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CMakeLists.txt
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# Preamble ####################################################################
#
cmake_minimum_required(VERSION 3.12.0)
project(openPMD VERSION 0.12.1) # LANGUAGES CXX
# the openPMD "markup"/"schema" standard version
set(openPMD_STANDARD_VERSION 1.1.0)
list(APPEND CMAKE_MODULE_PATH "${openPMD_SOURCE_DIR}/share/openPMD/cmake")
# CMake policies ##############################################################
#
# Search in <PackageName>_ROOT:
# https://cmake.org/cmake/help/v3.12/policy/CMP0074.html
if(POLICY CMP0074)
cmake_policy(SET CMP0074 NEW)
endif()
# Project structure ###########################################################
#
# temporary build directories
if(NOT CMAKE_ARCHIVE_OUTPUT_DIRECTORY)
set(CMAKE_ARCHIVE_OUTPUT_DIRECTORY "${CMAKE_BINARY_DIR}/lib"
CACHE PATH "Build directory for archives")
endif()
if(NOT CMAKE_LIBRARY_OUTPUT_DIRECTORY)
set(CMAKE_LIBRARY_OUTPUT_DIRECTORY "${CMAKE_BINARY_DIR}/lib"
CACHE PATH "Build directory for libraries")
endif()
if(NOT CMAKE_RUNTIME_OUTPUT_DIRECTORY)
set(CMAKE_RUNTIME_OUTPUT_DIRECTORY "${CMAKE_BINARY_DIR}/bin"
CACHE PATH "Build directory for binaries")
endif()
# install directories
if(CMAKE_SOURCE_DIR STREQUAL PROJECT_SOURCE_DIR)
include(GNUInstallDirs)
set(CMAKE_INSTALL_CMAKEDIR "${CMAKE_INSTALL_LIBDIR}/cmake/openPMD"
CACHE PATH "CMake config package location for installed targets")
if(WIN32)
set(CMAKE_INSTALL_LIBDIR Lib
CACHE PATH "Object code libraries")
set_property(CACHE CMAKE_INSTALL_CMAKEDIR PROPERTY VALUE "cmake")
endif()
endif()
# Options and Variants ########################################################
#
function(openpmd_option name description default)
set(openPMD_USE_${name} ${default} CACHE STRING "${description}")
set_property(CACHE openPMD_USE_${name} PROPERTY
STRINGS "ON;TRUE;AUTO;OFF;FALSE"
)
if(openPMD_HAVE_${name})
set(openPMD_HAVE_${name} TRUE)
else()
set(openPMD_HAVE_${name})
endif()
# list of all possible options
set(openPMD_CONFIG_OPTIONS ${openPMD_CONFIG_OPTIONS} ${name} PARENT_SCOPE)
endfunction()
openpmd_option(MPI "Parallel, Multi-Node I/O for clusters" AUTO)
openpmd_option(HDF5 "HDF5 backend (.h5 files)" AUTO)
openpmd_option(ADIOS1 "ADIOS1 backend (.bp files)" AUTO)
openpmd_option(ADIOS2 "ADIOS2 backend (.bp files)" AUTO)
openpmd_option(PYTHON "Enable Python bindings" AUTO)
option(openPMD_INSTALL "Add installation targets" ON)
option(openPMD_HAVE_PKGCONFIG "Generate a .pc file for pkg-config" ON)
option(openPMD_USE_INTERNAL_VARIANT "Use internally shipped MPark.Variant" ON)
option(openPMD_USE_INTERNAL_CATCH "Use internally shipped Catch2" ON)
option(openPMD_USE_INTERNAL_PYBIND11 "Use internally shipped pybind11" ON)
option(openPMD_USE_INTERNAL_JSON "Use internally shipped nlohmann-json" ON)
option(openPMD_USE_INVASIVE_TESTS "Enable unit tests that modify source code" OFF)
option(openPMD_USE_VERIFY "Enable internal VERIFY (assert) macro independent of build type" ON)
set(CMAKE_CONFIGURATION_TYPES "Release;Debug;MinSizeRel;RelWithDebInfo")
if(NOT CMAKE_BUILD_TYPE)
set(CMAKE_BUILD_TYPE "Release" CACHE STRING
"Choose the build type, e.g. Release or Debug." FORCE)
endif()
include(CMakeDependentOption)
# change CMake default (static libs):
# build shared libs if supported by target platform
get_property(SHARED_LIBS_SUPPORTED GLOBAL PROPERTY TARGET_SUPPORTS_SHARED_LIBS)
cmake_dependent_option(BUILD_SHARED_LIBS
"Build shared libraries (so/dylib/dll)."
