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05/54: gnu: r-bsgenome: Move to (gnu packages bioconductor).
From: |
guix-commits |
Subject: |
05/54: gnu: r-bsgenome: Move to (gnu packages bioconductor). |
Date: |
Mon, 31 May 2021 10:03:03 -0400 (EDT) |
rekado pushed a commit to branch master
in repository guix.
commit 537d48d8695cf54da8957277aaac12b3991167c8
Author: zimoun <zimon.toutoune@gmail.com>
AuthorDate: Fri May 21 22:25:37 2021 +0200
gnu: r-bsgenome: Move to (gnu packages bioconductor).
* 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 a0f5222..5825a69 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>
@@ -2080,6 +2080,37 @@ 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 e78769b..7a55ebd 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -7976,37 +7976,6 @@ 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")
- 08/54: gnu: r-samr: Move to (gnu packages bioconductor)., (continued)
- 08/54: gnu: r-samr: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 04/54: gnu: r-topgo: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 09/54: gnu: r-impute: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 13/54: gnu: r-genomationdata: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 11/54: gnu: r-go-db: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 14/54: gnu: r-pcamethods: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 16/54: gnu: r-aroma-light: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 19/54: gnu: r-interactivedisplaybase: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 06/54: gnu: r-msnid: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 07/54: gnu: r-msnbase: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 05/54: gnu: r-bsgenome: Move to (gnu packages bioconductor).,
guix-commits <=
- 03/54: gnu: r-genomicfeatures: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 01/54: gnu: r-genomicalignments: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 12/54: gnu: r-genomation: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 10/54: gnu: r-seqpattern: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 15/54: gnu: r-mzid: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 18/54: gnu: r-edaseq: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 17/54: gnu: r-deseq: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 29/54: gnu: r-affyio: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 21/54: gnu: r-fastseg: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31
- 25/54: gnu: r-complexheatmap: Move to (gnu packages bioconductor)., guix-commits, 2021/05/31