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[bug#48575] [PATCH 05/50] gnu: r-bsgenome: Move to (gnu packages biocond
From: |
zimoun |
Subject: |
[bug#48575] [PATCH 05/50] gnu: r-bsgenome: Move to (gnu packages bioconductor). |
Date: |
Fri, 21 May 2021 22:25:37 +0200 |
* gnu/packages/bioinformatics.scm (r-bsgenome): Move from here...
* gnu/packages/bioconductor.scm (r-bsgenome): ...to here.
---
gnu/packages/bioconductor.scm | 33 ++++++++++++++++++++++++++++++++-
gnu/packages/bioinformatics.scm | 31 -------------------------------
2 files changed, 32 insertions(+), 32 deletions(-)
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 2afb5214ee..923413135b 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -4,7 +4,7 @@
;;; Copyright © 2016 Pjotr Prins <pjotr.guix@thebird.nl>
;;; Copyright © 2016 Ben Woodcroft <donttrustben@gmail.com>
;;; Copyright © 2017 Efraim Flashner <efraim@flashner.co.il>
-;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>
+;;; Copyright © 2017, 2018, 2019, 2020 Tobias Geerinckx-Rice <me@tobias.gr>
;;; Copyright © 2019, 2020, 2021 Simon Tournier <zimon.toutoune@gmail.com>
;;; Copyright © 2020 Peter Lo <peterloleungyau@gmail.com>
;;; Copyright © 2020, 2021 Mădălin Ionel Patrașcu
<madalinionel.patrascu@mdc-berlin.de>
@@ -1875,6 +1875,37 @@ matching algorithms, and other utilities, for fast
manipulation of large
biological sequences or sets of sequences.")
(license license:artistic2.0)))
+(define-public r-bsgenome
+ (package
+ (name "r-bsgenome")
+ (version "1.58.0")
+ (source (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "BSgenome" version))
+ (sha256
+ (base32
+ "1gbvmxr6r57smgvhqgwspbcnwyk4hsfkxkpzzcs6470q03zfb4wq"))))
+ (properties
+ `((upstream-name . "BSgenome")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-iranges" ,r-iranges)
+ ("r-matrixstats" ,r-matrixstats)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-xvector" ,r-xvector)))
+ (home-page "https://bioconductor.org/packages/BSgenome")
+ (synopsis "Infrastructure for Biostrings-based genome data packages")
+ (description
+ "This package provides infrastructure shared by all Biostrings-based
+genome data packages and support for efficient SNP representation.")
+ (license license:artistic2.0)))
+
(define-public r-category
(package
(name "r-category")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 32d2b6a683..9c9288c6b0 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7873,37 +7873,6 @@ including VCF header and contents in RDF and JSON.")
information about the latest version of the Gene Ontologies.")
(license license:artistic2.0)))
-(define-public r-bsgenome
- (package
- (name "r-bsgenome")
- (version "1.58.0")
- (source (origin
- (method url-fetch)
- (uri (bioconductor-uri "BSgenome" version))
- (sha256
- (base32
- "1gbvmxr6r57smgvhqgwspbcnwyk4hsfkxkpzzcs6470q03zfb4wq"))))
- (properties
- `((upstream-name . "BSgenome")))
- (build-system r-build-system)
- (propagated-inputs
- `(("r-biocgenerics" ,r-biocgenerics)
- ("r-biostrings" ,r-biostrings)
- ("r-genomeinfodb" ,r-genomeinfodb)
- ("r-genomicranges" ,r-genomicranges)
- ("r-iranges" ,r-iranges)
- ("r-matrixstats" ,r-matrixstats)
- ("r-rsamtools" ,r-rsamtools)
- ("r-rtracklayer" ,r-rtracklayer)
- ("r-s4vectors" ,r-s4vectors)
- ("r-xvector" ,r-xvector)))
- (home-page "https://bioconductor.org/packages/BSgenome")
- (synopsis "Infrastructure for Biostrings-based genome data packages")
- (description
- "This package provides infrastructure shared by all Biostrings-based
-genome data packages and support for efficient SNP representation.")
- (license license:artistic2.0)))
-
(define-public r-impute
(package
(name "r-impute")
--
2.30.1
- [bug#48575] [PATCH 00/50] Move some Bioconductor packages to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 01/50] gnu: r-genomicalignments: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 03/50] gnu: r-genomicfeatures: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 02/50] gnu: r-rtracklayer: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 06/50] gnu: r-msnid: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 05/50] gnu: r-bsgenome: Move to (gnu packages bioconductor).,
zimoun <=
- [bug#48575] [PATCH 07/50] gnu: r-msnbase: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 08/50] gnu: r-samr: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 09/50] gnu: r-impute: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 11/50] gnu: r-go-db: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 10/50] gnu: r-seqpattern: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 13/50] gnu: r-genomationdata: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 12/50] gnu: r-genomation: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 04/50] gnu: r-topgo: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 14/50] gnu: r-pcamethods: Move to (gnu packages bioconductor)., zimoun, 2021/05/21
- [bug#48575] [PATCH 15/50] gnu: r-mzid: Move to (gnu packages bioconductor)., zimoun, 2021/05/21