diff options
Diffstat (limited to 'var/spack/repos/builtin/packages/mitofates/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/mitofates/package.py | 54 |
1 files changed, 31 insertions, 23 deletions
diff --git a/var/spack/repos/builtin/packages/mitofates/package.py b/var/spack/repos/builtin/packages/mitofates/package.py index 0ba5535b3d..beefab38e1 100644 --- a/var/spack/repos/builtin/packages/mitofates/package.py +++ b/var/spack/repos/builtin/packages/mitofates/package.py @@ -1,28 +1,10 @@ -############################################################################## -# Copyright (c) 2013-2017, Lawrence Livermore National Security, LLC. -# Produced at the Lawrence Livermore National Laboratory. +# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. # -# 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/spack/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 -############################################################################## +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + from spack import * +import glob class Mitofates(Package): @@ -35,7 +17,33 @@ class Mitofates(Package): version('1.2', 'aaac42a8e8c7318a4abde9df3a4b72d1') depends_on('libsvm') + depends_on('perl', type='run') + depends_on('perl-inline-c', type='run') + depends_on('perl-perl6-slurp', type='run') + depends_on('perl-math-cephes', type='run') + + # The DirichletRegulator_fast.pm sets the perl Inline directory + # to be inside the deployed source (which won't be writable by + # the end user of site wide deployed software. + # Removing that config entry will cause the inline module to auto + # create a directory in the user's homedir instead + patch('DirichletRegulator_fast.patch') + + def patch(self): + perlscripts = FileFilter('MitoFates.pl') + perlscripts.filter('#!/usr/bin/perl', '#!/usr/bin/env perl') + + # other perl module files probably should get this filter too + with working_dir(join_path(self.stage.source_path, 'bin/modules')): + perlmodules = glob.glob('*.pm') + filter_file('#!/usr/bin/perl', '#!/usr/bin/env perl', *perlmodules) def install(self, spec, prefix): install_tree('bin', prefix.bin) install('MitoFates.pl', prefix) + chmod = which('chmod') + chmod('+x', join_path(prefix, 'MitoFates.pl')) + + def setup_environment(self, spack_env, run_env): + # We want the main MitoFates.pl script in the path + run_env.prepend_path('PATH', self.prefix) |