bug#63803: closed ([PATCH] gnu: Add r-mbecs.)

[GNU bug Tracking System]

Your message dated Thu, 01 Jun 2023 09:18:22 +0200
with message-id <87a5xjtzp3.fsf@elephly.net>
and subject line Re: [bug#63803] [PATCH] gnu: Add r-mbecs.
has caused the debbugs.gnu.org bug report #63803,
regarding [PATCH] gnu: Add r-mbecs.
to be marked as done.

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-- 
63803: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=63803
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> --- Begin Message ---
>
>
>
> Subject: 
>
> [PATCH] gnu: Add r-mbecs.
>
>
>
>
> Date: 
>
> Tue, 30 May 2023 15:37:50 +0200
>
>
>
>
> * gnu/packages/bioconductor.scm (r-mbecs): New variable.
> ---
>  gnu/packages/bioconductor.scm | 51 +++++++++++++++++++++++++++++++++++
>  1 file changed, 51 insertions(+)
>
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index 265a70cdd4..b75b9f1886 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -10118,6 +10118,57 @@ (define-public r-ripseeker
>  processing to visualization and annotation.")
>      (license license:gpl2)))
>  
> +(define-public r-mbecs
> +  (package
> +    (name "r-mbecs")
> +    (version "1.4.0")
> +    (source
> +     (origin
> +       (method url-fetch)
> +       (uri (bioconductor-uri "MBECS" version))
> +       (sha256
> +        (base32 "0gfr3c5k7xjd342zfdksgh22mrk3ryr4cp89nar0mlpgzxg4l4vz"))))
> +    (properties `((upstream-name . "MBECS")))
> +    (build-system r-build-system)
> +    (arguments
> +     (list
> +      #:phases
> +      #~(modify-phases %standard-phases
> +          (add-after 'unpack 'set-HOME
> +          ;; Fontconfig needs an writable cache
> +            (lambda _ (setenv "HOME" "/tmp"))))))
> +    (propagated-inputs
> +     (list r-cluster
> +           r-dplyr
> +           r-ggplot2
> +           r-gridextra
> +           r-limma
> +           r-lme4
> +           r-lmertest
> +           r-magrittr
> +           r-markdown
> +           r-matrix
> +           r-pheatmap
> +           r-phyloseq
> +           r-rmarkdown
> +           r-ruv
> +           r-sva
> +           r-tibble
> +           r-tidyr
> +           r-vegan))
> +    (native-inputs (list r-knitr))
> +    (home-page "https://github.com/rmolbrich/MBECS";)
> +    (synopsis
> +     "Evaluation and correction of batch effects in microbiome data-sets")
> +    (description
> +     "The @acronym{MBECS, Microbiome Batch Effect Correction Suite} provides a
> +set of functions to evaluate and mitigate unwated noise due to processing in
> +batches.  To that end it incorporates a host of batch correcting algorithms
> +(BECA) from various packages.  In addition it offers a correction and reporting
> +pipeline that provides a preliminary look at the characteristics of a data-set
> +before and after correcting for batch effects.")
> +    (license license:artistic2.0)))
> +
>  (define-public r-mbkmeans
>    (package
>      (name "r-mbkmeans")
>
> base-commit: 3807876af4b53babdbc2f1d730e4763ff651f316
> -- 
> 2.40.1
>
>
>
>
> --- End Message ---
> --- Begin Message ---
>
>
>
> Subject: 
>
> Re: [bug#63803] [PATCH] gnu: Add r-mbecs.
>
>
>
>
> Date: 
>
> Thu, 01 Jun 2023 09:18:22 +0200
>
>
>
>
> User-agent: 
>
> mu4e 1.10.2; emacs 28.2
>
>
>
>
> Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> writes:
>
> > * gnu/packages/bioconductor.scm (r-mbecs): New variable.
>
> Applied, thanks!
>
> -- 
> Ricardo
>
>
> --- End Message ---