gnu: r-bsgenome-hsapiens-1000genomes-hs37d5: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-bsgenome-hsapiens-1000genomes-hs37d5): Move from here... * gnu/packages/bioconductor.scm (r-bsgenome-hsapiens-1000genomes-hs37d5): ...to here.
This commit is contained in:
parent
66e35ce63b
commit
40a6505711
|
@ -100,6 +100,37 @@ RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats
|
||||||
Finder (TRF mask). Only the AGAPS and AMB masks are \"active\" by default.")
|
Finder (TRF mask). Only the AGAPS and AMB masks are \"active\" by default.")
|
||||||
(license license:artistic2.0)))
|
(license license:artistic2.0)))
|
||||||
|
|
||||||
|
(define-public r-bsgenome-hsapiens-1000genomes-hs37d5
|
||||||
|
(package
|
||||||
|
(name "r-bsgenome-hsapiens-1000genomes-hs37d5")
|
||||||
|
(version "0.99.1")
|
||||||
|
(source (origin
|
||||||
|
(method url-fetch)
|
||||||
|
;; We cannot use bioconductor-uri here because this tarball is
|
||||||
|
;; located under "data/annotation/" instead of "bioc/".
|
||||||
|
(uri (string-append "https://www.bioconductor.org/packages/"
|
||||||
|
"release/data/annotation/src/contrib/"
|
||||||
|
"BSgenome.Hsapiens.1000genomes.hs37d5_"
|
||||||
|
version ".tar.gz"))
|
||||||
|
(sha256
|
||||||
|
(base32
|
||||||
|
"1cg0g5fqmsvwyw2p9hp2yy4ilk21jkbbrnpgqvb5c36ihjwvc7sr"))))
|
||||||
|
(properties
|
||||||
|
`((upstream-name . "BSgenome.Hsapiens.1000genomes.hs37d5")))
|
||||||
|
(build-system r-build-system)
|
||||||
|
;; As this package provides little more than a very large data file it
|
||||||
|
;; doesn't make sense to build substitutes.
|
||||||
|
(arguments `(#:substitutable? #f))
|
||||||
|
(propagated-inputs
|
||||||
|
`(("r-bsgenome" ,r-bsgenome)))
|
||||||
|
(home-page
|
||||||
|
"https://www.bioconductor.org/packages/BSgenome.Hsapiens.1000genomes.hs37d5/")
|
||||||
|
(synopsis "Full genome sequences for Homo sapiens")
|
||||||
|
(description
|
||||||
|
"This package provides full genome sequences for Homo sapiens from
|
||||||
|
1000genomes phase2 reference genome sequence (hs37d5), based on NCBI GRCh37.")
|
||||||
|
(license license:artistic2.0)))
|
||||||
|
|
||||||
(define-public r-bsgenome-hsapiens-ucsc-hg19-masked
|
(define-public r-bsgenome-hsapiens-ucsc-hg19-masked
|
||||||
(package
|
(package
|
||||||
(name "r-bsgenome-hsapiens-ucsc-hg19-masked")
|
(name "r-bsgenome-hsapiens-ucsc-hg19-masked")
|
||||||
|
|
|
@ -7859,37 +7859,6 @@ dependencies between GO terms can be implemented and applied.")
|
||||||
genome data packages and support for efficient SNP representation.")
|
genome data packages and support for efficient SNP representation.")
|
||||||
(license license:artistic2.0)))
|
(license license:artistic2.0)))
|
||||||
|
|
||||||
(define-public r-bsgenome-hsapiens-1000genomes-hs37d5
|
|
||||||
(package
|
|
||||||
(name "r-bsgenome-hsapiens-1000genomes-hs37d5")
|
|
||||||
(version "0.99.1")
|
|
||||||
(source (origin
|
|
||||||
(method url-fetch)
|
|
||||||
;; We cannot use bioconductor-uri here because this tarball is
|
|
||||||
;; located under "data/annotation/" instead of "bioc/".
|
|
||||||
(uri (string-append "https://www.bioconductor.org/packages/"
|
|
||||||
"release/data/annotation/src/contrib/"
|
|
||||||
"BSgenome.Hsapiens.1000genomes.hs37d5_"
|
|
||||||
version ".tar.gz"))
|
|
||||||
(sha256
|
|
||||||
(base32
|
|
||||||
"1cg0g5fqmsvwyw2p9hp2yy4ilk21jkbbrnpgqvb5c36ihjwvc7sr"))))
|
|
||||||
(properties
|
|
||||||
`((upstream-name . "BSgenome.Hsapiens.1000genomes.hs37d5")))
|
|
||||||
(build-system r-build-system)
|
|
||||||
;; As this package provides little more than a very large data file it
|
|
||||||
;; doesn't make sense to build substitutes.
|
|
||||||
(arguments `(#:substitutable? #f))
|
|
||||||
(propagated-inputs
|
|
||||||
`(("r-bsgenome" ,r-bsgenome)))
|
|
||||||
(home-page
|
|
||||||
"https://www.bioconductor.org/packages/BSgenome.Hsapiens.1000genomes.hs37d5/")
|
|
||||||
(synopsis "Full genome sequences for Homo sapiens")
|
|
||||||
(description
|
|
||||||
"This package provides full genome sequences for Homo sapiens from
|
|
||||||
1000genomes phase2 reference genome sequence (hs37d5), based on NCBI GRCh37.")
|
|
||||||
(license license:artistic2.0)))
|
|
||||||
|
|
||||||
(define-public r-impute
|
(define-public r-impute
|
||||||
(package
|
(package
|
||||||
(name "r-impute")
|
(name "r-impute")
|
||||||
|
|
Loading…
Reference in New Issue