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setup.py
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setup.py
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from distutils.core import setup
from Cython.Build import cythonize
from distutils.extension import Extension
import numpy as np
import mpi4py as mpi4py
#import petsc4py
# Now get include paths from relevant python modules
include_path = [mpi4py.get_include()]
include_path += [np.get_include()]
#include_path += [petsc4py.get_include()]
include_path += ['./Csrc']
#include_path += ['/opt/local/lib/petsc/include']
#library_dirs =['/opt/local/lib/petsc/lib/']
library_dirs = []
libraries = []
extensions = []
extra_compile_args = []
# ,'-Rpass=loop-vectorize']
extra_compile_args += ['-O3', '-march=native', '-Wno-unused', '-Wno-#warnings']
# libraries.append('petsc')
# Library dirs for euler
#library_dirs = ['/cluster/apps/openmpi/1.6.5/x86_64/gcc_4.8.2/lib/']
#libraries = []
# libraries.append('mpi')
#extensions = []
# extra_compile_args=[]
# extra_compile_args+=['-std=c99','-O3','-march=native','-Wno-unused','-Wno-#warnings']#,'-Rpass=loop-vectorize']
_ext = Extension('Grid', ['Grid.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Initialization', ['Initialization.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Microphysics', ['Microphysics.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('thermodynamic_functions', ['thermodynamic_functions.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Thermodynamics', ['Thermodynamics.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('ThermodynamicsDry', ['ThermodynamicsDry.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('ThermodynamicsSA', ['ThermodynamicsSA.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('ReferenceState', ['ReferenceState.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Simulation3d', ['Simulation3d.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('ParallelMPI', ['ParallelMPI.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('PrognosticVariables', ['PrognosticVariables.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('DiagnosticVariables', ['DiagnosticVariables.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('ScalarAdvection', ['ScalarAdvection.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('MomentumAdvection', ['MomentumAdvection.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('ScalarDiffusion', ['ScalarDiffusion.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('MomentumDiffusion', ['MomentumDiffusion.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('FluxDivergence', ['FluxDivergence.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('PressureSolver', ['PressureSolver.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('PressureFFTSerial', ['PressureFFTSerial.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('PressureFFTParallel', ['PressureFFTParallel.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('SparseSolvers', ['SparseSolvers.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('SGS', ['SGS.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('TimeStepping', ['TimeStepping.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Kinematics', ['Kinematics.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Lookup', ['Lookup.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('NetCDFIO', ['NetCDFIO.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Surface', ['Surface.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Damping', ['Damping.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Forcing', ['Forcing.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('entropies', ['entropies.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
_ext = Extension('Radiation', ['Radiation.pyx'], include_dirs=include_path,
extra_compile_args=extra_compile_args, libraries=libraries, library_dirs=library_dirs,
runtime_library_dirs=library_dirs)
extensions.append(_ext)
setup(
ext_modules=cythonize(extensions, verbose=1, include_path=include_path)
)