diff options
| author | Gabor Pali <pgj@FreeBSD.org> | 2014-08-10 22:34:50 +0000 |
|---|---|---|
| committer | Gabor Pali <pgj@FreeBSD.org> | 2014-08-10 22:34:50 +0000 |
| commit | cc555442337c7591ab5c3fd19ad8e3e185a256b0 (patch) | |
| tree | a6a0dfa4f440949889fc7b609c83f74555f6894e /science | |
| parent | 5e492199d1e024a681c6d21087c8d948cb3b7bc3 (diff) | |
Notes
Diffstat (limited to 'science')
| -rw-r--r-- | science/hs-bio/Makefile | 5 | ||||
| -rw-r--r-- | science/hs-bio/distinfo | 4 | ||||
| -rw-r--r-- | science/hs-bio/files/patch-Bio__GFF3__FeatureHierSequences.hs | 19 |
3 files changed, 4 insertions, 24 deletions
diff --git a/science/hs-bio/Makefile b/science/hs-bio/Makefile index ea05d11bf4ea..63364b313112 100644 --- a/science/hs-bio/Makefile +++ b/science/hs-bio/Makefile @@ -2,8 +2,7 @@ # $FreeBSD$ PORTNAME= bio -PORTVERSION= 0.5.2 -PORTREVISION= 8 +PORTVERSION= 0.5.3 CATEGORIES= science haskell MAINTAINER= haskell@FreeBSD.org @@ -11,7 +10,7 @@ COMMENT= Bioinformatics library LICENSE= LGPL21 -USE_CABAL= mtl parallel parsec QuickCheck>=2 tagsoup>=0.8 +USE_CABAL= mtl parallel parsec QuickCheck>=2 random tagsoup>=0.8 EXECUTABLE= fastout flowclip flx frecover frename orf rselect-pe diff --git a/science/hs-bio/distinfo b/science/hs-bio/distinfo index 5baf5e856109..f4b6aab534a3 100644 --- a/science/hs-bio/distinfo +++ b/science/hs-bio/distinfo @@ -1,2 +1,2 @@ -SHA256 (cabal/bio-0.5.2.tar.gz) = a3e10bef6bfa5187e34bdc1eac7616e7d4ef926173e95b73170f7580bda74070 -SIZE (cabal/bio-0.5.2.tar.gz) = 102316 +SHA256 (cabal/bio-0.5.3.tar.gz) = 42c8f9b83fea6bf51356afe1251910ba4421e0af0bb4f26431eaf385971d7eed +SIZE (cabal/bio-0.5.3.tar.gz) = 103707 diff --git a/science/hs-bio/files/patch-Bio__GFF3__FeatureHierSequences.hs b/science/hs-bio/files/patch-Bio__GFF3__FeatureHierSequences.hs deleted file mode 100644 index 6f83130df055..000000000000 --- a/science/hs-bio/files/patch-Bio__GFF3__FeatureHierSequences.hs +++ /dev/null @@ -1,19 +0,0 @@ ---- ./Bio/GFF3/FeatureHierSequences.hs.orig 2012-02-23 14:45:38.000000000 +0100 -+++ ./Bio/GFF3/FeatureHierSequences.hs 2013-05-01 00:28:58.000000000 +0200 -@@ -15,6 +15,7 @@ - import qualified Data.Map as M - import Data.Maybe - import qualified Data.Set as S -+import System.IO.Error (catchIOError) - - import Bio.Sequence.SeqData - import Bio.Sequence.Fasta -@@ -72,7 +73,7 @@ - return $ Seq seqname sequ Nothing - - catchIOErrors :: IO a -> ErrorT String IO a --catchIOErrors m = ErrorT { runErrorT = liftM Right m `catch` (return . Left . show) } -+catchIOErrors m = ErrorT { runErrorT = liftM Right m `catchIOError` (return . Left . show) } - - runGFF :: FilePath -> (ErrorT String (Reader FeatureHierSequences) a) -> ErrorT String IO a - runGFF gffname m = do gff <- catchIOErrors $ LBS.readFile gffname |