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Merged in feature/cython_wrapper-build_improvements (pull request #296) 

Add build dependency to ensure cython wrapper is built after cpp library

Approved-by: Duy-Nguyen Ta <thduynguyen@gmail.com>
release/4.3a0
Chris Beall 2017-05-24 16:04:34 +00:00 committed by Duy-Nguyen Ta
parent c8dec5d8dc 504022a514
commit 067c2a942b
7 changed files with 87 additions and 123 deletions
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27
cmake/FindEigency.cmake Normal file
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@ -0,0 +1,27 @@
# Find Eigency
#
# This code sets the following variables:
#
# EIGENCY_FOUND
# EIGENCY_INCLUDE_DIRS
#
# Find python
find_package( PythonInterp )
if ( PYTHONINTERP_FOUND )
execute_process( COMMAND "${PYTHON_EXECUTABLE}" "-c"
"import eigency; includes=eigency.get_includes(include_eigen=False); print includes[0], ';', includes[1]"
RESULT_VARIABLE RESULT
OUTPUT_VARIABLE EIGENCY_INCLUDE_DIRS
OUTPUT_STRIP_TRAILING_WHITESPACE
)
endif ()
include( FindPackageHandleStandardArgs )
find_package_handle_standard_args(Eigency
FOUND_VAR
EIGENCY_FOUND
REQUIRED_VARS
EIGENCY_INCLUDE_DIRS
)

