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stimfit/setup.py
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import distutils | |
from distutils.core import setup, Extension | |
import sys | |
import os | |
import subprocess | |
import shlex | |
from numpy.distutils import system_info | |
import numpy as np | |
numpy_config_keys = [ | |
'atlas_blas_info', | |
'atlas_blas_threads_info', | |
'atlas_info', | |
'atlas_threads_info', | |
'blas_mkl_info', | |
'blas_opt_info', | |
'get_info', | |
'lapack_mkl_info', | |
'lapack_opt_info', | |
'mkl_info', | |
'openblas_info', | |
'openblas_lapack_info' | |
] | |
np_define_macros = [] | |
np_extra_compile_args = [] | |
np_extra_link_args = [] | |
np_libraries = [] | |
if not 'linux' in sys.platform: | |
for key in numpy_config_keys: | |
try: | |
np_libraries += np.__config__.get_info(key)['libraries'] | |
except: | |
pass | |
try: | |
np_define_macros += np.__config__.get_info(key)['define_macros'] | |
except: | |
pass | |
try: | |
np_extra_compile_args += np.__config__.get_info(key)[ | |
'extra_compile_args'] | |
except: | |
pass | |
try: | |
np_extra_link_args += np.__config__.get_info(key)['extra_link_args'] | |
except: | |
pass | |
hdf5_extra_compile_args = [] | |
hdf5_extra_link_args = [] | |
if 'linux' in sys.platform: | |
cmd = shlex.split('pkg-config --cflags hdf5') | |
p = subprocess.Popen(cmd, stdout=subprocess.PIPE, stderr=subprocess.PIPE) | |
p.wait() | |
pkg_config_out = p.stdout.read().decode("utf-8")[:-1] | |
pkg_config_err = p.stderr.read().decode("utf-8")[:-1] | |
if "No package" in pkg_config_err: | |
hdf5_extra_compile_args = ["-I/usr/include/hdf5/serial"] | |
else: | |
hdf5_extra_compile_args = [pkg_config_out] | |
cmd = shlex.split('pkg-config --libs hdf5') | |
p = subprocess.Popen(cmd, stdout=subprocess.PIPE, stderr=subprocess.PIPE) | |
p.wait() | |
pkg_config_out = p.stdout.read().decode("utf-8")[:-1] | |
pkg_config_err = p.stderr.read().decode("utf-8")[:-1] | |
if "No package" in pkg_config_err: | |
hdf5_extra_link_args = [ | |
"-L/usr/lib/x86_64-linux-gnu/", | |
"-L/usr/lib/x86_64-linux-gnu/hdf5/serial"] | |
else: | |
hdf5_extra_link_args = [pkg_config_out] | |
if os.name == "nt": | |
biosig_define_macros = [('WITH_BIOSIG2', None)] | |
biosig_libraries = ['libbiosig2'] | |
biosig_lite_sources = [] | |
else: | |
biosig_define_macros = [('WITH_BIOSIG2', None), ('WITH_BIOSIGLITE', None), ('WITHOUT_NETWORK', None)] | |
biosig_libraries = ['iconv'] | |
biosig_lite_sources = [ | |
'src/libbiosiglite/biosig4c++/t210/sopen_abf_read.c', | |
'src/libbiosiglite/biosig4c++/t210/sopen_alpha_read.c', | |
'src/libbiosiglite/biosig4c++/t210/sopen_axg_read.c', | |
'src/libbiosiglite/biosig4c++/t210/sopen_cfs_read.c', | |
'src/libbiosiglite/biosig4c++/t210/sopen_heka_read.c', | |
'src/libbiosiglite/biosig4c++/t210/sopen_igor.c', | |
'src/libbiosiglite/biosig4c++/t210/sopen_scp_read.c', | |
'src/libbiosiglite/biosig4c++/t210/scp-decode.cpp', | |
'src/libbiosiglite/biosig4c++/t220/crc4scp.c', | |
'src/libbiosiglite/biosig4c++/t220/sopen_scp_write.c', | |
'src/libbiosiglite/biosig4c++/test0/sandbox.c', | |
'src/libbiosiglite/biosig4c++/biosig.c', | |
'src/libbiosiglite/biosig4c++/biosig2.c', | |
'src/libbiosiglite/biosig4c++/biosig-network.c', | |
'src/libbiosiglite/biosig4c++/gdftime.c', | |
'src/libbiosiglite/biosig4c++/mdc_ecg_codes.c', | |
'src/libbiosiglite/biosig4c++/physicalunits.c' | |
] | |
fftw3_libraries = ['fftw3'] | |
if 'libraries' in system_info.get_info('fftw3').keys(): | |
fftw3_libraries = system_info.get_info('fftw3')['libraries'] | |
if os.name == "nt": | |
win_define_macros = [("_WINDOWS", None), | |
("__STF__", None), | |
("STFIODLL", None), | |
("_WIN64", None), | |
("_WINDLL", None), | |
("H5_USE_16_API", None), | |
("_HDF5USEDLL_", None), | |
("_CRT_SECURE_NO_WARNINGS", None), | |
("UNICODE", None), | |
("_UNICODE", None)] | |
win_compile_args = ["/EHsc"] | |
home_dir = os.path.expanduser("~") | |
win_include_dirs = [ | |
os.path.join(home_dir, 'boost'), | |
