cabal-version: >=1.10
name: too-many-cells
version: 0.1.12.3
license: GPL-3
license-file: LICENSE
copyright: 2019 Gregory W. Schwartz
maintainer: gsch@pennmedicine.upenn.edu
author: Gregory W. Schwartz
homepage: http://github.com/GregorySchwartz/too-many-cells#readme
synopsis: Cluster single cells and analyze cell clade relationships.
description:
    Different methods to cluster and analyze single cell data with diversity indices and differential expression.
category: Bioinformatics
build-type: Simple

source-repository head
    type: git
    location: https://github.com/GregorySchwartz/too-many-cells

library
    exposed-modules:
        TooManyCells.Diversity.Diversity
        TooManyCells.Differential.Differential
        TooManyCells.Differential.Types
        TooManyCells.Diversity.Load
        TooManyCells.Diversity.Plot
        TooManyCells.Diversity.Types
        TooManyCells.File.Types
        TooManyCells.MakeTree.Adjacency
        TooManyCells.MakeTree.Clumpiness
        TooManyCells.MakeTree.Cluster
        TooManyCells.MakeTree.Load
        TooManyCells.MakeTree.Plot
        TooManyCells.MakeTree.Print
        TooManyCells.MakeTree.Types
        TooManyCells.Matrix.AtacSeq
        TooManyCells.Matrix.Load
        TooManyCells.Matrix.Preprocess
        TooManyCells.Matrix.Types
        TooManyCells.Matrix.Utility
        TooManyCells.Paths.Distance
        TooManyCells.Paths.Plot
        TooManyCells.Paths.Types
        TooManyCells.Program.Options
        TooManyCells.Program.LoadMatrix
        TooManyCells.Program.MakeTree
        TooManyCells.Program.Interactive
        TooManyCells.Program.Differential
        TooManyCells.Program.Diversity
        TooManyCells.Program.Paths
        TooManyCells.Program.Utility
    hs-source-dirs: src
    default-language: Haskell2010
    ghc-options: -O2
    build-depends:
        base >=4.7 && <5,
        SVGFonts >=1.6.0.3,
        aeson >=1.4.0.0,
        attoparsec >=0.13.1.0,
        birch-beer >=0.1.4.4,
        bytestring >=0.10.8.2,
        cassava >=0.5.1.0,
        colour >=2.3.4,
        containers >=0.5.11.0,
        deepseq >=1.4.3.0,
        diagrams >=1.4,
        diagrams-cairo >=1.4.1,
        diagrams-graphviz >=1.4.1,
        diagrams-lib >=1.4.2.3,
        differential >=0.1.2.0,
        directory >=1.3.1.5,
        diversity >=0.8.1.0,
        fgl >=5.6.0.0,
        filepath >=1.4.2,
        find-clumpiness >=0.2.3.1,
        foldl >=1.4.2,
        graphviz >=2999.20.0.2,
        hierarchical-clustering >=0.4.6,
        hierarchical-spectral-clustering >=0.4.1.2,
        hmatrix >=0.19.0.0,
        inline-r >=0.9.2,
        lens >=4.16.1,
        managed >=1.0.6,
        matrix-market-attoparsec >=0.1.0.8,
        modularity >=0.2.1.1,
        mtl >=2.2.2,
        optparse-generic >=1.3.0,
        palette >=0.3.0.1,
        parallel >=3.2.1.1,
        plots >=0.1.1.0,
        safe >=0.3.17,
        scientific >=0.3.6.2,
        sparse-linear-algebra >=0.3.1,
        spectral-clustering >=0.3.0.2,
        split >=0.2.3.3,
        statistics >=0.14.0.2,
        streaming >=0.2.1.0,
        streaming-bytestring >=0.1.6,
        streaming-cassava >=0.1.0.1,
        streaming-utils >=0.1.4.7,
        streaming-with >=0.2.2.1,
        temporary >=1.3,
        terminal-progress-bar >=0.2,
        text >=1.2.3.0,
        text-show >=3.7.4,
        transformers >=0.5.5.0,
        vector >=0.12.0.1,
        vector-algorithms >=0.7.0.1,
        zlib >=0.6.2

executable too-many-cells
    main-is: Main.hs
    hs-source-dirs: app
    default-language: Haskell2010
    ghc-options: -threaded -rtsopts -O2
    build-depends:
        base >=4.11.1.0,
        too-many-cells -any,
        optparse-generic >=1.3.0