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gnu: Add ngless.

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* gnu/packages/bioinformatics.scm (ngless): New variable.
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Ricardo Wurmus 2018-10-02 18:38:14 +02:00 committed by Ricardo Wurmus
parent b1f9cc88c4
commit d71078bc75
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@ -38,6 +38,7 @@
#:use-module (guix build-system ant)
#:use-module (guix build-system gnu)
#:use-module (guix build-system cmake)
#:use-module (guix build-system haskell)
#:use-module (guix build-system ocaml)
#:use-module (guix build-system perl)
#:use-module (guix build-system python)
@ -72,6 +73,8 @@
#:use-module (gnu packages groff)
#:use-module (gnu packages guile)
#:use-module (gnu packages haskell)
#:use-module (gnu packages haskell-check)
#:use-module (gnu packages haskell-web)
#:use-module (gnu packages image)
#:use-module (gnu packages imagemagick)
#:use-module (gnu packages java)
@ -13970,3 +13973,87 @@ enrichment analysis (GSEA) calculation with or without the absolute filtering.
Without filtering, users can perform (original) two-tailed or one-tailed
absolute GSEA.")
(license license:gpl2)))
(define-public ngless
(package
(name "ngless")
(version "0.9.1")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://gitlab.com/ngless/ngless.git")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32
"0mc2gi7h4lx74zylvyp76mvc0w6706j858ii9vlgzqsw6acpr117"))))
(build-system haskell-build-system)
(arguments
`(#:haddock? #f ; The haddock phase fails with: NGLess/CmdArgs.hs:20:1:
; error: parse error on input import
; import Options.Applicative
#:phases
(modify-phases %standard-phases
(add-after 'unpack 'create-cabal-file
(lambda _ (invoke "hpack") #t)))))
(inputs
`(("ghc-aeson" ,ghc-aeson)
("ghc-ansi-terminal" ,ghc-ansi-terminal)
("ghc-async" ,ghc-async)
("ghc-atomic-write" ,ghc-atomic-write)
("ghc-bytestring-lexing" ,ghc-bytestring-lexing)
("ghc-chart" ,ghc-chart)
("ghc-chart-cairo" ,ghc-chart-cairo)
("ghc-conduit" ,ghc-conduit)
("ghc-conduit-algorithms" ,ghc-conduit-algorithms)
("ghc-conduit-combinators" ,ghc-conduit-combinators)
("ghc-conduit-extra" ,ghc-conduit-extra)
("ghc-configurator" ,ghc-configurator)
("ghc-convertible" ,ghc-convertible)
("ghc-data-default" ,ghc-data-default)
("ghc-double-conversion" ,ghc-double-conversion)
("ghc-edit-distance" ,ghc-edit-distance)
("ghc-either" ,ghc-either)
("ghc-errors" ,ghc-errors)
("ghc-extra" ,ghc-extra)
("ghc-filemanip" ,ghc-filemanip)
("ghc-file-embed" ,ghc-file-embed)
("ghc-gitrev" ,ghc-gitrev)
("ghc-hashtables" ,ghc-hashtables)
("ghc-http-conduit" ,ghc-http-conduit)
("ghc-inline-c" ,ghc-inline-c)
("ghc-inline-c-cpp" ,ghc-inline-c-cpp)
("ghc-intervalmap" ,ghc-intervalmap)
("ghc-missingh" ,ghc-missingh)
("ghc-optparse-applicative" ,ghc-optparse-applicative)
("ghc-parsec" ,ghc-parsec)
("ghc-regex" ,ghc-regex)
("ghc-safe" ,ghc-safe)
("ghc-safeio" ,ghc-safeio)
("ghc-strict" ,ghc-strict)
("ghc-tar" ,ghc-tar)
("ghc-text" ,ghc-text)
("ghc-unliftio" ,ghc-unliftio)
("ghc-unliftio-core" ,ghc-unliftio-core)
("ghc-vector" ,ghc-vector)
("ghc-yaml" ,ghc-yaml)
("ghc-zlib" ,ghc-zlib)))
(propagated-inputs
`(("r-r6" ,r-r6)
("r-hdf5r" ,r-hdf5r)
("r-iterators" ,r-iterators)
("r-itertools" ,r-itertools)
("r-matrix" ,r-matrix)))
(native-inputs
`(("ghc-hpack" ,ghc-hpack)
("ghc-quickcheck" ,ghc-quickcheck)
("ghc-test-framework" ,ghc-test-framework)
("ghc-test-framework-hunit",ghc-test-framework-hunit)
("ghc-test-framework-quickcheck2" ,ghc-test-framework-quickcheck2)
("ghc-test-framework-th" ,ghc-test-framework-th)))
(home-page "https://gitlab.com/ngless/ngless")
(synopsis "DSL for processing next-generation sequencing data")
(description "Ngless is a domain-specific language for
@dfn{next-generation sequencing} (NGS) data processing.")
(license license:expat)))