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py-pycortex: add new package (#27432)

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Manuela Kuhn 2021-11-13 19:24:51 +01:00 committed by GitHub
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# Copyright 2013-2021 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 PyPycortex(PythonPackage):
"""Python Cortical mapping software for fMRI data."""
# When pycortex is started it creates a user config file (on linux located
# in ~/.config/pycortex) which can be problematic when reinstalling a newer
# version with spack due to hardscoded absolute paths of the pycortex module
homepage = "https://github.com/gallantlab/pycortex"
pypi = "pycortex/pycortex-1.2.2.tar.gz"
version('1.2.2', sha256='ac46ed6a1dc727c3126c2b5d7916fc0ac21a6510c32a5edcd3b8cfb7b2128414')
depends_on('py-setuptools', type='build')
depends_on('py-cython', type='build')
depends_on('py-future', type=('build', 'run'))
depends_on('py-numpy', type=('build', 'run'))
depends_on('py-scipy', type=('build', 'run'))
depends_on('py-tornado@4.3:', type=('build', 'run'))
depends_on('py-shapely', type=('build', 'run'))
depends_on('py-lxml', type=('build', 'run'))
depends_on('py-html5lib', type=('build', 'run'))
depends_on('py-h5py', type=('build', 'run'))
depends_on('py-numexpr', type=('build', 'run'))
depends_on('py-cython', type=('build', 'run')) # is in install_requires
depends_on('py-matplotlib', type=('build', 'run'))
depends_on('pil', type=('build', 'run'))
depends_on('py-nibabel', type=('build', 'run'))
depends_on('py-networkx@2.1:', type=('build', 'run'))
depends_on('py-imageio', type=('build', 'run'))
depends_on('py-wget', type=('build', 'run'))
# inkscape is not in spack
# TODO remove this patch and add inkscape dependency once it is in
def patch(self):
# remove inkscape dependency
filter_file('from .testing_utils import INKSCAPE_VERSION', '',
'cortex/utils.py',
string=True)
filter_file('open_inkscape=True', 'open_inkscape=False',
'cortex/utils.py',
string=True)
filter_file('from .testing_utils import INKSCAPE_VERSION',
'INKSCAPE_VERSION = None',
'cortex/svgoverlay.py',
string=True)