GNU bug report logs -
#56039
[PATCH] gnu: Add r-annmap.
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Report forwarded
to
rekado <at> elephly.net, guix-patches <at> gnu.org
:
bug#56039
; Package
guix-patches
.
(Fri, 17 Jun 2022 14:07:02 GMT)
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Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de>
:
New bug report received and forwarded. Copy sent to
rekado <at> elephly.net, guix-patches <at> gnu.org
.
(Fri, 17 Jun 2022 14:07:02 GMT)
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Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 1e87b190c2..5b74118974 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -2029,6 +2029,40 @@ (define-public r-aneufinder
sequencing data.")
(license license:artistic2.0)))
+(define-public r-annmap
+ (package
+ (name "r-annmap")
+ (version "1.38.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "annmap" version))
+ (sha256
+ (base32
+ "0ywqbb8jia7rrkzcsf6a11kqf8dnx96z8n8xw7067mahycykbixv"))))
+ (properties `((upstream-name . "annmap")))
+ (build-system r-build-system)
+ (propagated-inputs
+ (list r-biobase
+ r-biocgenerics
+ r-dbi
+ r-digest
+ r-genefilter
+ r-genomicranges
+ r-iranges
+ r-lattice
+ r-rmysql
+ r-rsamtools))
+ (home-page "https://github.com/cruk-mi/annmap")
+ (synopsis
+ "Genome annotation and visualisation for Affymetrix arrays and NGS analysis")
+ (description
+ "This package @code{annmap} provides annotation mappings for Affymetrix exon
+arrays and coordinate based queries to support deep sequencing data analysis.
+Database access is hidden behind the API which provides a set of functions such
+as @code{genesInRange()}, @code{geneToExon()}, @code{exonDetails()}, etc.
+Functions to plot gene architecture and BAM file data are also provided.")
+ (license license:gpl2)))
+
(define-public r-biocversion
(package
(name "r-biocversion")
base-commit: d6bd483cd53cedc8da39fcc6c419f7241080ed21
--
2.36.1
Reply sent
to
Ricardo Wurmus <rekado <at> elephly.net>
:
You have taken responsibility.
(Fri, 01 Jul 2022 08:26:03 GMT)
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Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de>
:
bug acknowledged by developer.
(Fri, 01 Jul 2022 08:26:03 GMT)
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Message #10 received at 56039-done <at> debbugs.gnu.org (full text, mbox):
Mădălin Ionel Patrașcu <madalinionel.patrascu <at> mdc-berlin.de> writes:
> diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
> index 1e87b190c2..5b74118974 100644
> --- a/gnu/packages/bioconductor.scm
> +++ b/gnu/packages/bioconductor.scm
> @@ -2029,6 +2029,40 @@ (define-public r-aneufinder
> sequencing data.")
> (license license:artistic2.0)))
>
> +(define-public r-annmap
Thanks. I applied it with a commit message.
--
Ricardo
bug archived.
Request was from
Debbugs Internal Request <help-debbugs <at> gnu.org>
to
internal_control <at> debbugs.gnu.org
.
(Fri, 29 Jul 2022 11:24:08 GMT)
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This bug report was last modified 1 year and 266 days ago.
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