${SHARED_LIBS_SUPPORTED}
"SHARED_LIBS_SUPPORTED" OFF
)
mark_as_advanced(BUILD_SHARED_LIBS)
include(CTest)
# automatically defines: BUILD_TESTING, default is ON
option(BUILD_CLI_TOOLS "Build the command line tools" ON)
option(BUILD_EXAMPLES "Build the examples" ON)
# Dependencies ################################################################
#
# external library: MPI (optional)
if(openPMD_USE_MPI STREQUAL AUTO)
find_package(MPI)
if(MPI_FOUND)
set(openPMD_HAVE_MPI TRUE)
else()
set(openPMD_HAVE_MPI FALSE)
endif()
elseif(openPMD_USE_MPI)
find_package(MPI REQUIRED)
set(openPMD_HAVE_MPI TRUE)
else()
set(openPMD_HAVE_MPI FALSE)
endif()
# external library: nlohmann-json (required)
if(openPMD_USE_INTERNAL_JSON)
set(JSON_BuildTests OFF CACHE INTERNAL "")
set(JSON_Install OFF CACHE INTERNAL "") # only used PRIVATE
add_subdirectory("${openPMD_SOURCE_DIR}/share/openPMD/thirdParty/json")
message(STATUS "nlohmann-json: Using INTERNAL version '3.9.1'")
else()
find_package(nlohmann_json 3.9.1 CONFIG REQUIRED)
message(STATUS "nlohmann-json: Found version '${nlohmann_json_VERSION}'")
endif()
add_library(openPMD::thirdparty::nlohmann_json INTERFACE IMPORTED)
target_link_libraries(openPMD::thirdparty::nlohmann_json
INTERFACE nlohmann_json::nlohmann_json)
# external library: HDF5 (optional)
if(openPMD_USE_HDF5 STREQUAL AUTO)
set(HDF5_PREFER_PARALLEL ${openPMD_HAVE_MPI})
find_package(HDF5 1.8.13 COMPONENTS C)
if(HDF5_FOUND)
set(openPMD_HAVE_HDF5 TRUE)
else()
set(openPMD_HAVE_HDF5 FALSE)
endif()
elseif(openPMD_USE_HDF5)
set(HDF5_PREFER_PARALLEL ${openPMD_HAVE_MPI})
find_package(HDF5 1.8.13 REQUIRED COMPONENTS C)
set(openPMD_HAVE_HDF5 TRUE)
else()
set(openPMD_HAVE_HDF5 FALSE)
endif()
# we imply support for parallel I/O if MPI variant is ON
if(openPMD_HAVE_MPI AND openPMD_HAVE_HDF5 AND NOT HDF5_IS_PARALLEL)
string(CONCAT openPMD_HDF5_STATUS
"Found MPI but only serial version of HDF5. Either set "
"openPMD_USE_MPI=OFF to disable MPI or set openPMD_USE_HDF5=OFF "
"to disable HDF5 or provide a parallel install of HDF5.")
if(openPMD_USE_HDF5 STREQUAL AUTO)
message(WARNING "${openPMD_HDF5_STATUS}")
set(openPMD_HAVE_HDF5 FALSE)
elseif(openPMD_USE_HDF5)
message(FATAL_ERROR "${openPMD_HDF5_STATUS}")
endif()
endif()
# HDF5 includes mpi.h in the public header H5public.h if HDF5_IS_PARALLEL
if(openPMD_HAVE_HDF5 AND HDF5_IS_PARALLEL AND NOT openPMD_HAVE_MPI)
string(CONCAT openPMD_HDF5_STATUS
"Found only parallel version of HDF5 but no MPI. Either set "
"openPMD_USE_MPI=ON to force using MPI or set openPMD_USE_HDF5=OFF "
"to disable HDF5 or provide a serial install of HDF5.")
if(openPMD_USE_HDF5 STREQUAL AUTO)
message(WARNING "${openPMD_HDF5_STATUS}")
set(openPMD_HAVE_HDF5 FALSE)
elseif(openPMD_USE_HDF5)
message(FATAL_ERROR "${openPMD_HDF5_STATUS}")
endif()
endif()
# always search for a sequential lib first, so we can mock MPI
find_package(ADIOS 1.13.1 COMPONENTS sequential QUIET)
set(ADIOS_DEFINITIONS_SEQUENTIAL ${ADIOS_DEFINITIONS})
set(ADIOS_LIBRARIES_SEQUENTIAL ${ADIOS_LIBRARIES})
set(ADIOS_INCLUDE_DIRS_SEQUENTIAL ${ADIOS_INCLUDE_DIRS})
unset(ADIOS_FOUND CACHE)
unset(ADIOS_VERSION CACHE)
# regular logic
set(ADIOS1_PREFER_COMPONENTS)
if(NOT openPMD_HAVE_MPI)
set(ADIOS1_PREFER_COMPONENTS sequential)
endif()
if(openPMD_USE_ADIOS1 STREQUAL AUTO)
find_package(ADIOS 1.13.1 COMPONENTS ${ADIOS1_PREFER_COMPONENTS})
if(ADIOS_FOUND)
set(openPMD_HAVE_ADIOS1 TRUE)
else()
set(openPMD_HAVE_ADIOS1 FALSE)
endif()
elseif(openPMD_USE_ADIOS1)
find_package(ADIOS 1.13.1 REQUIRED COMPONENTS ${ADIOS1_PREFER_COMPONENTS})
set(openPMD_HAVE_ADIOS1 TRUE)
else()
set(openPMD_HAVE_ADIOS1 FALSE)
endif()
if(openPMD_HAVE_MPI AND openPMD_HAVE_ADIOS1 AND ADIOS_HAVE_SEQUENTIAL)
string(CONCAT openPMD_ADIOS1_STATUS
"Found MPI but requested ADIOS1 is serial. "
"Set openPMD_USE_MPI=OFF to disable MPI.")
if(openPMD_USE_ADIOS1 STREQUAL AUTO)
message(WARNING "${openPMD_ADIOS1_STATUS}")
set(openPMD_HAVE_ADIOS1 FALSE)
elseif(openPMD_USE_ADIOS1)
message(FATAL_ERROR "${openPMD_ADIOS1_STATUS}")
endif()
endif()
if(NOT openPMD_HAVE_MPI AND openPMD_HAVE_ADIOS1 AND NOT ADIOS_HAVE_SEQUENTIAL)
string(CONCAT openPMD_ADIOS1_STATUS
"Did not find MPI but requested ADIOS1 is parallel. "
"Set openPMD_USE_ADIOS1=OFF to disable ADIOS1.")
