gnu: Add tabixpp.

* gnu/packages/bioinformatics.scm (tabixpp): New variable.
master
Pierre Neidhardt 2019-05-18 19:26:34 +02:00 committed by Efraim Flashner
parent 8378c87a59
commit 62a031afc4
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1 changed files with 40 additions and 0 deletions

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@ -14827,3 +14827,43 @@ trees by inserting random mutations. The tbsp package implements an
alternative method to detect significant, cell type specific sequence
mutations from scRNA-Seq data.")
(license license:expat))))
(define-public tabixpp
(package
(name "tabixpp")
(version "1.0.0")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/ekg/tabixpp")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "08vx6nsipk971cyr8z53rnzwkvlld63kcn1fw0pwddynz91xfny8"))))
(build-system gnu-build-system)
(inputs
`(("htslib" ,htslib)
("zlib" ,zlib)))
(arguments
`(#:tests? #f ; There are no tests to run.
#:phases
(modify-phases %standard-phases
(delete 'configure) ; There is no configure phase.
;; The build phase needs overriding the location of htslib.
(replace 'build
(lambda* (#:key inputs #:allow-other-keys)
(let ((htslib-ref (assoc-ref inputs "htslib")))
(invoke "make"
(string-append "HTS_LIB=" htslib-ref "/lib/libhts.a")
"HTS_HEADERS=" ; No need to check for headers here.
(string-append "LIBPATH=-L. -L" htslib-ref "/include")))))
(replace 'install
(lambda* (#:key outputs #:allow-other-keys)
(let ((bin (string-append (assoc-ref outputs "out") "/bin")))
(install-file "tabix++" bin))
#t)))))
(home-page "https://github.com/ekg/tabixpp")
(synopsis "C++ wrapper around tabix project")
(description "This is a C++ wrapper around the Tabix project which abstracts
some of the details of opening and jumping in tabix-indexed files.")
(license license:expat)))