os.path.join(home_dir, 'biosig', 'include'), | |
os.path.join(home_dir, 'hdf5', 'include'), | |
os.path.join(home_dir, 'fftw'), | |
] | |
win_library_dirs = [ | |
os.path.join(home_dir, 'hdf5', 'lib'), | |
os.path.join(home_dir, 'biosig', 'lib'), | |
os.path.join(home_dir, 'stimfit', 'dist', 'windows', 'libs'), | |
os.path.join(home_dir, 'fftw'), | |
] | |
fftw3_libraries = ['libfftw3-3'] | |
np_libraries = ['BLAS', 'clapack', 'libf2c'] | |
win_libraries = ['user32'] | |
win_link_args = ["/SUBSYSTEM:WINDOWS", | |
"/LARGEADDRESSAWARE", | |
"/OPT:REF", | |
"/OPT:ICF", | |
"/DYNAMICBASE", | |
"/NXCOMPAT", | |
"/MACHINE:X64", | |
"/NODEFAULTLIB:\"libc.lib\"", | |
"/NODEFAULTLIB:\"libcmt.lib\""] | |
win_data_files = [( | |
distutils.sysconfig.get_python_lib(), [ | |
os.path.join(home_dir, 'biosig', 'lib', 'libbiosig2.dll'), | |
os.path.join(home_dir, 'fftw', 'libfftw3-3.dll'), ] | |
)] | |
else: | |
win_define_macros = [] | |
win_include_dirs = [] | |
win_compile_args = [] | |
win_library_dirs = [] | |
win_libraries = [] | |
win_link_args = [] | |
win_data_files = [] | |
stfio_module = Extension( | |
'_stfio', | |
swig_opts=['-c++'], | |
library_dirs=win_library_dirs, | |
libraries=['hdf5', 'hdf5_hl'] + fftw3_libraries + np_libraries + | |
biosig_libraries + win_libraries, | |
define_macros=np_define_macros + biosig_define_macros + | |
win_define_macros, | |
extra_compile_args=np_extra_compile_args + hdf5_extra_compile_args + | |
win_compile_args, | |
extra_link_args=np_extra_link_args + hdf5_extra_link_args + | |
win_link_args, | |
include_dirs=win_include_dirs, | |
sources=[ | |
'src/libstfio/abf/abflib.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/Oldheadr.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/abferror.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/abffiles.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/abfheadr.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/abfhwave.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/abfutil.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/csynch.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/filedesc.cpp', | |
'src/libstfio/abf/axon/AxAbfFio32/msbincvt.cpp', | |
'src/libstfio/abf/axon/AxAtfFio32/axatffio32.cpp', | |
'src/libstfio/abf/axon/AxAtfFio32/fileio2.cpp', | |
'src/libstfio/abf/axon/Common/FileIO.cpp', | |
'src/libstfio/abf/axon/Common/FileReadCache.cpp', | |
'src/libstfio/abf/axon/Common/unix.cpp', | |
'src/libstfio/abf/axon2/ProtocolReaderABF2.cpp', | |
'src/libstfio/abf/axon2/SimpleStringCache.cpp', | |
'src/libstfio/abf/axon2/abf2headr.cpp', | |
'src/libstfio/atf/atflib.cpp', | |
'src/libstfio/axg/AxoGraph_ReadWrite.cpp', | |
'src/libstfio/axg/axglib.cpp', | |
'src/libstfio/axg/byteswap.cpp', | |
'src/libstfio/axg/fileUtils.cpp', | |
'src/libstfio/axg/stringUtils.cpp', | |
'src/libstfio/biosig/biosiglib.cpp', | |
'src/libstfio/cfs/cfs.c', | |
'src/libstfio/cfs/cfslib.cpp', | |
'src/libstfio/channel.cpp', | |
'src/libstfio/hdf5/hdf5lib.cpp', | |
'src/libstfio/igor/CrossPlatformFileIO.c', | |
'src/libstfio/igor/WriteWave.c', | |
'src/libstfio/igor/igorlib.cpp', | |
'src/libstfio/intan/common.cpp', | |
'src/libstfio/intan/intanlib.cpp', | |
'src/libstfio/intan/streams.cpp', | |
'src/libstfio/recording.cpp', | |
'src/libstfio/section.cpp', | |
'src/libstfio/stfio.cpp', | |
'src/libstfnum/fit.cpp', | |
'src/libstfnum/funclib.cpp', | |
'src/libstfnum/levmar/Axb.c', | |
'src/libstfnum/levmar/lm.c', | |
'src/libstfnum/levmar/lmbc.c', | |
'src/libstfnum/levmar/misc.c', | |
'src/libstfnum/measure.cpp', | |
'src/libstfnum/stfnum.cpp', | |
'src/pystfio/pystfio.cxx', | |
'src/pystfio/pystfio.i', | |
] + biosig_lite_sources) | |
setup(name='stfio', | |
version='0.16.2', | |
description='stfio module', | |
include_dirs=system_info.default_include_dirs + [ | |
np.get_include()], | |
scripts=[], | |
package_dir={'stfio': 'src/pystfio'}, | |
packages=['stfio'], | |
data_files=win_data_files, | |
ext_modules=[stfio_module]) |