diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 87 |
1 files changed, 87 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 43220d22fe..ab9dc185a3 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -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))) |