69
cmake/GtsamCythonWrap.cmake
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@ -11,32 +11,30 @@ if(NOT GTSAM_CYTHON_INSTALL_PATH)
set(GTSAM_CYTHON_INSTALL_PATH "${CMAKE_INSTALL_PREFIX}/cython") set(GTSAM_CYTHON_INSTALL_PATH "${CMAKE_INSTALL_PREFIX}/cython")
endif() endif()
# User-friendly Cython wrapping and installing function. # User-friendly Cython wrapping and installing function.
# Builds a Cython module from the provided interface_header. # Builds a Cython module from the provided interface_header.
# For example, for the interface header gtsam.h, # For example, for the interface header gtsam.h,
# this will build the wrap module 'gtsam'. # this will build the wrap module 'gtsam'.
# #
# Arguments: # Arguments:
# #
# interface_header: The relative path to the wrapper interface definition file. # interface_header: The relative path to the wrapper interface definition file.
# extra_imports: extra header to import in the Cython pxd file. # extra_imports: extra header to import in the Cython pxd file.
# For example, to use Cython gtsam.pxd in your own module, # For example, to use Cython gtsam.pxd in your own module,
# use "from gtsam cimport *" # use "from gtsam cimport *"
# setup_py_in_path: Path to the setup.py.in config file, which will be converted
# to setup.py file by cmake and used to compile the Cython module
# by invoking "python setup.py build_ext --inplace"
# install_path: destination to install the library # install_path: destination to install the library
function(wrap_and_install_library_cython interface_header extra_imports setup_py_in_path install_path) # dependencies: Dependencies which need to be built before the wrapper
function(wrap_and_install_library_cython interface_header extra_imports install_path dependencies)
# Paths for generated files # Paths for generated files
get_filename_component(module_name "${interface_header}" NAME_WE) get_filename_component(module_name "${interface_header}" NAME_WE)
set(generated_files_path "${PROJECT_BINARY_DIR}/cython/${module_name}") set(generated_files_path "${PROJECT_BINARY_DIR}/cython/${module_name}")
wrap_library_cython("${interface_header}" "${generated_files_path}" "${extra_imports}" "${setup_py_in_path}") wrap_library_cython("${interface_header}" "${generated_files_path}" "${extra_imports}" "${dependencies}")
install_cython_wrapped_library("${interface_header}" "${generated_files_path}" "${install_path}") install_cython_wrapped_library("${interface_header}" "${generated_files_path}" "${install_path}")
endfunction() endfunction()
# Internal function that wraps a library and compiles the wrapper # Internal function that wraps a library and compiles the wrapper
function(wrap_library_cython interface_header generated_files_path extra_imports setup_py_in_path) function(wrap_library_cython interface_header generated_files_path extra_imports dependencies)
# Wrap codegen interface # Wrap codegen interface
# Extract module path and name from interface header file name # Extract module path and name from interface header file name
# wrap requires interfacePath to be *absolute* # wrap requires interfacePath to be *absolute*
@ -45,36 +43,39 @@ function(wrap_library_cython interface_header generated_files_path extra_imports
get_filename_component(module_name "${interface_header}" NAME_WE) get_filename_component(module_name "${interface_header}" NAME_WE)
set(generated_cpp_file "${generated_files_path}/${module_name}.cpp") set(generated_cpp_file "${generated_files_path}/${module_name}.cpp")
message(STATUS "Building wrap module ${module_name}") message(STATUS "Building wrap module ${module_name}")
# Get build type postfix - gtsam_library_postfix is used in setup.py.in
# to link cythonized library to appropriate version of gtsam library
set(gtsam_library_postfix "")
if(GTSAM_BUILD_TYPE_POSTFIXES)
string(TOUPPER "${CMAKE_BUILD_TYPE}" build_type_upper)
set(gtsam_library_postfix ${CMAKE_${build_type_upper}_POSTFIX})
endif()
# Set up generation of module source file # Set up generation of module source file
file(MAKE_DIRECTORY "${generated_files_path}") file(MAKE_DIRECTORY "${generated_files_path}")
configure_file(${setup_py_in_path}/setup.py.in ${generated_files_path}/setup.py)
add_custom_command( add_custom_command(
OUTPUT ${generated_cpp_file} OUTPUT ${generated_cpp_file}
DEPENDS ${interface_header} wrap DEPENDS ${interface_header} wrap
COMMAND COMMAND
wrap --cython wrap --cython
${module_path} ${module_path}
${module_name} ${module_name}
${generated_files_path} ${generated_files_path}
"${extra_imports}" "${extra_imports}"
&& python setup.py build_ext --inplace && cython --cplus -I. "${generated_files_path}/${module_name}.pyx"
VERBATIM VERBATIM
WORKING_DIRECTORY ${generated_files_path}) WORKING_DIRECTORY ${generated_files_path}/../)
add_custom_target(${module_name}_cython_wrapper ALL DEPENDS ${generated_cpp_file} ${interface_header} ${dependencies})
# Set up building of mex module
add_custom_target(${module_name}_cython_wrapper ALL DEPENDS ${generated_cpp_file} ${interface_header}) # Set up building of cython module
add_custom_target(wrap_${module_name}_cython_distclean find_package(PythonLibs 2.7 REQUIRED)
include_directories(${PYTHON_INCLUDE_DIRS})
find_package(Eigency REQUIRED)
include_directories(${EIGENCY_INCLUDE_DIRS})
add_library(${module_name}_cython MODULE ${generated_cpp_file})
set_target_properties(${module_name}_cython PROPERTIES LINK_FLAGS "-undefined dynamic_lookup"
OUTPUT_NAME ${module_name} PREFIX "" LIBRARY_OUTPUT_DIRECTORY ${generated_files_path})
target_link_libraries(${module_name}_cython ${module_name})
add_dependencies(${module_name}_cython ${module_name}_cython_wrapper)
# distclean
add_custom_target(wrap_${module_name}_cython_distclean
COMMAND cmake -E remove_directory ${generated_files_path}) COMMAND cmake -E remove_directory ${generated_files_path})
endfunction() endfunction()
@ -96,8 +97,8 @@ function(install_cython_wrapped_library interface_header generated_files_path in
# Split up filename to strip trailing '/' in GTSAM_CYTHON_INSTALL_PATH if there is one # Split up filename to strip trailing '/' in GTSAM_CYTHON_INSTALL_PATH if there is one
get_filename_component(location "${install_path}" PATH) get_filename_component(location "${install_path}" PATH)
get_filename_component(name "${install_path}" NAME) get_filename_component(name "${install_path}" NAME)
install(DIRECTORY "${generated_files_path}/" DESTINATION "${location}/${name}${build_type_tag}" install(DIRECTORY "${generated_files_path}/" DESTINATION "${location}/${name}${build_type_tag}"
CONFIGURATIONS "${build_type}" CONFIGURATIONS "${build_type}"
PATTERN "build" EXCLUDE PATTERN "build" EXCLUDE
PATTERN "CMakeFiles" EXCLUDE PATTERN "CMakeFiles" EXCLUDE
PATTERN "Makefile" EXCLUDE PATTERN "Makefile" EXCLUDE
@ -106,7 +107,7 @@ function(install_cython_wrapped_library interface_header generated_files_path in
PATTERN "*.py" EXCLUDE) PATTERN "*.py" EXCLUDE)
endforeach() endforeach()
else() else()
install(DIRECTORY "${generated_files_path}/" DESTINATION ${install_path} install(DIRECTORY "${generated_files_path}/" DESTINATION ${install_path}
PATTERN "build" EXCLUDE PATTERN "build" EXCLUDE
PATTERN "CMakeFiles" EXCLUDE PATTERN "CMakeFiles" EXCLUDE
PATTERN "Makefile" EXCLUDE PATTERN "Makefile" EXCLUDE
@ -157,7 +158,7 @@ endfunction()
# should be installed to all build type toolboxes # should be installed to all build type toolboxes
# #
# Arguments: # Arguments:
# source_files: The source files to be installed. # source_files: The source files to be installed.
# dest_directory: The destination directory to install to. # dest_directory: The destination directory to install to.
function(install_cython_files source_files dest_directory) function(install_cython_files source_files dest_directory)

