gnu: Add blasr.

* gnu/packages/bioinformatics.scm (blasr): New variable.
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Ricardo Wurmus 2019-03-18 14:38:19 +01:00 committed by Ricardo Wurmus
parent 6a6cd48cf0
commit f88bdc5ff9
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@ -596,6 +596,51 @@ (define-public blasr-libcpp
hdf and alignment.") hdf and alignment.")
(license license:bsd-3))) (license license:bsd-3)))
(define-public blasr
(package
(name "blasr")
(version "5.3.3")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/PacificBiosciences/blasr.git")
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32
"1skgy2mvz8gsgfh1gc2nfgwvpyzb1hpmp2cf2773h5wsj8nw22kl"))))
(build-system meson-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'link-with-hdf5
(lambda* (#:key inputs #:allow-other-keys)
(let ((hdf5 (assoc-ref inputs "hdf5")))
(substitute* "meson.build"
(("blasr_deps = \\[" m)
(string-append
m
(format #f "cpp.find_library('hdf5', dirs : '~a'), \
cpp.find_library('hdf5_cpp', dirs : '~a'), "
hdf5 hdf5)))))
#t)))
;; Tests require "cram" executable, which is not packaged.
#:tests? #f
#:configure-flags '("-Dtests=false")))
(inputs
`(("boost" ,boost)
("blasr-libcpp" ,blasr-libcpp)
("hdf5" ,hdf5)
("pbbam" ,pbbam)
("zlib" ,zlib)))
(native-inputs
`(("pkg-config" ,pkg-config)))
(home-page "")
(synopsis "PacBio long read aligner")
(description
"Blasr is a genomic sequence aligner for processing PacBio long reads.")
(license license:bsd-3)))
(define-public ribotaper (define-public ribotaper
(package (package
(name "ribotaper") (name "ribotaper")