cabal-version:      3.0
-- The cabal-version field refers to the version of the .cabal specification,
-- and can be different from the cabal-install (the tool) version and the
-- Cabal (the library) version you are using. As such, the Cabal (the library)
-- version used must be equal or greater than the version stated in this field.
-- Starting from the specification version 2.2, the cabal-version field must be
-- the first thing in the cabal file.

-- Initial package description 'hs-samtools' generated by
-- 'cabal init'. For further documentation, see:
--   http://haskell.org/cabal/users-guide/
--
-- The name of the package.
name:               hs-samtools

-- The package version.
-- See the Haskell package versioning policy (PVP) for standards
-- guiding when and how versions should be incremented.
-- https://pvp.haskell.org
-- PVP summary:     +-+------- breaking API changes
--                  | | +----- non-breaking API additions
--                  | | | +--- code changes with no API change
version:            0.9.0.0

-- A short (one-line) description of the package.
synopsis: Read and write SAM, BAM, and CRAM files.

-- A longer description of the package.
description: A SAM, BAM, and CRAM file decoder/encoded along with various related functionality associated with these file formats.

-- URL for the project homepage or repository.
homepage:           https://github.com/Matthew-Mosior/hs-samtools

-- The license under which the package is released.
license:            BSD-3-Clause

-- The file containing the license text.
license-file:       LICENSE

-- The package author(s).
author:             Matthew Mosior

-- An email address to which users can send suggestions, bug reports, and patches.
maintainer:         mattm.github@gmail.com

-- Where to submit bugs.
bug-reports:        https://github.com/Matthew-Mosior/hs-samtools/issues

-- A copyright notice.
-- copyright:
category:           Bioinformatics
build-type:         Simple

-- Extra doc files to be distributed with the package, such as a CHANGELOG or a README.
extra-doc-files:    CHANGELOG.md

-- Extra source files to be distributed with the package, such as examples, or a tutorial module.
-- extra-source-files:

common warnings
    ghc-options: -Wall

library
    -- Import common warning flags.
    import:           warnings

    -- Modules exported by the library.
    exposed-modules: Data.SAM.Version1_6.Base,
                     Data.SAM.Version1_6.Alignment,
                     Data.SAM.Version1_6.Alignment.Base,
                     Data.SAM.Version1_6.Alignment.AOPT,
                     Data.SAM.Version1_6.Alignment.FOPT,
                     Data.SAM.Version1_6.Alignment.HOPT,
                     Data.SAM.Version1_6.Alignment.IOPT,
                     Data.SAM.Version1_6.Alignment.ZOPT,
                     Data.SAM.Version1_6.Alignment.BOPT,
                     Data.SAM.Version1_6.Header, 
                     Data.SAM.Version1_6.Header.CO,
                     Data.SAM.Version1_6.Header.HD,
                     Data.SAM.Version1_6.Header.PG,
                     Data.SAM.Version1_6.Header.RG,
                     Data.SAM.Version1_6.Header.SQ,
                     Data.SAM.Version1_6.Read.Base,
                     Data.SAM.Version1_6.Read.Error,
                     Data.SAM.Version1_6.Read.Parser.Alignment.Base,
                     Data.SAM.Version1_6.Read.Parser.Alignment.AOPT,
                     Data.SAM.Version1_6.Read.Parser.Alignment.IOPT,
                     Data.SAM.Version1_6.Read.Parser.Alignment.FOPT,
                     Data.SAM.Version1_6.Read.Parser.Alignment.ZOPT,
                     Data.SAM.Version1_6.Read.Parser.Alignment.HOPT,
                     Data.SAM.Version1_6.Read.Parser.Alignment.BOPT,
                     Data.SAM.Version1_6.Read.Parser.Header.HD.Base,
                     Data.SAM.Version1_6.Read.Parser.Header.HD.VN,
                     Data.SAM.Version1_6.Read.Parser.Header.HD.SO,
                     Data.SAM.Version1_6.Read.Parser.Header.HD.GO,
                     Data.SAM.Version1_6.Read.Parser.Header.HD.SS,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.Base,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.SN,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.LN,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.AH,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.AN,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.AS,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.DS,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.M5,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.SP,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.TP,
                     Data.SAM.Version1_6.Read.Parser.Header.SQ.UR,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.Base,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.ID,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.BC,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.CN,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.DS,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.DT,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.FO,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.KS,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.LB,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.PG,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.PI,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.PL,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.PM,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.PU,
                     Data.SAM.Version1_6.Read.Parser.Header.RG.SM,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.Base,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.ID,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.PN,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.CL,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.PP,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.DS,
                     Data.SAM.Version1_6.Read.Parser.Header.PG.VN,
                     Data.SAM.Version1_6.Read.Parser.Header.CO.Base,
                     Data.SAM.Version1_6.Write.Base

    -- Modules included in this library but not exported.
    -- other-modules:

    -- LANGUAGE extensions used by modules in this package.
    -- other-extensions:

    -- Other library packages from which modules are imported.
    build-depends:    base                 ^>=4.17.1.0, 
                      ascii                >= 1.7.0 && < 1.8,
                      attoparsec           >= 0.14.4 && < 0.15,
                      bitvec               >= 1.1.4 && < 1.2,
                      bytestring           >= 0.11.4 && < 0.12,
                      containers           >= 0.6.7 && < 0.7,
                      crypton              >= 0.33 && < 0.34,
                      generic-deriving     >= 1.14.5 && < 1.15,
                      parser-combinators   >= 1.3.0 && < 1.4,
                      pcre-heavy           >= 1.0.0 && < 1.1,
                      regex-tdfa           >= 1.3.2 && < 1.4,
                      streamly             >= 0.9.0 && < 0.10,
                      streamly-bytestring  >= 0.2.0 && < 0.3,
                      streamly-core        >= 0.1.0 && < 0.2 

    -- Directories containing source files.
    hs-source-dirs:   src

    -- Base language which the package is written in.
    default-language: Haskell2010

test-suite hs-samtools-test
    -- Import common warning flags.
    import:           warnings

    -- Base language which the package is written in.
    default-language: Haskell2010

    -- Modules included in this executable, other than Main.
    -- other-modules:

    -- LANGUAGE extensions used by modules in this package.
    -- other-extensions:

    -- The interface type and version of the test suite.
    type:             exitcode-stdio-1.0

    -- Directories containing source files.
    hs-source-dirs:   test

    -- The entrypoint to the test suite.
    main-is:          Main.hs

    -- Test dependencies.
    build-depends: base ^>=4.17.1.0,
                   bytestring,
                   containers,
                   hspec,
                   hs-samtools