if(openPMD_USE_ADIOS1 STREQUAL AUTO)
message(WARNING "${openPMD_ADIOS1_STATUS}")
set(openPMD_HAVE_ADIOS1 FALSE)
elseif(openPMD_USE_ADIOS1)
message(FATAL_ERROR "${openPMD_ADIOS1_STATUS}")
endif()
endif()
# external library: ADIOS2 (optional)
if(openPMD_USE_ADIOS2 STREQUAL AUTO)
find_package(ADIOS2 2.6.0 CONFIG)
if(ADIOS2_FOUND)
set(openPMD_HAVE_ADIOS2 TRUE)
else()
set(openPMD_HAVE_ADIOS2 FALSE)
endif()
elseif(openPMD_USE_ADIOS2)
find_package(ADIOS2 2.6.0 REQUIRED CONFIG)
set(openPMD_HAVE_ADIOS2 TRUE)
else()
set(openPMD_HAVE_ADIOS2 FALSE)
endif()
# TODO: Check if ADIOS2 is parallel when openPMD_HAVE_MPI is ON
# external library: pybind11 (optional)
if(openPMD_USE_PYTHON STREQUAL AUTO)
if(openPMD_USE_INTERNAL_PYBIND11)
add_subdirectory("${openPMD_SOURCE_DIR}/share/openPMD/thirdParty/pybind11")
set(openPMD_HAVE_PYTHON TRUE)
message(STATUS "pybind11: Using INTERNAL version 2.4.3")
else()
find_package(pybind11 2.4.3 CONFIG)
if(pybind11_FOUND)
set(openPMD_HAVE_PYTHON TRUE)
message(STATUS "pybind11: Found version '${pybind11_VERSION}'")
else()
set(openPMD_HAVE_PYTHON FALSE)
endif()
endif()
if(openPMD_HAVE_PYTHON AND
PYTHON_VERSION_MAJOR LESS 3)
set(openPMD_HAVE_PYTHON FALSE)
message(STATUS "python: Found version '"
"${PYTHON_VERSION_MAJOR}.${PYTHON_VERSION_MINOR}' "
"is NOT supported. Set for example "
"-DPYTHON_EXECUTABLE=$(which python3) "
"to use 3.6+.")
endif()
elseif(openPMD_USE_PYTHON)
if(openPMD_USE_INTERNAL_PYBIND11)
add_subdirectory("${openPMD_SOURCE_DIR}/share/openPMD/thirdParty/pybind11")
set(openPMD_HAVE_PYTHON TRUE)
message(STATUS "pybind11: Using INTERNAL version 2.4.3")
else()
find_package(pybind11 2.4.3 REQUIRED CONFIG)
set(openPMD_HAVE_PYTHON TRUE)
message(STATUS "pybind11: Found version '${pybind11_VERSION}'")
endif()
if(PYTHON_VERSION_MAJOR LESS 3)
message(FATAL_ERROR "python: Found version '"
"${PYTHON_VERSION_MAJOR}.${PYTHON_VERSION_MINOR}' "
"is NOT supported. Set for example "
"-DPYTHON_EXECUTABLE=$(which python3) "
"to use 3.6+.")
endif()
else()
set(openPMD_HAVE_PYTHON FALSE)
endif()
if(openPMD_HAVE_PYTHON)
add_library(openPMD::thirdparty::pybind11 INTERFACE IMPORTED)
target_link_libraries(openPMD::thirdparty::pybind11
INTERFACE pybind11::pybind11)
endif()
# Targets #####################################################################
#
set(CORE_SOURCE
src/config.cpp
src/ChunkInfo.cpp
src/Dataset.cpp
src/Datatype.cpp
src/Format.cpp
src/Iteration.cpp
src/IterationEncoding.cpp
src/Mesh.cpp
src/ParticlePatches.cpp
src/ParticleSpecies.cpp
src/Record.cpp
src/RecordComponent.cpp
src/Series.cpp
src/version.cpp
src/auxiliary/Date.cpp
src/auxiliary/Filesystem.cpp
src/auxiliary/JSON.cpp
src/backend/Attributable.cpp
src/backend/BaseRecordComponent.cpp
src/backend/MeshRecordComponent.cpp
src/backend/PatchRecord.cpp
src/backend/PatchRecordComponent.cpp
src/backend/Writable.cpp
src/benchmark/mpi/OneDimensionalBlockSlicer.cpp
src/helper/list_series.cpp)
set(IO_SOURCE
src/IO/AbstractIOHandlerHelper.cpp
src/IO/DummyIOHandler.cpp
src/IO/IOTask.cpp
src/IO/HDF5/HDF5IOHandler.cpp
src/IO/HDF5/ParallelHDF5IOHandler.cpp
src/IO/JSON/JSONIOHandler.cpp
src/IO/JSON/JSONIOHandlerImpl.cpp
src/IO/JSON/JSONFilePosition.cpp
src/IO/ADIOS/ADIOS2IOHandler.cpp
src/IO/ADIOS/ADIOS2Auxiliary.cpp
src/IO/InvalidatableFile.cpp)
set(IO_ADIOS1_SEQUENTIAL_SOURCE
src/auxiliary/Filesystem.cpp
src/ChunkInfo.cpp
src/IO/ADIOS/ADIOS1IOHandler.cpp)
set(IO_ADIOS1_SOURCE
src/auxiliary/Filesystem.cpp
src/ChunkInfo.cpp
src/IO/ADIOS/ParallelADIOS1IOHandler.cpp)
# library
add_library(openPMD ${CORE_SOURCE} ${IO_SOURCE})
add_library(openPMD::openPMD ALIAS openPMD)
# properties
target_compile_features(openPMD
PUBLIC cxx_std_14
)
set_target_properties(openPMD PROPERTIES
CXX_EXTENSIONS OFF
CXX_STANDARD_REQUIRED ON
POSITION_INDEPENDENT_CODE ON
WINDOWS_EXPORT_ALL_SYMBOLS ON
)
if("${CMAKE_CXX_COMPILER_ID}" STREQUAL "MSVC")
target_compile_options(openPMD PUBLIC "/bigobj")
endif()
# own headers
target_include_directories(openPMD PUBLIC
