BiobaseXNA-0.8.3.0: BiobaseXNA.cabal

name:           BiobaseXNA
version:        0.8.3.0
author:         Christian Hoener zu Siederdissen
maintainer:     choener@tbi.univie.ac.at
homepage:       http://www.tbi.univie.ac.at/~choener/
copyright:      Christian Hoener zu Siederdissen, 2011-2014
category:       Bioinformatics
synopsis:       Efficient RNA/DNA representations
license:        GPL-3
license-file:   LICENSE
build-type:     Simple
stability:      experimental
cabal-version:  >= 1.6.0
description:
                This is a base library for bioinformatics with emphasis on RNA
                and DNA primary structure as well as amino acid sequences.
                .
                Provided are efficient encodings for short sequences, as
                required by RNA folding tools. Extended RNA secondary
                structures can be represented as well.
                .
                Contains data from:
                .
                @
                Frequency and isostericity of RNA base pairs
                Jesse Stombaugh, Craig L. Zirbel, Eric Westhof, and Neocles B. Leontis
                Nucl. Acids Res. (2009)
                @
                .
                <http://dx.crossref.org/10.1093%2Fnar%2Fgkp011>



extra-source-files:
  sources/isostericity-matrices.csv
  sources/isostericity-detailed.csv
  sources/iupac-nucleotides
  changelog

library
  build-depends:
    base >3 && <5,
    bytestring      >= 0.10           ,
    containers      >= 0.4            ,
    csv             >= 0.1.2          ,
    file-embed      >= 0.0.4.7        ,
    mtl             >= 2.1            ,
    primitive       >= 0.5            ,
    PrimitiveArray  >= 0.5.4          ,
    repa            >= 3.2            ,
    text            >= 0.11           ,
    tuple           >= 0.2            ,
    vector          >= 0.10           ,
    vector-th-unbox >= 0.2

  exposed-modules:
    Biobase.AAseq
    Biobase.Primary
    Biobase.Primary.Bounds
    Biobase.Primary.Hashed
    Biobase.Primary.IUPAC
    Biobase.Secondary
    Biobase.Secondary.Constraint
    Biobase.Secondary.Diagrams
    Biobase.Secondary.Isostericity
    Biobase.Secondary.PseudoKnots
    Biobase.Secondary.Vienna

  ghc-options:
    -O2 -funbox-strict-fields

executable SubOptDistance
  build-depends:
    cmdargs >= 0.10
  main-is:
    SubOptDistance.hs
  ghc-options:
    -O2

source-repository head
  type: git
  location: git://github.com/choener/BiobaseXNA