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gnu: Add r-bsgenome-dmelanogaster-ucsc-dm3-masked.

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* gnu/packages/bioconductor.scm (r-bsgenome-dmelanogaster-ucsc-dm3-masked):
New variable.
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Ricardo Wurmus 2018-06-15 07:26:48 +02:00
parent bb15b581f7
commit dfac7eb917
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gnu/packages/bioconductor.scm
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@ -61,6 +61,41 @@ (define-public r-bsgenome-dmelanogaster-ucsc-dm6
objects.")
(license license:artistic2.0)))
(define-public r-bsgenome-dmelanogaster-ucsc-dm3-masked
(package
(name "r-bsgenome-dmelanogaster-ucsc-dm3-masked")
(version "1.3.99")
(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 "http://www.bioconductor.org/packages/"
"release/data/annotation/src/contrib/"
"BSgenome.Dmelanogaster.UCSC.dm3.masked_"
version ".tar.gz"))
(sha256
(base32
"1756csb09f1br9rj1l3f08qyh4hlymdbd0cfn8x3fq39dn45m5ap"))))
(properties
`((upstream-name . "BSgenome.Dmelanogaster.UCSC.dm3.masked")))
(build-system r-build-system)
(propagated-inputs
`(("r-bsgenome" ,r-bsgenome)
("r-bsgenome-dmelanogaster-ucsc-dm3"
,r-bsgenome-dmelanogaster-ucsc-dm3)))
(home-page "https://www.bioconductor.org/packages/BSgenome.Dmelanogaster.UCSC.dm3.masked/")
(synopsis "Full masked genome sequences for Fly")
(description
"This package provides full masked genome sequences for Drosophila
melanogaster (Fly) as provided by UCSC (dm3, April 2006) and stored in
Biostrings objects. The sequences are the same as in
BSgenome.Dmelanogaster.UCSC.dm3, except that each of them has the 4 following
masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of
intra-contig ambiguities (AMB mask), (3) the mask of repeats from
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.")
(license license:artistic2.0)))
(define-public r-hpar
(package
(name "r-hpar")