$<BUILD_INTERFACE:${openPMD_SOURCE_DIR}/include>
$<BUILD_INTERFACE:${openPMD_BINARY_DIR}/include>
$<INSTALL_INTERFACE:include>
)
# C++11 std::variant (C++17 stdlib preview)
# TODO not needed with C++17 compiler
add_library(openPMD::thirdparty::mpark_variant INTERFACE IMPORTED)
if(openPMD_USE_INTERNAL_VARIANT)
target_include_directories(openPMD::thirdparty::mpark_variant SYSTEM INTERFACE
$<BUILD_INTERFACE:${openPMD_SOURCE_DIR}/share/openPMD/thirdParty/variant/include>
)
message(STATUS "MPark.Variant: Using INTERNAL version '1.4.0'")
else()
find_package(mpark_variant 1.3.0 REQUIRED) # TODO: we want 1.4.1+
target_link_libraries(openPMD::thirdparty::mpark_variant
INTERFACE mpark_variant)
message(STATUS "MPark.Variant: Found version '${mpark_variant_VERSION}'")
endif()
target_link_libraries(openPMD PUBLIC openPMD::thirdparty::mpark_variant)
# Catch2 for unit tests
if(BUILD_TESTING)
add_library(openPMD::thirdparty::Catch2 INTERFACE IMPORTED)
if(openPMD_USE_INTERNAL_CATCH)
target_include_directories(openPMD::thirdparty::Catch2 SYSTEM INTERFACE
$<BUILD_INTERFACE:${openPMD_SOURCE_DIR}/share/openPMD/thirdParty/catch2/include>
)
message(STATUS "Catch2: Using INTERNAL version '2.6.1'")
else()
find_package(Catch2 2.6.1 REQUIRED CONFIG)
target_link_libraries(openPMD::thirdparty::Catch2
INTERFACE Catch2::Catch2)
message(STATUS "Catch2: Found version '${Catch2_VERSION}'")
endif()
endif()
if(openPMD_HAVE_MPI)
# MPI targets: CMake 3.9+
# note: often the PUBLIC dependency to CXX is missing in C targets...
target_link_libraries(openPMD PUBLIC MPI::MPI_C MPI::MPI_CXX)
endif()
# JSON Backend and User-Facing Runtime Options
#target_link_libraries(openPMD PRIVATE openPMD::thirdparty::nlohmann_json)
target_include_directories(openPMD SYSTEM PRIVATE
$<TARGET_PROPERTY:openPMD::thirdparty::nlohmann_json,INTERFACE_INCLUDE_DIRECTORIES>)
# HDF5 Backend
if(openPMD_HAVE_HDF5)
target_link_libraries(openPMD PRIVATE ${HDF5_LIBRARIES})
target_include_directories(openPMD SYSTEM PRIVATE ${HDF5_INCLUDE_DIRS})
target_compile_definitions(openPMD PRIVATE ${HDF5_DEFINITIONS})
endif()
# ADIOS1 Backend
if(openPMD_HAVE_ADIOS1)
add_library(openPMD.ADIOS1.Serial SHARED ${IO_ADIOS1_SEQUENTIAL_SOURCE})
add_library(openPMD.ADIOS1.Parallel SHARED ${IO_ADIOS1_SOURCE})
target_compile_features(openPMD.ADIOS1.Serial
PUBLIC cxx_std_14
)
target_compile_features(openPMD.ADIOS1.Parallel
PUBLIC cxx_std_14
)
if("${CMAKE_CXX_COMPILER_ID}" STREQUAL "MSVC")
target_compile_options(openPMD.ADIOS1.Serial PUBLIC "/bigobj")
target_compile_options(openPMD.ADIOS1.Parallel PUBLIC "/bigobj")
endif()
target_link_libraries(openPMD.ADIOS1.Serial PUBLIC openPMD::thirdparty::mpark_variant)
target_link_libraries(openPMD.ADIOS1.Parallel PUBLIC openPMD::thirdparty::mpark_variant)
target_include_directories(openPMD.ADIOS1.Serial SYSTEM PRIVATE
${openPMD_SOURCE_DIR}/include ${openPMD_BINARY_DIR}/include)
target_include_directories(openPMD.ADIOS1.Parallel SYSTEM PRIVATE
${openPMD_SOURCE_DIR}/include ${openPMD_BINARY_DIR}/include)
if(openPMD_HAVE_MPI)
target_link_libraries(openPMD.ADIOS1.Parallel PUBLIC MPI::MPI_C MPI::MPI_CXX)
target_compile_definitions(openPMD.ADIOS1.Parallel PRIVATE openPMD_HAVE_MPI=1)
else()
target_compile_definitions(openPMD.ADIOS1.Parallel PRIVATE openPMD_HAVE_MPI=0)
endif()
set_target_properties(openPMD.ADIOS1.Serial PROPERTIES
CXX_EXTENSIONS OFF
CXX_STANDARD_REQUIRED ON
POSITION_INDEPENDENT_CODE ON
CXX_VISIBILITY_PRESET hidden
VISIBILITY_INLINES_HIDDEN ON
)
if("${CMAKE_SYSTEM_NAME}" MATCHES "Linux")
set_target_properties(openPMD.ADIOS1.Serial PROPERTIES
LINK_FLAGS "-Wl,--exclude-libs,ALL")
elseif("${CMAKE_SYSTEM_NAME}" MATCHES "Darwin")
set_target_properties(openPMD.ADIOS1.Serial PROPERTIES
XCODE_ATTRIBUTE_STRIP_STYLE "non-global"
XCODE_ATTRIBUTE_DEPLOYMENT_POSTPROCESSING "YES"
XCODE_ATTRIBUTE_SEPARATE_STRIP "YES"
)
endif()
foreach(adlib ${ADIOS_LIBRARIES_SEQUENTIAL})
target_link_libraries(openPMD.ADIOS1.Serial PRIVATE ${adlib})
