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| author | Audrey Thoma <las_thoma15@iastate.edu> | 2017-08-30 02:57:57 -0500 |
|---|---|---|
| committer | Todd Gamblin <tgamblin@llnl.gov> | 2017-08-30 00:57:57 -0700 |
| commit | de5111cd509b5a88dad20f71453b90678cb682fc (patch) | |
| tree | 749276cc22f7ab8fe7b65fd8f2a17cf5514ac3b9 | |
| parent | c830eda0e6f8e773cdf2d8aeb9b400a307c834fe (diff) | |
| download | spack-de5111cd509b5a88dad20f71453b90678cb682fc.tar.gz spack-de5111cd509b5a88dad20f71453b90678cb682fc.tar.bz2 spack-de5111cd509b5a88dad20f71453b90678cb682fc.tar.xz spack-de5111cd509b5a88dad20f71453b90678cb682fc.zip | |
hapcut2: new package (#5238)
| -rw-r--r-- | var/spack/repos/builtin/packages/hapcut2/package.py | 44 |
1 files changed, 44 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/hapcut2/package.py b/var/spack/repos/builtin/packages/hapcut2/package.py new file mode 100644 index 0000000000..1e91d1d541 --- /dev/null +++ b/var/spack/repos/builtin/packages/hapcut2/package.py @@ -0,0 +1,44 @@ +############################################################################## +# Copyright (c) 2013-2016, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Created by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the NOTICE and LICENSE files for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU Lesser General Public License (as +# published by the Free Software Foundation) version 2.1, February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU Lesser General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public +# License along with this program; if not, write to the Free Software +# Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + + +class Hapcut2(MakefilePackage): + """HapCUT2 is a maximum-likelihood-based tool for assembling haplotypes + from DNA sequence reads, designed to 'just work' with excellent speed + and accuracy.""" + + homepage = "https://github.com/vibansal/HapCUT2" + url = "https://github.com/vibansal/HapCUT2" + + version('2017-07-10', git='https://github.com/vibansal/HapCUT2.git', + commit='2966b94c2c2f97813b757d4999b7a6471df1160e', submodules=True) + + def install(self, spec, prefix): + mkdirp(prefix.bin) + with working_dir('build'): + install('extractFOSMID', prefix.bin) + install('extractHAIRS', prefix.bin) + install('HAPCUT2', prefix.bin) |