bug#56267: closed ([PATCH] gnu: Add r-badregionfinder.)

[GNU bug Tracking System]

Your message dated Thu, 27 Oct 2022 16:01:15 +0200
with message-id <87ilk5gybj.fsf@elephly.net>
and subject line [PATCH] gnu: Add r-badregionfinder.
has caused the debbugs.gnu.org bug report #56267,
regarding [PATCH] gnu: Add r-badregionfinder.
to be marked as done.

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-- 
56267: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=56267
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> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-badregionfinder.
>
>
>
>
> Date: 
>
> Mon, 27 Jun 2022 23:39:36 +0200
>
>
>
>
> * gnu/packages/bioconductor.scm (r-badregionfinder): New variable.
> ---
>  gnu/packages/bioconductor.scm | 28 ++++++++++++++++++++++++++++
>  1 file changed, 28 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index 1e87b190c2..aa4ba4706d 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -2029,6 +2029,34 @@ (define-public r-aneufinder
>  sequencing data.")
>      (license license:artistic2.0)))
>  
> +(define-public r-badregionfinder
> +  (package
> +    (name "r-badregionfinder")
> +    (version "1.24.0")
> +    (source (origin
> +              (method url-fetch)
> +              (uri (bioconductor-uri "BadRegionFinder" version))
> +              (sha256
> +               (base32
> +                "1a1pqmh5ak9s3k1lxw6flanchk24zyznwm34ixi2b78wdc3hqgm9"))))
> +    (properties `((upstream-name . "BadRegionFinder")))
> +    (build-system r-build-system)
> +    (propagated-inputs
> +     (list r-biomart
> +           r-genomicranges
> +           r-rsamtools
> +           r-s4vectors
> +           r-variantannotation))
> +    (home-page "https://bioconductor.org/packages/BadRegionFinder";)
> +    (synopsis "Identifying regions with bad coverage in sequence alignment 
> data")
> +    (description
> +     "@code{BadRegionFinder} is a package for identifying regions with a bad,
> +acceptable and good coverage in sequence alignment data available as bam files.
> +The whole genome may be considered as well as a set of target regions.  Various
> +visual and textual types of output are available.")
> +    (license license:lgpl3)))
> +
> +
>  (define-public r-biocversion
>    (package
>      (name "r-biocversion")
>
> base-commit: 144a750f8b10e606751bc887bcb09e7fb7ae09ff
> -- 
> 2.36.1
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-badregionfinder.
>
>
>
>
> Date: 
>
> Thu, 27 Oct 2022 16:01:15 +0200
>
>
>
>
> User-agent: 
>
> mu4e 1.8.9; emacs 28.1
>
>
>
>
> Applied with minor changes.  Thanks!
>
> -- 
> Ricardo
>
>
> --- End Message ---