sgrep (empty) → 0.0

raw patch · 3 files changed

+39/−0 lines, 3 filesdep +basedep +biodep +regex-compatsetup-changed

Dependencies added: base, bio, regex-compat

Files

• SGrep.hs +17/−0
• Setup.hs +5/−0
• sgrep.cabal +17/−0

@@ -0,0 +1,17 @@+-- Sequence Grep - search sequences for regular expressions++module Main where++import Bio.Sequence++import Text.Regex+import System.IO+import System.Environment++main :: IO ()+main = do+  [pat,file] <- getArgs+  let match s = case matchRegex (mkRegex pat) (toStr $ seqheader s) of +        Just _ -> True; _ -> False+  hWriteFasta stdout =<< filter match `fmap` readFasta file+  

@@ -0,0 +1,5 @@+#!/usr/bin/env runhaskell+ +import Distribution.Simple+main = defaultMain+

@@ -0,0 +1,17 @@+Name:          sgrep+Version:       0.0+License:       GPL	+Category:      Bioinformatics+Author:        Ketil Malde+Maintainer:    Ketil Malde <ketil@malde.org>+Homepage:      http://blog.malde.org/++Synopsis:      Sgrep - grep Fasta files for sequences matching a regular expression+Description:   This is a simple utility to extract sequences from Fasta files. It+	       expects its first parameter to be a regular expression, and its second+	       to be a Fasta-formatted file.  It will then output all sequences matching+	       the regexp to standard output.+Build-Type:    Simple+Executable:    sgrep+Build-Depends: base>=3 && <5, bio, regex-compat+Main-Is:       SGrep.hs