cobot-io 0.1.3.19 → 0.1.3.20

raw patch · 3 files changed

+35/−14 lines, 3 filesPVP ok

version bump matches the API change (PVP)

API changes (from Hackage documentation)

Files

• ChangeLog.md +4/−0
• cobot-io.cabal +29/−12
• src/Bio/FASTA/Parser.hs +2/−2

@@ -2,6 +2,10 @@  ## [Unreleased] +## [0.1.3.20] - 2021-06-04+### Changed +- YLAB2-629: Fasta parser is now able to parse empty lines in the beginning. + ## [0.1.3.19] - 2021-04-30 ### Changed  - Exports and instances for Biosset. 

@@ -1,13 +1,11 @@ cabal-version: 1.12 --- This file has been generated from package.yaml by hpack version 0.33.0.+-- This file has been generated from package.yaml by hpack version 0.34.4. -- -- see: https://github.com/sol/hpack------ hash: 543c70618887552cd7833594bf0cb48d233a34c25568ca9cd5ddcf6a3914a5c5  name:           cobot-io-version:        0.1.3.19+version:        0.1.3.20 synopsis:       Biological data file formats and IO description:    Please see the README on GitHub at <https://github.com/biocad/cobot-io#readme> category:       Bio@@ -75,17 +73,34 @@       Paths_cobot_io   hs-source-dirs:       src-  default-extensions: DeriveGeneric DeriveFunctor DeriveFoldable DeriveAnyClass FlexibleInstances InstanceSigs MultiParamTypeClasses RecordWildCards ScopedTypeVariables OverloadedStrings TypeApplications TypeFamilies DataKinds ConstraintKinds TypeOperators TemplateHaskell FlexibleContexts+  default-extensions:+      DeriveGeneric+      DeriveFunctor+      DeriveFoldable+      DeriveAnyClass+      FlexibleInstances+      InstanceSigs+      MultiParamTypeClasses+      RecordWildCards+      ScopedTypeVariables+      OverloadedStrings+      TypeApplications+      TypeFamilies+      DataKinds+      ConstraintKinds+      TypeOperators+      TemplateHaskell+      FlexibleContexts   build-depends:-      array >=0.5 && <0.6+      array ==0.5.*     , attoparsec >=0.10 && <0.14     , base >=4.7 && <5     , binary >=0.8.3.0 && <1.0     , bytestring >=0.10.8.1 && <0.11     , containers >=0.5.7.1 && <0.7     , data-msgpack >=0.0.9 && <0.1-    , deepseq >=1.4 && <1.5-    , http-conduit >=2.3 && <2.4+    , deepseq ==1.4.*+    , http-conduit ==2.3.*     , hyraxAbif >=0.2.3.15 && <0.2.4.0     , lens >=4.16 && <5.0     , linear >=1.20 && <1.22@@ -117,11 +132,13 @@       Paths_cobot_io   hs-source-dirs:       test-  default-extensions: OverloadedStrings TypeFamilies+  default-extensions:+      OverloadedStrings+      TypeFamilies   ghc-options: -threaded -rtsopts -with-rtsopts=-N   build-depends:       QuickCheck >=2.9.2 && <2.15-    , array >=0.5 && <0.6+    , array ==0.5.*     , attoparsec >=0.10 && <0.14     , base >=4.7 && <5     , binary >=0.8.3.0 && <1.0@@ -129,10 +146,10 @@     , cobot-io     , containers >=0.5.7.1 && <0.7     , data-msgpack >=0.0.9 && <0.1-    , deepseq >=1.4 && <1.5+    , deepseq ==1.4.*     , directory     , hspec >=2.4.1 && <2.8-    , http-conduit >=2.3 && <2.4+    , http-conduit ==2.3.*     , hyraxAbif >=0.2.3.15 && <0.2.4.0     , lens >=4.16 && <5.0     , linear

@@ -12,7 +12,7 @@ import Bio.Sequence         (BareSequence, bareSequence) import Control.Applicative  ((<|>)) import Data.Attoparsec.Text (Parser, char, choice, endOfInput, endOfLine, many', many1', satisfy,-                             skipWhile, string, takeWhile, try)+                             skipWhile, space, string, takeWhile, try) import Data.Char            (isAlphaNum, isLetter, isSpace) import Data.Text            (Text, strip) import Prelude              hiding (takeWhile)@@ -27,7 +27,7 @@ -- | Parser of .fasta file. -- fastaP :: ParsableFastaToken a => Parser (Fasta a)-fastaP = fastaPGeneric isLetter+fastaP = many' space *> fastaPGeneric isLetter  fastaPGeneric :: ParsableFastaToken a => (Char -> Bool) -> Parser (Fasta a) fastaPGeneric = many' . item