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# Copyright 2013-2019 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 *
import glob
class Autofact(Package):
"""An Automatic Functional Annotation and Classification Tool"""
homepage = "http://megasun.bch.umontreal.ca/Software/AutoFACT.htm"
url = "http://megasun.bch.umontreal.ca/Software/AutoFACT_v3_4.tar"
version('3_4', sha256='1465d263b19adb42f01f6e636ac40ef1c2e3dbd63461f977b89da9493fe9c6f4')
depends_on('perl', type='run')
depends_on('perl-bio-perl', type='run')
depends_on('perl-io-string', type='run')
depends_on('perl-lwp', type='run')
depends_on('blast-plus', type='run')
def patch(self):
with working_dir('scripts'):
files = glob.iglob("*.pl")
for file in files:
change = FileFilter(file)
change.filter('usr/bin/perl', 'usr/bin/env perl')
def install(self, spec, prefix):
install_tree(self.stage.source_path, prefix)
def setup_environment(self, spack_env, run_env):
run_env.prepend_path('PATH', self.prefix.scripts)
run_env.set('PATH2AUTOFACT', self.prefix)
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