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cmake_minimum_required(VERSION 2.8)
project(Cython)
FIND_PROGRAM( PYTHON_PATH python )
FIND_PROGRAM( CYTHON_PATH cython )
if(PYTHON_PATH AND CYTHON_PATH)
find_package(Boost REQUIRED COMPONENTS system REQUIRED)
if(NOT Boost_FOUND)
message(FATAL_ERROR "NOTICE: This demo requires Boost and will not be compiled.")
else(NOT Boost_FOUND)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DBOOST_RESULT_OF_USE_DECLTYPE', ")
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DBOOST_ALL_NO_LIB', ")
set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'boost_system', ")
set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${Boost_LIBRARY_DIRS}', ")
# Gudhi and CGAL compilation option
if(MSVC)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'/fp:strict', ")
else(MSVC)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-std=c++11', ")
endif(MSVC)
if(CMAKE_COMPILER_IS_GNUCXX)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-frounding-math', ")
endif(CMAKE_COMPILER_IS_GNUCXX)
if ("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Intel")
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-fp-model strict', ")
endif("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Intel")
if (DEBUG_TRACES)
# For programs to be more verbose
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DDEBUG_TRACES', ")
endif()
find_package(Eigen3 3.1.0)
if (EIGEN3_FOUND)
# No problem, even if no CGAL found
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_EIGEN3_ENABLED', ")
endif (EIGEN3_FOUND)
# Copy recursively include, cython, example, doc and test repositories before packages finding
# Some tests and doc files are removed in case some packages are not found
file(COPY include DESTINATION ${CMAKE_CURRENT_BINARY_DIR})
file(COPY cython DESTINATION ${CMAKE_CURRENT_BINARY_DIR})
file(COPY example DESTINATION ${CMAKE_CURRENT_BINARY_DIR})
file(COPY test DESTINATION ${CMAKE_CURRENT_BINARY_DIR})
file(COPY doc DESTINATION ${CMAKE_CURRENT_BINARY_DIR})
# Developper version for doc images
file(GLOB GUDHI_DEV_DOC_IMAGES "${CMAKE_SOURCE_DIR}/src/*/doc/*.png")
file(COPY ${GUDHI_DEV_DOC_IMAGES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/img")
# User version for doc images
file(GLOB GUDHI_USER_DOC_IMAGES "${CMAKE_SOURCE_DIR}/doc/*/*.png")
file(COPY ${GUDHI_USER_DOC_IMAGES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/img")
# Biblio
file(GLOB GUDHI_BIB_FILES "${CMAKE_SOURCE_DIR}/biblio/*.bib")
file(COPY ${GUDHI_BIB_FILES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/")
# Cubical complex perseus doc example
file(GLOB GUDHI_CUBICAL_PERSEUS_FILES "${CMAKE_SOURCE_DIR}/data/bitmap/*cubicalcomplexdoc.txt")
file(COPY ${GUDHI_CUBICAL_PERSEUS_FILES} DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/")
file(COPY "${CMAKE_SOURCE_DIR}/data/points/alphacomplexdoc.off" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/")
file(COPY "${CMAKE_SOURCE_DIR}/data/distance_matrix/full_square_distance_matrix.csv" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/")
# Persistence graphical tools examples
file(COPY "${CMAKE_SOURCE_DIR}/data/bitmap/3d_torus.txt" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/")
file(COPY "${CMAKE_SOURCE_DIR}/data/points/tore3D_300.off" DESTINATION "${CMAKE_CURRENT_BINARY_DIR}/doc/")
if (NOT CGAL_VERSION VERSION_LESS 4.8.1)
# If CGAL_VERSION >= 4.8.1, include subsampling
# CGAL things are done in CGAL_VERSION >= 4.8.0
set(GUDHI_CYTHON_SUBSAMPLING "include 'cython/subsampling.pyx'")
else (NOT CGAL_VERSION VERSION_LESS 4.8.1)
# Remove alpha complex unitary tests
file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_subsampling.py)
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/subsampling_ref.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/subsampling_sum.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/subsampling_user.rst")
endif (NOT CGAL_VERSION VERSION_LESS 4.8.1)
if (NOT CGAL_VERSION VERSION_LESS 4.8.0)
# If CGAL_VERSION >= 4.8.0, include tangential complex
set(GUDHI_CYTHON_TANGENTIAL_COMPLEX "include 'cython/tangential_complex.pyx'")
set(GUDHI_CYTHON_BOTTLENECK_DISTANCE "include 'cython/bottleneck_distance.pyx'")
else (NOT CGAL_VERSION VERSION_LESS 4.8.0)
# Remove tangential complex and bottleneck unitary tests
file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_tangential_complex.py)
file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_bottleneck_distance.py)
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/bottleneck_distance_ref.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/bottleneck_distance_sum.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/bottleneck_distance_user.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/tangential_complex_ref.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/tangential_complex_sum.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/tangential_complex_user.rst")
endif (NOT CGAL_VERSION VERSION_LESS 4.8.0)
if (NOT CGAL_VERSION VERSION_LESS 4.7.0)
# If CGAL_VERSION >= 4.7.0, include alpha
set(GUDHI_CYTHON_ALPHA_COMPLEX "include 'cython/alpha_complex.pyx'")
else (NOT CGAL_VERSION VERSION_LESS 4.7.0)
# Remove alpha complex unitary tests
file(REMOVE ${CMAKE_CURRENT_BINARY_DIR}/test/test_alpha_complex.py)
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/alpha_complex_ref.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/alpha_complex_sum.rst")
file(REMOVE "${CMAKE_CURRENT_BINARY_DIR}/doc/alpha_complex_user.rst")
endif (NOT CGAL_VERSION VERSION_LESS 4.7.0)
if(CGAL_FOUND)
# Add CGAL compilation args
set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'CGAL', ")
set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${CGAL_LIBRARIES_DIR}', ")
