-
Notifications
You must be signed in to change notification settings - Fork 2
/
WrapPython.cmake
153 lines (135 loc) · 8.55 KB
/
WrapPython.cmake
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
# Copyright (c) 2005-2017, University of Oxford.
# All rights reserved.
#
# University of Oxford means the Chancellor, Masters and Scholars of the
# University of Oxford, having an administrative office at Wellington
# Square, Oxford OX1 2JD, UK.
#
# This file is part of Chaste.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
# * Redistributions of source code must retain the above copyright notice,
# this list of conditions and the following disclaimer.
# * Redistributions in binary form must reproduce the above copyright notice,
# this list of conditions and the following disclaimer in the documentation
# and/or other materials provided with the distribution.
# * Neither the name of the University of Oxford nor the names of its
# contributors may be used to endorse or promote products derived from this
# software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
# ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
# LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
# CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
# GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
# LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
# OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
add_compile_options(-Wno-unused-local-typedefs)
# Build the Python bindings
add_definitions(-DCHASTE_MicrovesselChaste_PYTHON)
find_package(PythonLibs REQUIRED)
include_directories(${PYTHON_INCLUDE_DIRS})
# Find the Chaste and third party dependency header files.
# Add any cmake modules defined in this project
list(APPEND CMAKE_MODULE_PATH ${CMAKE_CURRENT_SOURCE_DIR} PARENT_SCOPE)
include_directories(${Chaste_INCLUDE_DIRS} ${Chaste_THIRD_PARTY_INCLUDE_DIRS})
# Any non-wrapper code (code in the src folder) in this project needs to be put in its own shared library.
if(APPLE)
set(PROJECT_MicrovesselChaste_LIB ${CMAKE_CURRENT_BINARY_DIR}/libchaste_project_MicrovesselChaste.dylib)
elseif(WIN32)
set(PROJECT_MicrovesselChaste_LIB ${CMAKE_CURRENT_BINARY_DIR}/libchaste_project_MicrovesselChaste.dll)
else()
set(PROJECT_MicrovesselChaste_LIB ${CMAKE_CURRENT_BINARY_DIR}/libchaste_project_MicrovesselChaste.so)
endif()
# These packages are needed for binding generation
set(CASTXML_EXE_LOC "/usr/bin/castxml" CACHE FILEPATH "Path to the castxml executable.")
# Collect the header directories for this project
include(${CMAKE_CURRENT_SOURCE_DIR}/ProjectIncludes.cmake)
include_directories(${CMAKE_CURRENT_SOURCE_DIR}/dynamic/)
include_directories(${CMAKE_CURRENT_SOURCE_DIR}/dynamic/wrappers)
include_directories(${CMAKE_SOURCE_DIR}/projects/PyChaste/src)
set (CMAKE_CXX_STANDARD 11)
if(CMAKE_COMPILER_IS_GNUCXX)
# https://svn.boost.org/trac/boost/ticket/9240
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -fext-numeric-literals")
endif()
include_directories(${CMAKE_CURRENT_SOURCE_DIR}/dynamic/pybind11/include)
set(PYBIND11_PYTHON_VERSION 2.7)
set(PYBIND11_CPP_STANDARD -std=c++11)
include_directories(${PYTHON_INCLUDE_DIRS})
######### Build the Python modules ######################
set (MicrovesselChaste_AUTO_MODULES "")
set (MicrovesselChaste_PYTHON_MODULES "")
set (MicrovesselChaste_PYTHON_MODULE_LOCATIONS "")
# Auto wrapper
list (APPEND MicrovesselChaste_AUTO_MODULES utility)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/utility)
list (APPEND MicrovesselChaste_AUTO_MODULES geometry)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/geometry)
list (APPEND MicrovesselChaste_AUTO_MODULES mesh)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/mesh)
list (APPEND MicrovesselChaste_AUTO_MODULES vessel)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/population/vessel/)
list (APPEND MicrovesselChaste_AUTO_MODULES pde)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/pde/)
