs
> +     `(("r-knitr" ,r-knitr)))
> +    (home-page "http://bioinformatics.mdc-berlin.de/genomation/")
> +    (synopsis "Experimental data for use with the genomation package")
> +    (description
> +     "This package contains experimental genetic data for use with the
> +genomation package.  Included are Chip Seq, Methylation and Cage data,
> +downloaded from Encode.")
> +    (license license:gpl3+)))
> +
>  (define-public r-org-hs-eg-db
>    (package
>      (name "r-org-hs-eg-db")
> -- 
> 2.7.3
> 

Looks good

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Efraim Flashner   <efraim@flashner.co.il>   אפרים פלשנר
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