Name: hfx

Version: 0.1

Synopsis: An implementation of the SEQUEST algorithm for protein identification

Description:

An implementation of the SEQUEST algorithm on NVIDIA GPUs, for fast

cross-correlation based identification of protein sequences from tandem MS

spectra.

.

[1] J. K. Eng, B. Fischer, J. Grossmann, and M. J. MacCoss. "A fast sequest

cross correlation algorithm." Journal of Proteome Research,

7(10):4598-4602, 2008.

.

[2] J. K. Eng, A. L. McCormack, and I. John R. Yates. "An approach to

correlate tandem mass spectral data of peptides with amino acid sequences

in a protein database." Journal of the American Society for Mass

Spectrometry, 5(11):976-989, November 1994.

License: BSD3

License-file: LICENSE

Copyright: Copyright (c) [2009..2011] Trevor L. McDonell

Author: Trevor L. McDonell <[email protected]>

Maintainer: Trevor L. MCDonell <[email protected]>

Stability: Experimental

Category: Bio

Cabal-version: >=1.2

Build-type: Simple

Extra-tmp-files:

Extra-source-files:

Flag debug

Description: Enable debug support

Default: False

Executable hfx

Main-is: Main.hs

hs-source-dirs: src/haskell

build-depends: base >= 3.0 && < 5.0,

binary-search,

bio >= 0.5 && < 0.6,

boxes >= 0.1,

bytestring >= 0.9,

cuda >= 0.4,

directory >= 1.0,

filepath >= 1.0,

parsec >= 3.0,

pretty >= 1.0,

vector >= 0.7,

vector-algorithms >= 0.4,

zlib >= 0.5

ghc-options: -Wall -O2 -fwarn-tabs -fno-spec-constr

extra-libraries: stdc++

extra-lib-dirs: dist/lib

include-dirs: src/common/include

if flag(debug)

extra-libraries: filterD ion_seriesD mvmD sortD

else

extra-libraries: filter ion_series mvm sort

-- Modules not exported by this package.

-- Other-modules:

-- Extra tools (e.g. alex, hsc2hs, ...) needed to build the source.

-- Build-tools:

Executable generate-peptides

Main-is: MainGen.hs

hs-source-dirs: src/haskell

build-depends: binary >= 0.4,

vector-binary-instances >= 0.1

ghc-options: -Wall -O2 -fno-spec-constr