endforeach()
target_include_directories(openPMD.ADIOS1.Serial SYSTEM PRIVATE ${ADIOS_INCLUDE_DIRS_SEQUENTIAL})
target_compile_definitions(openPMD.ADIOS1.Serial PRIVATE "${ADIOS_DEFINITIONS_SEQUENTIAL}")
target_compile_definitions(openPMD.ADIOS1.Serial PRIVATE openPMD_HAVE_ADIOS1=1)
target_compile_definitions(openPMD.ADIOS1.Serial PRIVATE openPMD_HAVE_MPI=0)
target_compile_definitions(openPMD.ADIOS1.Serial PRIVATE _NOMPI=1)
if(openPMD_HAVE_MPI)
set_target_properties(openPMD.ADIOS1.Parallel PROPERTIES
CXX_EXTENSIONS OFF
CXX_STANDARD_REQUIRED ON
POSITION_INDEPENDENT_CODE ON
CXX_VISIBILITY_PRESET hidden
VISIBILITY_INLINES_HIDDEN 1
)
if("${CMAKE_SYSTEM_NAME}" MATCHES "Linux")
set_target_properties(openPMD.ADIOS1.Parallel PROPERTIES
LINK_FLAGS "-Wl,--exclude-libs,ALL")
elseif("${CMAKE_SYSTEM_NAME}" MATCHES "Darwin")
set_target_properties(openPMD.ADIOS1.Parallel PROPERTIES
XCODE_ATTRIBUTE_STRIP_STYLE "non-global"
XCODE_ATTRIBUTE_DEPLOYMENT_POSTPROCESSING "YES"
XCODE_ATTRIBUTE_SEPARATE_STRIP "YES"
)
endif()
foreach(adlib ${ADIOS_LIBRARIES})
target_link_libraries(openPMD.ADIOS1.Parallel PRIVATE ${adlib})
endforeach()
target_include_directories(openPMD.ADIOS1.Parallel SYSTEM PRIVATE ${ADIOS_INCLUDE_DIRS})
target_compile_definitions(openPMD.ADIOS1.Parallel PRIVATE "${ADIOS_DEFINITIONS}")
target_compile_definitions(openPMD.ADIOS1.Parallel PRIVATE openPMD_HAVE_ADIOS1=1)
endif()
# Runtime parameter and API status checks ("asserts")
if(openPMD_USE_VERIFY)
target_compile_definitions(openPMD.ADIOS1.Serial PRIVATE openPMD_USE_VERIFY=1)
target_compile_definitions(openPMD.ADIOS1.Parallel PRIVATE openPMD_USE_VERIFY=1)
else()
target_compile_definitions(openPMD.ADIOS1.Serial PRIVATE openPMD_USE_VERIFY=0)
target_compile_definitions(openPMD.ADIOS1.Parallel PRIVATE openPMD_USE_VERIFY=0)
endif()
target_link_libraries(openPMD PUBLIC openPMD.ADIOS1.Serial)
target_link_libraries(openPMD PUBLIC openPMD.ADIOS1.Parallel)
endif()
# ADIOS2 Backend
if(openPMD_HAVE_ADIOS2)
if(openPMD_HAVE_MPI)
target_link_libraries(openPMD PUBLIC adios2::cxx11_mpi)
else()
target_link_libraries(openPMD PUBLIC adios2::cxx11)
endif()
endif()
# Runtime parameter and API status checks ("asserts")
if(openPMD_USE_VERIFY)
target_compile_definitions(openPMD PRIVATE openPMD_USE_VERIFY=1)
else()
target_compile_definitions(openPMD PRIVATE openPMD_USE_VERIFY=0)
endif()
# python bindings
if(openPMD_HAVE_PYTHON)
pybind11_add_module(openPMD.py MODULE SYSTEM
src/binding/python/openPMD.cpp
src/binding/python/Access.cpp
src/binding/python/Attributable.cpp
src/binding/python/BaseRecord.cpp
src/binding/python/BaseRecordComponent.cpp
src/binding/python/ChunkInfo.cpp
src/binding/python/Container.cpp
src/binding/python/Dataset.cpp
src/binding/python/Datatype.cpp
src/binding/python/Helper.cpp
src/binding/python/Iteration.cpp
src/binding/python/IterationEncoding.cpp
src/binding/python/Mesh.cpp
src/binding/python/ParticlePatches.cpp
src/binding/python/ParticleSpecies.cpp
src/binding/python/PatchRecord.cpp
src/binding/python/PatchRecordComponent.cpp
src/binding/python/Record.cpp
src/binding/python/RecordComponent.cpp
src/binding/python/MeshRecordComponent.cpp
src/binding/python/Series.cpp
src/binding/python/UnitDimension.cpp
)
target_link_libraries(openPMD.py PRIVATE openPMD)
# ancient Clang releases
# https://github.com/openPMD/openPMD-api/issues/542
# https://pybind11.readthedocs.io/en/stable/faq.html#recursive-template-instantiation-exceeded-maximum-depth-of-256
# https://bugs.llvm.org/show_bug.cgi?id=18417
# https://github.com/llvm/llvm-project/commit/e55b4737c026ea2e0b44829e4115d208577a67b2
if(("${CMAKE_CXX_COMPILER_ID}" STREQUAL "AppleClang" AND
CMAKE_CXX_COMPILER_VERSION VERSION_LESS 9.1) OR
("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Clang" AND
CMAKE_CXX_COMPILER_VERSION VERSION_LESS 4.0))
message(STATUS "Clang: Passing -ftemplate-depth=1024")
target_compile_options(openPMD.py
PRIVATE -ftemplate-depth=1024)
endif()
if(WIN32)
set(CMAKE_INSTALL_PYTHONDIR_DEFAULT
