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# Copyright 2013-2020 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class Hmmer(Package):
"""HMMER is used for searching sequence databases for sequence homologs,
and for making sequence alignments. It implements methods using
probabilistic models called profile hidden Markov models (profile HMMs).
"""
homepage = 'http://www.hmmer.org'
url = 'http://eddylab.org/software/hmmer/hmmer-3.3.tar.gz'
version('3.3', sha256='0186bf40af67032666014971ed8ddc3cf2834bebc2be5b3bc0304a93e763736c')
version('3.2.1', sha256='a56129f9d786ec25265774519fc4e736bbc16e4076946dcbd7f2c16efc8e2b9c')
version('3.1b2', sha256='dd16edf4385c1df072c9e2f58c16ee1872d855a018a2ee6894205277017b5536')
version('3.0', sha256='6977e6473fcb554b1d5a86dc9edffffa53918c1bd88d7fd20d7499f1ba719e83')
version('2.4i', sha256='73cb85c2197017fa7a25482556ed250bdeed256974b99b0c25e02854e710a886')
version('2.3.2', sha256='d20e1779fcdff34ab4e986ea74a6c4ac5c5f01da2993b14e92c94d2f076828b4')
version('2.3.1', sha256='3956d53af8de5bb99eec18cba0628e86924c6543639d290293b6677a9224ea3f')
variant('mpi', default=True, description='Compile with MPI')
variant('gsl', default=False, description='Compile with GSL')
depends_on('mpi', when='+mpi')
depends_on('gsl', when='+gsl')
def install(self, spec, prefix):
configure_args = [
'--prefix={0}'.format(prefix)
]
if '+gsl' in self.spec:
configure_args.extend([
'--with-gsl',
'LIBS=-lgsl -lgslcblas'
])
if '+mpi' in self.spec:
configure_args.append('--enable-mpi')
configure(*configure_args)
make()
if self.run_tests:
make('check')
make('install')
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