ryan77627/guix
1
0
Fork 0
mirror of https://git.in.rschanz.org/ryan77627/guix.git synced 2025-01-08 20:30:05 -05:00
Code Issues Projects Releases Packages Wiki Activity Actions

gnu: r-genomicalignments: Move to (gnu packages bioconductor).

Browse source 
* gnu/packages/bioinformatics.scm (r-genomicalignments): Move from here...
* gnu/packages/bioconductor.scm (r-genomicalignments): ...to here.
This commit is contained in:
zimoun 2021-05-21 22:25:33 +02:00 committed by Ricardo Wurmus
parent d2d1f8bfae
commit ca1a015777
No known key found for this signature in database
GPG key ID: 197A5888235FACAC
2 changed files with 34 additions and 34 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

35
gnu/packages/bioconductor.scm
View file

@ -1,5 +1,5 @@
;;; GNU Guix --- Functional package management for GNU
;;; Copyright © 2016, 2017, 2018, 2019, 2020, 2021 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2015, 2016, 2017, 2018, 2019, 2020, 2021 Ricardo Wurmus <rekado@elephly.net>
;;; Copyright © 2016, 2017, 2018, 2020, 2021 Roel Janssen <roel@gnu.org>
;;; Copyright © 2016 Pjotr Prins <pjotr.guix@thebird.nl>
;;; Copyright © 2016 Ben Woodcroft <donttrustben@gmail.com>
@ -2280,6 +2280,39 @@ (define-public r-genomeinfodb
names in their natural, rather than lexicographic, order.")
(license license:artistic2.0)))
(define-public r-genomicalignments
(package
(name "r-genomicalignments")
(version "1.26.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GenomicAlignments" version))
(sha256
(base32
"1q95px6s6snsax4ax955zzpdlrwp5liwf70wqq0lrk9mp6lq0hbr"))))
(properties
`((upstream-name . "GenomicAlignments")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
("r-biostrings" ,r-biostrings)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-rsamtools" ,r-rsamtools)
("r-s4vectors" ,r-s4vectors)
("r-summarizedexperiment" ,r-summarizedexperiment)))
(home-page "https://bioconductor.org/packages/GenomicAlignments")
(synopsis "Representation and manipulation of short genomic alignments")
(description
"This package provides efficient containers for storing and manipulating
short genomic alignments (typically obtained by aligning short reads to a
reference genome). This includes read counting, computing the coverage,
junction detection, and working with the nucleotide content of the
alignments.")
(license license:artistic2.0)))
(define-public r-genomicranges
(package
(name "r-genomicranges")

33
gnu/packages/bioinformatics.scm
View file

@ -7952,39 +7952,6 @@ (define-public bio-vcf
(home-page "https://github.com/vcflib/bio-vcf")
(license license:expat)))
(define-public r-genomicalignments
(package
(name "r-genomicalignments")
(version "1.26.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GenomicAlignments" version))
(sha256
(base32
"1q95px6s6snsax4ax955zzpdlrwp5liwf70wqq0lrk9mp6lq0hbr"))))
(properties
`((upstream-name . "GenomicAlignments")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
("r-biostrings" ,r-biostrings)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-rsamtools" ,r-rsamtools)
("r-s4vectors" ,r-s4vectors)
("r-summarizedexperiment" ,r-summarizedexperiment)))
(home-page "https://bioconductor.org/packages/GenomicAlignments")
(synopsis "Representation and manipulation of short genomic alignments")
(description
"This package provides efficient containers for storing and manipulating
short genomic alignments (typically obtained by aligning short reads to a
reference genome). This includes read counting, computing the coverage,
junction detection, and working with the nucleotide content of the
alignments.")
(license license:artistic2.0)))
(define-public r-rtracklayer
(package
(name "r-rtracklayer")