"${CMAKE_INSTALL_LIBDIR}/site-packages"
)
else()
set(CMAKE_INSTALL_PYTHONDIR_DEFAULT
"${CMAKE_INSTALL_LIBDIR}/python${PYTHON_VERSION_MAJOR}.${PYTHON_VERSION_MINOR}/site-packages"
)
endif()
set(CMAKE_INSTALL_PYTHONDIR "${CMAKE_INSTALL_PYTHONDIR_DEFAULT}"
CACHE STRING "Location for installed python package"
)
set(CMAKE_PYTHON_OUTPUT_DIRECTORY
"${openPMD_BINARY_DIR}/${CMAKE_INSTALL_PYTHONDIR}"
CACHE PATH "Build directory for python modules"
)
set_target_properties(openPMD.py PROPERTIES
ARCHIVE_OUTPUT_NAME openpmd_api_cxx
LIBRARY_OUTPUT_NAME openpmd_api_cxx
ARCHIVE_OUTPUT_DIRECTORY ${CMAKE_PYTHON_OUTPUT_DIRECTORY}/openpmd_api
LIBRARY_OUTPUT_DIRECTORY ${CMAKE_PYTHON_OUTPUT_DIRECTORY}/openpmd_api
RUNTIME_OUTPUT_DIRECTORY ${CMAKE_PYTHON_OUTPUT_DIRECTORY}/openpmd_api
PDB_OUTPUT_DIRECTORY ${CMAKE_PYTHON_OUTPUT_DIRECTORY}/openpmd_api
COMPILE_PDB_OUTPUT_DIRECTORY ${CMAKE_PYTHON_OUTPUT_DIRECTORY}/openpmd_api
)
add_custom_command(TARGET openPMD.py POST_BUILD
COMMAND ${CMAKE_COMMAND} -E copy_directory
${openPMD_SOURCE_DIR}/src/binding/python/openpmd_api
${CMAKE_PYTHON_OUTPUT_DIRECTORY}/openpmd_api
)
endif()
# tests
set(openPMD_TEST_NAMES
Core
Auxiliary
SerialIO
ParallelIO
)
# command line tools
set(openPMD_CLI_TOOL_NAMES
ls
)
set(openPMD_PYTHON_CLI_MODULE_NAMES ${openPMD_CLI_TOOL_NAMES})
# examples
set(openPMD_EXAMPLE_NAMES
1_structure
2_read_serial
2a_read_thetaMode_serial
3_write_serial
3a_write_thetaMode_serial
4_read_parallel
5_write_parallel
6_dump_filebased_series
7_extended_write_serial
8_benchmark_parallel
8a_benchmark_write_parallel
8b_benchmark_read_parallel
)
set(openPMD_PYTHON_EXAMPLE_NAMES
2_read_serial
2a_read_thetaMode_serial
3_write_serial
3a_write_thetaMode_serial
4_read_parallel
5_write_parallel
7_extended_write_serial
9_particle_write_serial
)
if(openPMD_USE_INVASIVE_TESTS)
if(WIN32)
message(WARNING "Invasive tests that redefine class signatures are "
"known to fail on Windows!")
endif()
endif()
if(BUILD_TESTING)
# compile Catch2 implementation part separately
add_library(CatchRunner test/CatchRunner.cpp) # Always MPI_Init with Serial Fallback
add_library(CatchMain test/CatchMain.cpp) # Serial only
target_compile_features(CatchRunner PUBLIC cxx_std_14)
target_compile_features(CatchMain PUBLIC cxx_std_14)
set_target_properties(CatchRunner CatchMain PROPERTIES
CXX_EXTENSIONS OFF
CXX_STANDARD_REQUIRED ON
POSITION_INDEPENDENT_CODE ON
WINDOWS_EXPORT_ALL_SYMBOLS ON
)
if("${CMAKE_CXX_COMPILER_ID}" STREQUAL "MSVC")
target_compile_options(CatchRunner PUBLIC "/bigobj")
target_compile_options(CatchMain PUBLIC "/bigobj")
endif()
target_link_libraries(CatchRunner PUBLIC openPMD::thirdparty::Catch2)
target_link_libraries(CatchMain PUBLIC openPMD::thirdparty::Catch2)
if(openPMD_HAVE_MPI)
target_link_libraries(CatchRunner PUBLIC MPI::MPI_C MPI::MPI_CXX)
target_compile_definitions(CatchRunner PUBLIC openPMD_HAVE_MPI=1)
endif()
foreach(testname ${openPMD_TEST_NAMES})
add_executable(${testname}Tests test/${testname}Test.cpp)
if(openPMD_USE_INVASIVE_TESTS)
target_compile_definitions(${testname}Tests PRIVATE openPMD_USE_INVASIVE_TESTS=1)
endif()
target_link_libraries(${testname}Tests PRIVATE openPMD)
if(${testname} MATCHES "Parallel.+$")
target_link_libraries(${testname}Tests PRIVATE CatchRunner)
else()
target_link_libraries(${testname}Tests PRIVATE CatchMain)
endif()
endforeach()
endif()
if(BUILD_CLI_TOOLS)
foreach(toolname ${openPMD_CLI_TOOL_NAMES})
add_executable(openpmd-${toolname} src/cli/${toolname}.cpp)
target_link_libraries(openpmd-${toolname} PRIVATE openPMD)
endforeach()
endif()
if(BUILD_EXAMPLES)
foreach(examplename ${openPMD_EXAMPLE_NAMES})
if(${examplename} MATCHES ".+parallel$")
if(openPMD_HAVE_MPI)
add_executable(${examplename} examples/${examplename}.cpp)
target_link_libraries(${examplename} PRIVATE openPMD)
endif()
else()
add_executable(${examplename} examples/${examplename}.cpp)
target_link_libraries(${examplename} PRIVATE openPMD)
endif()
endforeach()
endif()
