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| -rw-r--r-- | var/spack/repos/builtin/packages/migrate/package.py | 71 |
1 files changed, 71 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/migrate/package.py b/var/spack/repos/builtin/packages/migrate/package.py new file mode 100644 index 0000000000..5905ea7153 --- /dev/null +++ b/var/spack/repos/builtin/packages/migrate/package.py @@ -0,0 +1,71 @@ +# Copyright 2013-2018 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 Migrate(AutotoolsPackage): + """Migrate estimates effective population sizes and past migration rates + between n population assuming a migration matrix model with asymmetric + migration rates and different subpopulation sizes""" + + homepage = "http://popgen.sc.fsu.edu/" + url = "http://popgen.sc.fsu.edu/currentversions/migrate-3.6.11.src.tar.gz" + + version('3.6.11', sha256='a9ba06a4e995a45b8d04037f5f2da23e1fe64a2f3565189bdd50c62c6fe01fb8') + + variant('mpi', default=False, + description='Build MPI binaries') + + depends_on('autoconf') + depends_on('automake') + depends_on('libtool') + depends_on('m4') + + depends_on('openmpi', type=('build', 'link', 'run'), when='+mpi') + + configure_directory = 'src' + + def build(self, spec, prefix): + with working_dir('src'): + # this software is written with parts both in C and C++. + # it tries to link using gcc which causes problems, so this package + # explicitly links with g++ (CXX) instead. + + # spack's FileFilter/filter_file only work per-line (see docs), + # so the package uses a custom filter by replacing substrings + # in the Makefile. + + mfc = '' + with open('Makefile') as m: + mfc = mfc_old = m.read() + + # replace linking step + mfc = mfc.replace('$(NAME): $(PRODUCT_DEPENDS)\n\t$(CC)', + '$(NAME): $(PRODUCT_DEPENDS)\n\t$(CXX)') + mfc = mfc.replace('$(MPINAME): $(PRODUCT_DEPENDS)\n\t$(CC)', + '$(MPINAME): $(PRODUCT_DEPENDS)\n\t$(CXX)') + + # make sure the replace worked + if (mfc == mfc_old): + raise InstallError('Failed to update linker command') + + # don't try to install MPI binaries that aren't there + if '+mpi' not in spec: + line = '$(INSTALL) $(IFLAGS) $(MPINAME) $(INSTALLDIR)' + mfc = mfc.replace(line, '') + + # write modified makefile back + with open('Makefile', 'w') as m: + m.write(mfc) + + make() + if '+mpi' in spec: + make('mpis') + + def install(self, spec, prefix): + mkdirp(prefix.man) + with working_dir('src'): + make('install') |