35
cython/CMakeLists.txt
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@ -1,15 +1,30 @@
# Install cython components # Install cython components
include(GtsamCythonWrap) include(GtsamCythonWrap)
# install scripts and tests
install_cython_scripts("${PROJECT_SOURCE_DIR}/cython/gtsam" "${GTSAM_CYTHON_INSTALL_PATH}" "*.py")
# Create the cython toolbox for the gtsam library
if (GTSAM_INSTALL_CYTHON_TOOLBOX)
wrap_and_install_library_cython("../gtsam.h" # interface_header
"" # extra imports
"${GTSAM_CYTHON_INSTALL_PATH}/gtsam" # install path
gtsam # dependencies which need to be built before the wrapper
)
# generate __init__.py into build folder (configured with or without gtsam_unstable import line) # wrap gtsam_unstable
# This also makes the build/cython/gtsam folder a python package, so gtsam can be found while wrapping gtsam_unstable if(GTSAM_BUILD_UNSTABLE)
if(GTSAM_BUILD_UNSTABLE) set(GTSAM_UNSTABLE_IMPORT "from gtsam_unstable import *")
set(GTSAM_UNSTABLE_IMPORT "from gtsam_unstable import *") wrap_and_install_library_cython("../gtsam_unstable/gtsam_unstable.h" # interface_header
endif() "from gtsam.gtsam cimport *" # extra imports
configure_file(${PROJECT_SOURCE_DIR}/cython/gtsam/__init__.py.in ${PROJECT_BINARY_DIR}/cython/gtsam/__init__.py) "${GTSAM_CYTHON_INSTALL_PATH}/gtsam" # install path
gtsam_unstable # dependencies which need to be built before the wrapper
)
add_dependencies(gtsam_unstable_cython_wrapper gtsam_cython_wrapper)
endif()
# Install the custom-generated __init__.py # Install the custom-generated __init__.py with gtsam_unstable disabled
install_cython_files("${PROJECT_BINARY_DIR}/cython/gtsam/__init__.py" "${GTSAM_CYTHON_INSTALL_PATH}/gtsam") # This is to make the build/cython/gtsam folder a python package, so gtsam can be found while wrapping gtsam_unstable
configure_file(${PROJECT_SOURCE_DIR}/cython/gtsam/__init__.py.in ${PROJECT_BINARY_DIR}/cython/gtsam/__init__.py)
install_cython_files("${PROJECT_BINARY_DIR}/cython/gtsam/__init__.py" "${GTSAM_CYTHON_INSTALL_PATH}/gtsam")
# install scripts and tests
install_cython_scripts("${PROJECT_SOURCE_DIR}/cython/gtsam" "${GTSAM_CYTHON_INSTALL_PATH}" "*.py")
endif ()

