diff --git a/ChangeLog.md b/ChangeLog.md --- a/ChangeLog.md +++ b/ChangeLog.md @@ -2,6 +2,15 @@ ## Unreleased changes +## [0.1.1.4] - 2020-04-30 +### Fixed +- Tweak `package.yaml` to make `stack-2.3.1` happy. + +## [0.1.1.3] - 2020-04-30 +### Fixed +- Change Hackage upload command to `--pvp-bounds upper` instead of `both` to fix plan construction + for older GHCs. This is needed to fix haddocks building on Hackage. + ## [0.1.1.2] - 2020-04-15 ### Changed - Resolver version up. diff --git a/cobot.cabal b/cobot.cabal --- a/cobot.cabal +++ b/cobot.cabal @@ -1,138 +1,131 @@ -cabal-version: 1.12 -name: cobot -version: 0.1.1.2 -license: BSD3 -license-file: LICENSE -copyright: 2018—2019, Less Wrong Bio -maintainer: pavel@yakovlev.me -author: Pavel Yakovlev, Bogdan Neterebskii, Alexander Sadovnikov -homepage: https://github.com/biocad/cobot#readme -bug-reports: https://github.com/biocad/cobot/issues -synopsis: Computational biology toolkit to collaborate with researchers in constructive protein engineering -description: - Please see the README on GitHub at -category: Bio -build-type: Simple +cabal-version: 2.2 + +-- This file has been generated from package.yaml by hpack version 0.33.0. +-- +-- see: https://github.com/sol/hpack +-- +-- hash: 4089a1d80a81d96aba9533cda10ea42186142528d17846553acc98dcd7bf43b0 + +name: cobot +version: 0.1.1.4 +synopsis: Computational biology toolkit to collaborate with researchers in constructive protein engineering +description: Please see the README on GitHub at +category: Bio +homepage: https://github.com/biocad/cobot#readme +bug-reports: https://github.com/biocad/cobot/issues +author: Pavel Yakovlev, Bogdan Neterebskii, Alexander Sadovnikov +maintainer: pavel@yakovlev.me +copyright: 2018—2019, Less Wrong Bio +license: BSD-3-Clause +license-file: LICENSE +build-type: Simple extra-source-files: README.md ChangeLog.md source-repository head - type: git - location: https://github.com/biocad/cobot + type: git + location: https://github.com/biocad/cobot library - exposed-modules: - Bio.Chain - Bio.Chain.Alignment - Bio.Chain.Alignment.Algorithms - Bio.Chain.Alignment.Scoring - Bio.Chain.Alignment.Scoring.Loader - Bio.Chain.Alignment.Scoring.TH - Bio.Chain.Alignment.Type - Bio.Molecule - Bio.NucleicAcid.Chain - Bio.NucleicAcid.Nucleotide - Bio.NucleicAcid.Nucleotide.Instances - Bio.NucleicAcid.Nucleotide.Type - Bio.Protein.Algebra - Bio.Protein.AminoAcid - Bio.Protein.AminoAcid.Instances - Bio.Protein.AminoAcid.Type - Bio.Protein.Chain - Bio.Protein.Chain.Builder - Bio.Protein.Metric - Bio.Utils.Geometry - Bio.Utils.IUPAC - Bio.Utils.Matrix - Bio.Utils.Monomer - hs-source-dirs: src - other-modules: - Paths_cobot - default-language: Haskell2010 - default-extensions: AllowAmbiguousTypes ConstraintKinds - DeriveFoldable DeriveFunctor DeriveGeneric DeriveTraversable - FlexibleContexts FlexibleInstances GeneralizedNewtypeDeriving - MultiWayIf RankNTypes RecordWildCards ScopedTypeVariables - TypeApplications TypeFamilies TypeSynonymInstances - UndecidableInstances - build-depends: - array >=0.5.4.0 && <0.6, - base >=4.7 && <5, - bytestring >=0.10.10.0 && <0.11, - containers >=0.6.2.1 && <0.7, - deepseq >=1.4.4.0 && <1.5, - lens >=4.18.1 && <4.19, - linear >=1.20.9 && <1.21, - megaparsec >=8.0.0 && <8.1, - mtl >=2.2.2 && <2.3, - split >=0.2.3.4 && <0.3, - template-haskell >=2.15.0.0 && <2.16, - text >=1.2.4.0 && <1.3 + exposed-modules: + Bio.Chain + Bio.Chain.Alignment + Bio.Chain.Alignment.Algorithms + Bio.Chain.Alignment.Scoring + Bio.Chain.Alignment.Scoring.Loader + Bio.Chain.Alignment.Scoring.TH + Bio.Chain.Alignment.Type + Bio.Molecule + Bio.NucleicAcid.Chain + Bio.NucleicAcid.Nucleotide + Bio.NucleicAcid.Nucleotide.Instances + Bio.NucleicAcid.Nucleotide.Type + Bio.Protein.Algebra + Bio.Protein.AminoAcid + Bio.Protein.AminoAcid.Instances + Bio.Protein.AminoAcid.Type + Bio.Protein.Chain + Bio.Protein.Chain.Builder + Bio.Protein.Metric + Bio.Utils.Geometry + Bio.Utils.IUPAC + Bio.Utils.Matrix + Bio.Utils.Monomer + Paths_cobot + autogen-modules: + Paths_cobot + hs-source-dirs: + src + default-extensions: AllowAmbiguousTypes ConstraintKinds DeriveFoldable DeriveFunctor DeriveGeneric DeriveTraversable FlexibleContexts FlexibleInstances GeneralizedNewtypeDeriving MultiWayIf RankNTypes RecordWildCards ScopedTypeVariables TypeApplications TypeFamilies TypeSynonymInstances UndecidableInstances + build-depends: + array + , base >=4.7 && <5 + , bytestring + , containers + , deepseq + , lens + , linear + , megaparsec + , mtl + , split + , template-haskell + , text + default-language: Haskell2010 test-suite cobot-test - type: exitcode-stdio-1.0 - main-is: Spec.hs - hs-source-dirs: test - other-modules: - HandcraftedSpec - JuliaSpec - Paths_cobot - default-language: Haskell2010 - default-extensions: AllowAmbiguousTypes ConstraintKinds - DeriveFoldable DeriveFunctor DeriveGeneric DeriveTraversable - FlexibleContexts FlexibleInstances GeneralizedNewtypeDeriving - MultiWayIf RankNTypes RecordWildCards ScopedTypeVariables - TypeApplications TypeFamilies TypeSynonymInstances - UndecidableInstances - ghc-options: -threaded -rtsopts - "-with-rtsopts=-A64m -qb0 -I0 -N -qn4" - build-depends: - array >=0.5.4.0 && <0.6, - base >=4.7 && <5, - bytestring >=0.10.10.0 && <0.11, - cobot -any, - containers >=0.6.2.1 && <0.7, - deepseq >=1.4.4.0 && <1.5, - hspec >=2.7.1 && <2.8, - lens >=4.18.1 && <4.19, - linear >=1.20.9 && <1.21, - megaparsec >=8.0.0 && <8.1, - mtl >=2.2.2 && <2.3, - split >=0.2.3.4 && <0.3, - template-haskell >=2.15.0.0 && <2.16, - text >=1.2.4.0 && <1.3 + type: exitcode-stdio-1.0 + main-is: Spec.hs + other-modules: + HandcraftedSpec + JuliaSpec + Paths_cobot + hs-source-dirs: + test + default-extensions: AllowAmbiguousTypes ConstraintKinds DeriveFoldable DeriveFunctor DeriveGeneric DeriveTraversable FlexibleContexts FlexibleInstances GeneralizedNewtypeDeriving MultiWayIf RankNTypes RecordWildCards ScopedTypeVariables TypeApplications TypeFamilies TypeSynonymInstances UndecidableInstances + ghc-options: -threaded -rtsopts "-with-rtsopts=-A64m -qb0 -I0 -N -qn4" + build-depends: + array + , base >=4.7 && <5 + , bytestring + , cobot + , containers + , deepseq + , hspec + , lens + , linear + , megaparsec + , mtl + , split + , template-haskell + , text + default-language: Haskell2010 benchmark cobot-bench - type: exitcode-stdio-1.0 - main-is: Main.hs - hs-source-dirs: bench - other-modules: - Paths_cobot - default-language: Haskell2010 - default-extensions: AllowAmbiguousTypes ConstraintKinds - DeriveFoldable DeriveFunctor DeriveGeneric DeriveTraversable - FlexibleContexts FlexibleInstances GeneralizedNewtypeDeriving - MultiWayIf RankNTypes RecordWildCards ScopedTypeVariables - TypeApplications TypeFamilies TypeSynonymInstances - UndecidableInstances OverloadedStrings - ghc-options: -threaded -rtsopts - "-with-rtsopts=-A64m -qb0 -I0 -N -qn4" - build-depends: - array >=0.5.4.0 && <0.6, - base >=4.7 && <5, - bytestring >=0.10.10.0 && <0.11, - clock ==0.8.*, - cobot -any, - containers >=0.6.2.1 && <0.7, - criterion >=1.5.6.2 && <1.6, - deepseq >=1.4.4.0 && <1.5, - lens >=4.18.1 && <4.19, - linear >=1.20.9 && <1.21, - megaparsec >=8.0.0 && <8.1, - mtl >=2.2.2 && <2.3, - parallel >=3.2.2.0 && <3.3, - random ==1.1.*, - split >=0.2.3.4 && <0.3, - template-haskell >=2.15.0.0 && <2.16, - text >=1.2.4.0 && <1.3 + type: exitcode-stdio-1.0 + main-is: Main.hs + other-modules: + Paths_cobot + hs-source-dirs: + bench + default-extensions: AllowAmbiguousTypes ConstraintKinds DeriveFoldable DeriveFunctor DeriveGeneric DeriveTraversable FlexibleContexts FlexibleInstances GeneralizedNewtypeDeriving MultiWayIf RankNTypes RecordWildCards ScopedTypeVariables TypeApplications TypeFamilies TypeSynonymInstances UndecidableInstances OverloadedStrings + ghc-options: -threaded -rtsopts "-with-rtsopts=-A64m -qb0 -I0 -N -qn4" + build-depends: + array + , base >=4.7 && <5 + , bytestring + , clock + , cobot + , containers + , criterion + , deepseq + , lens + , linear + , megaparsec + , mtl + , parallel + , random + , split + , template-haskell + , text + default-language: Haskell2010