|
| 1 | +# Initialize the CMake project |
| 2 | +cmake_minimum_required(VERSION 3.20) |
| 3 | + |
| 4 | +################################################## |
| 5 | +# If we are running in a Conda environment, we automatically |
| 6 | +# add the Conda env prefix to the CMAKE_PREFIX_PATH |
| 7 | + |
| 8 | +if(DEFINED ENV{CONDA_PREFIX}) |
| 9 | + list(APPEND CMAKE_PREFIX_PATH "$ENV{CONDA_PREFIX}") |
| 10 | + #TODO: Windows Conda environments are structured differently, |
| 11 | + # how unfortunate is this? |
| 12 | + list(APPEND CMAKE_PREFIX_PATH "$ENV{CONDA_PREFIX}/Library") |
| 13 | +endif() |
| 14 | + |
| 15 | +set(CMAKE_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}/cmake") |
| 16 | +include("Anaconda") |
| 17 | + |
| 18 | +################################################## |
| 19 | +# Define the version |
| 20 | + |
| 21 | +if(SKBUILD) |
| 22 | + set(SEQANA_TOOL_VERSION ${SKBUILD_PROJECT_VERSION}) |
| 23 | +else() |
| 24 | + set(SEQANA_VERSION "2.0.0") |
| 25 | +endif() |
| 26 | + |
| 27 | +project(openalea.sequence_analysis |
| 28 | + VERSION ${SEQANA_VERSION} |
| 29 | + LANGUAGES CXX |
| 30 | + DESCRIPTION "Statistical analysis of plant architecture sequences") |
| 31 | + |
| 32 | +################################################## |
| 33 | +# Set CMake policies for this project |
| 34 | + |
| 35 | +# We allow <Package>_ROOT (env) variables for locating dependencies using find_paclage |
| 36 | +cmake_policy(SET CMP0074 NEW) |
| 37 | +# We allow target_sources to convert relative paths to absolute paths |
| 38 | +cmake_policy(SET CMP0076 NEW) |
| 39 | + # for Python*_FIND_STRATEGY=LOCATION |
| 40 | +cmake_policy(SET CMP0094 NEW) |
| 41 | +cmake_policy(SET CMP0167 NEW) |
| 42 | +################################################## |
| 43 | +# Initialize some default paths |
| 44 | +# See https://cmake.org/cmake/help/latest/module/GNUInstallDirs.html |
| 45 | +include(GNUInstallDirs) |
| 46 | + |
| 47 | +################################################## |
| 48 | +# Set C++ standard and compile options |
| 49 | + |
| 50 | +set(CMAKE_CXX_STANDARD 14) |
| 51 | +set(CMAKE_CXX_STANDARD_REQUIRED ON) |
| 52 | +# set(CMAKE_CXX_EXTENSIONS ON) |
| 53 | + |
| 54 | +# This may be set in pyproject.toml |
| 55 | +set(CMAKE_VERBOSE_MAKEFILE ON) |
| 56 | + |
| 57 | +################################################## |
| 58 | +# For Python bindings, we need to enable position-independent code |
| 59 | +set(CMAKE_POSITION_INDEPENDENT_CODE ON) # For shared libs |
| 60 | + |
| 61 | +################################################## |
| 62 | +# TODO : REMOVE? |
| 63 | +# if(WIN32) |
| 64 | +# set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -enable-stdcall-fixup -enable-auto-import -enable-runtime-pseudo-reloc -s") |
| 65 | +# endif() |
| 66 | + |
| 67 | + |
| 68 | +# RPath settings |
| 69 | +set(CMAKE_SKIP_BUILD_RPATH FALSE) |
| 70 | +set(CMAKE_BUILD_WITH_INSTALL_RPATH FALSE) |
| 71 | +set(CMAKE_INSTALL_RPATH ${CMAKE_INSTALL_PREFIX}/${CMAKE_INSTALL_LIBDIR}) |
| 72 | +set(CMAKE_INSTALL_RPATH_USE_LINK_PATH TRUE) |
| 73 | +list( |
| 74 | + FIND |
| 75 | + CMAKE_PLATFORM_IMPLICIT_LINK_DIRECTORIES |
| 76 | + ${CMAKE_INSTALL_PREFIX}/${CMAKE_INSTALL_LIBDIR} |
| 77 | + isSystemDir |
| 78 | +) |
| 79 | +if("${isSystemDir}" STREQUAL "-1") |
| 80 | + set(CMAKE_INSTALL_RPATH ${CMAKE_INSTALL_PREFIX}/${CMAKE_INSTALL_LIBDIR}) |
| 81 | +endif("${isSystemDir}" STREQUAL "-1") |
| 82 | + |
| 83 | + |
| 84 | +if (WIN32) |
| 85 | + string(REGEX REPLACE "/W3" "/W0" ${CMAKE_CXX_FLAGS} "${${CMAKE_CXX_FLAGS}}") |
| 86 | + set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /MD") |
| 87 | + |
| 88 | + # To fix compilation error with vc14 and boost |
| 89 | + set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /DHAVE_SNPRINTF") |
| 90 | +endif() |
| 91 | + |
| 92 | +# Options |
| 93 | +option(WITH_EFENCE "Build with efence library" OFF) |
| 94 | +option(WITH_TEST "Build tests" OFF) |