# GMP and GMPXX are not required, but if present, CGAL will link with them.
if(GMP_FOUND)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_USE_GMP', ")
set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'gmp', ")
set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${GMP_LIBRARIES_DIR}', ")
if(GMPXX_FOUND)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DCGAL_USE_GMPXX', ")
set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'gmpxx', ")
set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${GMPXX_LIBRARIES_DIR}', ")
endif(GMPXX_FOUND)
endif(GMP_FOUND)
endif(CGAL_FOUND)
# Specific for Mac
if (${CMAKE_SYSTEM_NAME} MATCHES "Darwin")
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-mmacosx-version-min=10.9', ")
set(GUDHI_CYTHON_EXTRA_LINK_ARGS "${GUDHI_CYTHON_EXTRA_LINK_ARGS}'-mmacosx-version-min=10.9', ")
endif(${CMAKE_SYSTEM_NAME} MATCHES "Darwin")
# Loop on INCLUDE_DIRECTORIES PROPERTY
get_property(GUDHI_INCLUDE_DIRECTORIES DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} PROPERTY INCLUDE_DIRECTORIES)
foreach(GUDHI_INCLUDE_DIRECTORY ${GUDHI_INCLUDE_DIRECTORIES})
set(GUDHI_CYTHON_INCLUDE_DIRS "${GUDHI_CYTHON_INCLUDE_DIRS}'${GUDHI_INCLUDE_DIRECTORY}', ")
endforeach()
set(GUDHI_CYTHON_INCLUDE_DIRS "${GUDHI_CYTHON_INCLUDE_DIRS}'${CMAKE_SOURCE_DIR}/${GUDHI_CYTHON_PATH}/include', ")
if (TBB_FOUND)
set(GUDHI_CYTHON_EXTRA_COMPILE_ARGS "${GUDHI_CYTHON_EXTRA_COMPILE_ARGS}'-DGUDHI_USE_TBB', ")
set(GUDHI_CYTHON_LIBRARIES "${GUDHI_CYTHON_LIBRARIES}'tbb', 'tbbmalloc', ")
set(GUDHI_CYTHON_LIBRARY_DIRS "${GUDHI_CYTHON_LIBRARY_DIRS}'${TBB_LIBRARY_DIRS}', ")
set(GUDHI_CYTHON_INCLUDE_DIRS "${GUDHI_CYTHON_INCLUDE_DIRS}'${TBB_INCLUDE_DIRS}', ")
endif()
# Generate cythonize_gudhi.py file to cythonize Gudhi
configure_file(cythonize_gudhi.py.in "${CMAKE_CURRENT_BINARY_DIR}/cythonize_gudhi.py" @ONLY)
# Generate gudhi.pyx - Gudhi cython file
configure_file(gudhi.pyx.in "${CMAKE_CURRENT_BINARY_DIR}/gudhi.pyx" @ONLY)
add_custom_command(
OUTPUT "${CMAKE_CURRENT_BINARY_DIR}/gudhi.so"
WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}
COMMAND python "${CMAKE_CURRENT_BINARY_DIR}/cythonize_gudhi.py" "build_ext" "--inplace")
add_custom_target(cython ALL DEPENDS "${CMAKE_CURRENT_BINARY_DIR}/gudhi.so"
COMMENT "Do not forget to add ${CMAKE_CURRENT_BINARY_DIR}/ to your PYTHONPATH before using examples or tests")
if(UNIX)
set( ENV{PYTHONPATH} $ENV{PYTHONPATH}:${CMAKE_CURRENT_BINARY_DIR}/ )
endif(UNIX)
# Unitary tests are available through py.test
find_program( PYTEST_PATH py.test )
if(PYTEST_PATH)
add_test(
NAME gudhi_cython_py_test
WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}
COMMAND ${PYTEST_PATH})
set_tests_properties(gudhi_cython_py_test PROPERTIES ENVIRONMENT "PYTHONPATH=${CMAKE_CURRENT_BINARY_DIR}")
endif(PYTEST_PATH)
# Documentation generation is available through sphinx
find_program( SPHINX_PATH sphinx-build )
if(SPHINX_PATH)
if (UNIX)
add_custom_target(sphinx
WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/doc
DEPENDS "${CMAKE_CURRENT_BINARY_DIR}/gudhi.so"
COMMAND make html doctest)
else (UNIX)
add_custom_target(sphinx
WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/doc
COMMAND make.bat html)
endif (UNIX)
endif(SPHINX_PATH)
endif(NOT Boost_FOUND)
endif(PYTHON_PATH AND CYTHON_PATH)
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