24
cython/gtsam/setup.py.in
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@ -1,24 +0,0 @@
from distutils.core import setup
from distutils.extension import Extension
from Cython.Build import cythonize
import eigency
import sys
import os
os.environ["CXX"] = "${CMAKE_CXX_COMPILER}"
os.environ["CC"] = "${CMAKE_C_COMPILER}"
setup(
ext_modules = cythonize(Extension(
"gtsam",
sources=["gtsam.pyx"],
include_dirs = ["${PROJECT_SOURCE_DIR}", "${CMAKE_BINARY_DIR}",
"${PROJECT_SOURCE_DIR}/gtsam/3rdparty/Eigen",
"${Boost_INCLUDE_DIR}"
] + eigency.get_includes(include_eigen=False),
libraries = ['gtsam${gtsam_library_postfix}'],
library_dirs = ["${CMAKE_CURRENT_BINARY_DIR}"],
language="c++",
extra_compile_args="${CMAKE_CXX_FLAGS}".split(),
extra_link_args="${CMAKE_SHARED_LINKER_FLAGS}".split()))
)

29
cython/gtsam_unstable/setup.py.in
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@ -1,29 +0,0 @@
from distutils.core import setup
from distutils.extension import Extension
from Cython.Build import cythonize
import eigency
import sys
import os
# so that it can find the wrapped gtsam package
sys.path.append("..")
os.environ["CXX"] = "${CMAKE_CXX_COMPILER}"
os.environ["CC"] = "${CMAKE_C_COMPILER}"
setup(
ext_modules=cythonize(Extension(
"gtsam_unstable",
sources=["gtsam_unstable.pyx"],
include_dirs = ["${CMAKE_SOURCE_DIR}", "${CMAKE_BINARY_DIR}",
"${CMAKE_SOURCE_DIR}/gtsam/3rdparty/Eigen",
"${Boost_INCLUDE_DIR}"
] + eigency.get_includes(include_eigen=False),
libraries=['gtsam${gtsam_library_postfix}', 'gtsam_unstable${gtsam_library_postfix}'],
library_dirs = ["${CMAKE_BINARY_DIR}/gtsam",
"${CMAKE_BINARY_DIR}/gtsam_unstable"],
language="c++",
extra_compile_args="${CMAKE_CXX_FLAGS}".split(),
extra_link_args="${CMAKE_SHARED_LINKER_FLAGS}".split()))
)

12
gtsam/CMakeLists.txt
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@ -166,15 +166,3 @@ if (GTSAM_INSTALL_MATLAB_TOOLBOX)
wrap_and_install_library(../gtsam.h "${GTSAM_ADDITIONAL_LIBRARIES}" "" "${mexFlags}") wrap_and_install_library(../gtsam.h "${GTSAM_ADDITIONAL_LIBRARIES}" "" "${mexFlags}")
endif () endif ()
# Create the cython toolbox for the gtsam library
if (GTSAM_INSTALL_CYTHON_TOOLBOX)
# Set up codegen
include(GtsamCythonWrap)
# Wrap
wrap_and_install_library_cython("../gtsam.h" # interface_header
"" # extra imports
"../cython/gtsam" # path to setup.py.in
"${GTSAM_CYTHON_INSTALL_PATH}/gtsam" # install path
)
endif ()

14
gtsam_unstable/CMakeLists.txt
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@ -118,20 +118,6 @@ if (GTSAM_INSTALL_MATLAB_TOOLBOX)
wrap_and_install_library(gtsam_unstable.h "gtsam" "" "${mexFlags}") wrap_and_install_library(gtsam_unstable.h "gtsam" "" "${mexFlags}")
endif(GTSAM_INSTALL_MATLAB_TOOLBOX) endif(GTSAM_INSTALL_MATLAB_TOOLBOX)
# Cython wrap for gtsam_unstable
# Create the matlab toolbox for the gtsam library
if (GTSAM_INSTALL_CYTHON_TOOLBOX)
# Set up codegen
include(GtsamCythonWrap)
# Wrap
wrap_and_install_library_cython("../gtsam_unstable/gtsam_unstable.h" # interface_header
"from gtsam.gtsam cimport *" # extra imports
"../cython/gtsam_unstable" # path to setup.py.in
"${GTSAM_CYTHON_INSTALL_PATH}/gtsam" # install path
)
add_dependencies(gtsam_unstable_cython_wrapper gtsam_cython_wrapper)
endif ()
# Build examples # Build examples
add_subdirectory(examples) add_subdirectory(examples)