| 95 | + |
| 96 | +################################################## |
| 97 | +# Add a library for sequence_analysis and its Python wrappers |
| 98 | +add_library(oasequence_analysis SHARED) |
| 99 | + |
| 100 | +################################################## |
| 101 | +# Find external dependencies |
| 102 | +find_package(Python COMPONENTS Interpreter Development.Module REQUIRED) |
| 103 | +find_package(Boost REQUIRED COMPONENTS python) |
| 104 | +# TODO |
| 105 | + |
| 106 | +find_library(STAT_TOOL_LIB NAMES oastat_tool) |
| 107 | + |
| 108 | +#find_package(openalea.stat_tool REQUIRED) |
| 109 | + |
| 110 | +################################################## |
| 111 | +# Setup lib, inc, defines for C++ oastat_tool lib |
| 112 | + |
| 113 | +target_link_libraries(oasequence_analysis PUBLIC ${STAT_TOOL_LIB}) |
| 114 | + |
| 115 | +target_include_directories(oasequence_analysis |
| 116 | + PUBLIC |
| 117 | + ${Boost_INCLUDE_DIRS} |
| 118 | + ${CONDA_ENV}include |
| 119 | +) |
| 120 | + |
| 121 | +# Export symbols on Windows |
| 122 | +# if (WIN32 OR MSVC) |
| 123 | +# target_compile_definitions(oasequence_analysis PUBLIC STAT_TOOL_MAKEDLL) |
| 124 | +# endif() |
| 125 | + |
| 126 | +# Optionally add efence |
| 127 | +if(WITH_EFENCE) |
| 128 | + find_library(EFENCE_LIBRARY NAMES efence) |
| 129 | + if(EFENCE_LIBRARY) |
| 130 | + target_link_libraries(oasequence_analysis PUBLIC efence) |
| 131 | + target_compile_definitions(oasequence_analysis PUBLIC DEBUG) |
| 132 | + else() |
| 133 | + message(WARNING "Could not find efence library, disabling it") |
| 134 | + endif() |
| 135 | +endif() |
| 136 | + |
| 137 | +# Add files to build |
| 138 | +add_subdirectory(src/cpp/sequence_analysis) |
| 139 | + |
| 140 | + |
| 141 | +################################################## |
| 142 | +# Add a Python binding library |
| 143 | +python_add_library(_sequence_analysis MODULE) |
| 144 | + |
| 145 | +target_include_directories(oasequence_analysis |
| 146 | + PUBLIC |
| 147 | + "src/cpp" |
| 148 | +) |
| 149 | + |
| 150 | +target_link_libraries(_sequence_analysis |
| 151 | + PRIVATE |
| 152 | + ${OASTAT_LIB} |
| 153 | + oasequence_analysis |
| 154 | + Boost::python |
| 155 | + Python::Module |
| 156 | + ) |
| 157 | + |
| 158 | + target_compile_definitions(_sequence_analysis PRIVATE BOOST_ALL_NO_LIB) |
| 159 | + |
| 160 | + # Control the output name of the produced shared library |
| 161 | + set_target_properties(_sequence_analysis PROPERTIES PREFIX "") |
| 162 | + set_target_properties(_sequence_analysis PROPERTIES OUTPUT_NAME "_sequence_analysis") |
| 163 | + if(WIN32) |
| 164 | + set_target_properties(_sequence_analysis PROPERTIES SUFFIX ".pyd") |
| 165 | + elseif(APPLE) |
| 166 | + set_target_properties(_sequence_analysis PROPERTIES SUFFIX ".so") |
| 167 | + endif() |
| 168 | + |
| 169 | +add_subdirectory("src/wrapper/") |
| 170 | + |
| 171 | + |
| 172 | +if(APPLE) |
| 173 | + set_target_properties(_sequence_analysis PROPERTIES INSTALL_RPATH "@loader_path/.") |
| 174 | +elseif(UNIX) |
| 175 | + set_target_properties(_sequence_analysis PROPERTIES INSTALL_RPATH "$ORIGIN/.") |
| 176 | +endif() |
| 177 | + |
| 178 | +################################################## |
| 179 | +# Install targets and headers for sequence_analysis lib |
| 180 | +install(TARGETS oasequence_analysis |
| 181 | + RUNTIME DESTINATION "${CONDA_ENV}bin/" |
| 182 | + LIBRARY DESTINATION "${CONDA_ENV}lib/" |
| 183 | + ARCHIVE DESTINATION "${CONDA_ENV}lib/" |
| 184 | +) |
| 185 | + |
| 186 | +install( |
| 187 | + TARGETS |
| 188 | + _sequence_analysis |
| 189 | + DESTINATION "${SKBUILD_PLATLIB_DIR}/openalea/sequence_analysis" |
| 190 | +) |
| 191 | + |
| 192 | +# Optionally handle tests |
| 193 | +# TODO TO TEST |
| 194 | +if(WITH_TEST) |
| 195 | + enable_testing() |
| 196 | + add_subdirectory(test/cpp) |
| 197 | +endif() |
| 198 | + |
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