list (APPEND MicrovesselChaste_AUTO_MODULES flow)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/simulation/)
list (APPEND MicrovesselChaste_AUTO_MODULES simulation)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/simulation/)
list (APPEND MicrovesselChaste_AUTO_MODULES angiogenesis)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/simulation/)
list (APPEND MicrovesselChaste_AUTO_MODULES cell)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/population/cell/)
list (APPEND MicrovesselChaste_AUTO_MODULES visualization)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/visualization)
list (APPEND MicrovesselChaste_AUTO_MODULES image)
list (APPEND MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${CMAKE_CURRENT_BINARY_DIR}/python/microvessel_chaste/image)
list (APPEND MicrovesselChaste_PYTHON_MODULES ${MicrovesselChaste_AUTO_MODULES})
file(COPY ${CMAKE_CURRENT_SOURCE_DIR}/src/python/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/ PATTERN "*.so" EXCLUDE)
file(COPY ${CMAKE_CURRENT_SOURCE_DIR}/test/python/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/test/)
file(COPY ${CMAKE_CURRENT_SOURCE_DIR}/doc/ DESTINATION ${CMAKE_CURRENT_BINARY_DIR}/python/doc/)
# Loop through each module that uses auto wrapper code generation and make the wrapper code
add_custom_target(project_MicrovesselChaste_Python_Bindings)
list(LENGTH MicrovesselChaste_AUTO_MODULES len1_auto)
math(EXPR len2_auto "${len1_auto} - 1")
foreach(val RANGE ${len2_auto})
list(GET MicrovesselChaste_AUTO_MODULES ${val} python_module)
file(MAKE_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}/dynamic/wrappers/${python_module})
endforeach()
SET(arguments ${CMAKE_SOURCE_DIR}/)
LIST(APPEND arguments ${CMAKE_CURRENT_SOURCE_DIR}/dynamic/wrappers/)
LIST(APPEND arguments ${CMAKE_CURRENT_SOURCE_DIR}/dynamic/wrapper_generators/package_info.yaml)
LIST(APPEND arguments ${CASTXML_EXE_LOC})
LIST(APPEND arguments ${MicrovesselChaste_INCLUDE_DIRS})
LIST(APPEND arguments ${Chaste_INCLUDE_DIRS})
LIST(APPEND arguments ${Chaste_THIRD_PARTY_INCLUDE_DIRS})
add_custom_command(TARGET project_MicrovesselChaste_Python_Bindings COMMAND python ${CMAKE_CURRENT_SOURCE_DIR}/dynamic/wrapper_generators/generate.py ${arguments})
# Build the modules
list(LENGTH MicrovesselChaste_PYTHON_MODULES len1)
math(EXPR len2 "${len1} - 1")
foreach(val RANGE ${len2})
list(GET MicrovesselChaste_PYTHON_MODULES ${val} python_module)
list(GET MicrovesselChaste_PYTHON_MODULE_LOCATIONS ${val} python_module_location)
file(GLOB MODULE_SOURCES ${CMAKE_CURRENT_SOURCE_DIR}/dynamic/wrappers/${python_module}/*.cpp)
# each module is in the 'dynamic' directory. The library name must be the same as that defined in the cpp file. It is customary
# to start the name with an underscore. The usual 'lib' prefix is disabled.
add_library(_chaste_project_MicrovesselChaste_${python_module} SHARED ${MODULE_SOURCES})
set_target_properties(_chaste_project_MicrovesselChaste_${python_module} PROPERTIES PREFIX "" SUFFIX ".so"
LIBRARY_OUTPUT_DIRECTORY ${python_module_location})
target_compile_features(_chaste_project_MicrovesselChaste_${python_module} PRIVATE cxx_range_for)
# order is important, boost python and python come first
target_link_libraries(_chaste_project_MicrovesselChaste_${python_module} pybind11::module ${PYTHON_LIBRARIES} ${Chaste_THIRD_PARTY_LIBRARIES} ${Chaste_LIBRARIES} ${PROJECT_MicrovesselChaste_LIB})
add_dependencies(_chaste_project_MicrovesselChaste_${python_module} chaste_project_MicrovesselChaste)
endforeach()
#
# Add a target so all the libraries are built with a single command
add_custom_target(project_MicrovesselChaste_Python)
foreach(val RANGE ${len2})
list(GET MicrovesselChaste_PYTHON_MODULES ${val} python_module)
add_dependencies(project_MicrovesselChaste_Python _chaste_project_MicrovesselChaste_${python_module})
endforeach()