# Warnings ####################################################################
#
# TODO: LEGACY! Use CMake TOOLCHAINS instead!
if(CMAKE_SOURCE_DIR STREQUAL PROJECT_SOURCE_DIR)
if("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Clang")
# list(APPEND CMAKE_CXX_FLAGS "-fsanitize=address") # address, memory, undefined
# set(CMAKE_EXE_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} -fsanitize=address")
# set(CMAKE_SHARED_LINKER_FLAGS "${CMAKE_SHARED_LINKER_FLAGS} -fsanitize=address")
# set(CMAKE_MODULE_LINKER_FLAGS "${CMAKE_MODULE_LINKER_FLAGS} -fsanitize=address")
# note: might still need a
# export LD_PRELOAD=libclang_rt.asan.so
# or on Debian 9 with Clang 6.0
# export LD_PRELOAD=/usr/lib/llvm-6.0/lib/clang/6.0.0/lib/linux/libclang_rt.asan-x86_64.so:
# /usr/lib/llvm-6.0/lib/clang/6.0.0/lib/linux/libclang_rt.ubsan_minimal-x86_64.so
# at runtime when used with symbol-hidden code (e.g. pybind11 module)
#set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Weverything")
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wall -Wextra -Wpedantic -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code")
elseif("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Intel")
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -w3 -wd193,383,1572")
elseif("${CMAKE_CXX_COMPILER_ID}" STREQUAL "GNU")
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wall -Wextra -Wpedantic -Wshadow -Woverloaded-virtual -Wunreachable-code")
elseif("${CMAKE_CXX_COMPILER_ID}" STREQUAL "MSVC")
# Warning C4503: "decorated name length exceeded, name was truncated"
# Symbols longer than 4096 chars are truncated (and hashed instead)
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -wd4503")
# Yes, you should build against the same C++ runtime and with same
# configuration (Debug/Release). MSVC does inconvenient choices for their
# developers, so be it. (Our Windows-users use conda-forge builds, which
# are consistent.)
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -wd4251")
endif()
endif()
# Generate Files with Configuration Options ###################################
#
# TODO configure a version.hpp
configure_file(
${openPMD_SOURCE_DIR}/include/openPMD/config.hpp.in
${openPMD_BINARY_DIR}/include/openPMD/config.hpp
@ONLY
)
configure_file(
${openPMD_SOURCE_DIR}/openPMDConfig.cmake.in
${openPMD_BINARY_DIR}/openPMDConfig.cmake
@ONLY
)
# get absolute paths to linked libraries
function(openpmdreclibs tgtname outname)
get_target_property(PC_PRIVATE_LIBS_TGT ${tgtname} INTERFACE_LINK_LIBRARIES)
foreach(PC_LIB IN LISTS PC_PRIVATE_LIBS_TGT)
if(TARGET ${PC_LIB})
openpmdreclibs(${PC_LIB} ${outname})
else()
if(PC_LIB)
string(APPEND ${outname} " ${PC_LIB}")
endif()
endif()
endforeach()
set(${outname} ${${outname}} PARENT_SCOPE)
endfunction()
if(openPMD_HAVE_PKGCONFIG)
openpmdreclibs(openPMD openPMD_PC_PRIVATE_LIBS)
if(BUILD_SHARED_LIBS)
set(openPMD_PC_STATIC false)
else()
set(openPMD_PC_STATIC true)
endif()
configure_file(
${openPMD_SOURCE_DIR}/openPMD.pc.in
${openPMD_BINARY_DIR}/openPMD.pc
@ONLY
)
endif()
include(CMakePackageConfigHelpers)
write_basic_package_version_file("openPMDConfigVersion.cmake"
VERSION ${openPMD_VERSION}
COMPATIBILITY SameMajorVersion
)
# Installs ####################################################################
#
# headers, libraries and executables
if(openPMD_INSTALL)
set(openPMD_INSTALL_TARGET_NAMES openPMD)
if(openPMD_HAVE_ADIOS1)
list(APPEND openPMD_INSTALL_TARGET_NAMES
openPMD.ADIOS1.Serial openPMD.ADIOS1.Parallel)
endif()
if(BUILD_CLI_TOOLS)
foreach(toolname ${openPMD_CLI_TOOL_NAMES})
list(APPEND openPMD_INSTALL_TARGET_NAMES openpmd-${toolname})
endforeach()
endif()
install(TARGETS ${openPMD_INSTALL_TARGET_NAMES}
EXPORT openPMDTargets
LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR}
ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR}
RUNTIME DESTINATION ${CMAKE_INSTALL_BINDIR}
INCLUDES DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}
)
if(openPMD_HAVE_PYTHON)
install(
DIRECTORY ${openPMD_SOURCE_DIR}/src/binding/python/openpmd_api
DESTINATION ${CMAKE_INSTALL_PYTHONDIR}
PATTERN "*pyc" EXCLUDE
PATTERN "__pycache__" EXCLUDE
)
install(TARGETS openPMD.py
DESTINATION ${CMAKE_INSTALL_PYTHONDIR}/openpmd_api
)
endif()
install(DIRECTORY "${openPMD_SOURCE_DIR}/include/openPMD"
DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}
FILES_MATCHING PATTERN "*.hpp"
)
install(
FILES ${openPMD_BINARY_DIR}/include/openPMD/config.hpp
DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}/openPMD
)
# install third-party libraries
# TODO not needed with C++17 compiler
if(openPMD_USE_INTERNAL_VARIANT)
install(DIRECTORY "${openPMD_SOURCE_DIR}/share/openPMD/thirdParty/variant/include/mpark"
DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}
)
endif()
# CMake package file for find_package(openPMD::openPMD) in depending projects
install(EXPORT openPMDTargets
FILE openPMDTargets.cmake
NAMESPACE openPMD::
DESTINATION ${CMAKE_INSTALL_CMAKEDIR}
)
install(
FILES
${openPMD_BINARY_DIR}/openPMDConfig.cmake
${openPMD_BINARY_DIR}/openPMDConfigVersion.cmake
DESTINATION ${CMAKE_INSTALL_CMAKEDIR}
)
install(
FILES
${openPMD_SOURCE_DIR}/share/openPMD/cmake/FindADIOS.cmake
DESTINATION ${CMAKE_INSTALL_CMAKEDIR}/Modules
)
# pkg-config .pc file for depending legacy projects
# This is for projects that do not use a build file generator, e.g.
# because they compile manually on the command line or write their
# Makefiles by hand.
if(openPMD_HAVE_PKGCONFIG)
install(
FILES ${openPMD_BINARY_DIR}/openPMD.pc
DESTINATION ${CMAKE_INSTALL_LIBDIR}/pkgconfig
)
endif()
endif()
# Tests #######################################################################
#
if(BUILD_TESTING)
enable_testing()
# OpenMPI root guard: https://github.com/open-mpi/ompi/issues/4451
if("$ENV{USER}" STREQUAL "root")
# calling even --help as root will abort and warn on stderr
execute_process(COMMAND ${MPIEXEC_EXECUTABLE} --help
ERROR_VARIABLE MPIEXEC_HELP_TEXT
OUTPUT_STRIP_TRAILING_WHITESPACE)
if(${MPIEXEC_HELP_TEXT} MATCHES "^.*allow-run-as-root.*$")
set(MPI_ALLOW_ROOT --allow-run-as-root)
endif()
endif()
set(MPI_TEST_EXE
${MPIEXEC_EXECUTABLE}
${MPI_ALLOW_ROOT}
${MPIEXEC_NUMPROC_FLAG} 2
)
# do we have openPMD-example-datasets?
if(EXISTS "${openPMD_BINARY_DIR}/samples/git-sample/")
set(EXAMPLE_DATA_FOUND ON)
message(STATUS "Found openPMD-example-datasets: TRUE")
else()
message(STATUS "Note: Skipping example and tool runs (missing openPMD-example-datasets)")
if(WIN32)
message(STATUS "Note: run\n"
" Powershell.exe -File ${openPMD_SOURCE_DIR}/share/openPMD/download_samples.ps1\n"
"to add example files to samples/git-sample/ directory!")
else()
message(STATUS "Note: run\n"
" . ${openPMD_SOURCE_DIR}/share/openPMD/download_samples.sh\n"
"to add example files to samples/git-sample/ directory!")
endif()
endif()
if(openPMD_HAVE_PYTHON)
# do we have mpi4py for MPI-parallel Python tests?
if(openPMD_HAVE_MPI)
execute_process(COMMAND ${PYTHON_EXECUTABLE}
-m mpi4py
-c "import mpi4py.MPI"
RESULT_VARIABLE MPI4PY_RETURN
OUTPUT_QUIET ERROR_QUIET)
if(MPI4PY_RETURN EQUAL 0)
message(STATUS "Found mpi4py: TRUE")
else()
message(STATUS "Could NOT find mpi4py (will NOT run MPI-parallel Python examples)")
endif()
endif()
endif()
# C++ Unit tests
foreach(testname ${openPMD_TEST_NAMES})
if(${testname} MATCHES "^Parallel.*$")
if(openPMD_HAVE_MPI)
add_test(NAME MPI.${testname}
COMMAND ${MPI_TEST_EXE} ${CMAKE_RUNTIME_OUTPUT_DIRECTORY}/${testname}Tests
WORKING_DIRECTORY ${CMAKE_RUNTIME_OUTPUT_DIRECTORY}
)
endif()
else()
add_test(NAME Serial.${testname}
COMMAND ${CMAKE_RUNTIME_OUTPUT_DIRECTORY}/${testname}Tests
WORKING_DIRECTORY ${CMAKE_RUNTIME_OUTPUT_DIRECTORY}
)
endif()
endforeach()
# Python Unit tests
if(openPMD_HAVE_PYTHON)
if(openPMD_HAVE_HDF5)
if(EXAMPLE_DATA_FOUND)
add_test(NAME Unittest.py
COMMAND ${PYTHON_EXECUTABLE}
${openPMD_SOURCE_DIR}/test/python/unittest/Test.py -v
WORKING_DIRECTORY
${CMAKE_RUNTIME_OUTPUT_DIRECTORY}
)
if(WIN32)
string(REGEX REPLACE "/" "\\\\" WIN_BUILD_BASEDIR ${openPMD_BINARY_DIR})
string(REGEX REPLACE "/" "\\\\" WIN_BUILD_BINDIR ${CMAKE_RUNTIME_OUTPUT_DIRECTORY})
string(REPLACE ";" "\\;" WIN_PATH "$ENV{PATH}")
string(REPLACE ";" "\\;" WIN_PYTHONPATH "$ENV{PYTHONPATH}")
set_property(TEST Unittest.py
PROPERTY ENVIRONMENT
"PATH=${WIN_BUILD_BINDIR}\\${CMAKE_BUILD_TYPE}\;${WIN_PATH}\n"
"PYTHONPATH=${WIN_BUILD_BASEDIR}\\${CMAKE_INSTALL_PYTHONDIR}\\${CMAKE_BUILD_TYPE}\;${WIN_PYTHONPATH}"
)
else()
set_tests_properties(Unittest.py
PROPERTIES ENVIRONMENT
"PYTHONPATH=${openPMD_BINARY_DIR}/${CMAKE_INSTALL_PYTHONDIR}:$ENV{PYTHONPATH}"
)
endif()
endif()
endif()
endif()
# Examples
if(BUILD_EXAMPLES)
# C++ Examples
# Current examples all use HDF5, elaborate if other backends are used
if(openPMD_HAVE_HDF5)
if(EXAMPLE_DATA_FOUND)
foreach(examplename ${openPMD_EXAMPLE_NAMES})
if(${examplename} MATCHES "^.*_parallel$")
if(openPMD_HAVE_MPI)
add_test(NAME MPI.${examplename}
COMMAND ${MPI_TEST_EXE} ${CMAKE_RUNTIME_OUTPUT_DIRECTORY}/${examplename}
WORKING_DIRECTORY ${CMAKE_RUNTIME_OUTPUT_DIRECTORY}
)
endif()
else()
add_test(NAME Serial.${examplename}