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CMakeLists.txt
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CMakeLists.txt
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###############################################################################
#
# Description : CMake build script for libSBML
# Original author(s): Frank Bergmann <fbergman@caltech.edu>
# Organization : California Institute of Technology
#
# This file is part of libSBML. Please visit http://sbml.org for more
# information about SBML, and the latest version of libSBML.
#
# Copyright (C) 2013-2017 jointly by the following organizations:
# 1. California Institute of Technology, Pasadena, CA, USA
# 2. EMBL European Bioinformatics Institute (EMBL-EBI), Hinxton, UK
# 3. University of Heidelberg, Heidelberg, Germany
#
# Copyright (C) 2009-2013 jointly by the following organizations:
# 1. California Institute of Technology, Pasadena, CA, USA
# 2. EMBL European Bioinformatics Institute (EMBL-EBI), Hinxton, UK
#
# Copyright (C) 2006-2008 by the California Institute of Technology,
# Pasadena, CA, USA
#
# Copyright (C) 2002-2005 jointly by the following organizations:
# 1. California Institute of Technology, Pasadena, CA, USA
# 2. Japan Science and Technology Agency, Japan
#
# This library is free software; you can redistribute it and/or modify it
# under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation. A copy of the license agreement is provided
# in the file named "LICENSE.txt" included with this software distribution
# and also available online as http://sbml.org/software/libsbml/license.html
#
###############################################################################
cmake_minimum_required(VERSION 2.8.12...3.19)
project(libsbml)
set(LIBSBML_ROOT_SOURCE_DIR "${CMAKE_CURRENT_SOURCE_DIR}" CACHE PATH
"Path to the libSBML root source directory")
set(LIBSBML_ROOT_BINARY_DIR "${CMAKE_CURRENT_BINARY_DIR}" CACHE PATH
"Path to the libSBML root build directory")
include (CMakeTestCCompiler)
include (CheckCSourceCompiles)
include (CheckCXXSourceCompiles)
include (CheckStructHasMember)
include (CheckLibraryExists)
include (CheckFunctionExists)
include (CheckCCompilerFlag)
include (CheckCSourceRuns)
include (CheckSymbolExists)
include (CheckTypeSize)
if (${CMAKE_VERSION} VERSION_GREATER 2.8.4)
include(GNUInstallDirs)
else ()
set (CMAKE_INSTALL_DATADIR "share/libsbml/")
set (CMAKE_INSTALL_LIBDIR "lib")
set (CMAKE_INSTALL_INCLUDEDIR "include")
set (CMAKE_INSTALL_BINDIR "bin")
set (CMAKE_INSTALL_DATADIR "share")
set (CMAKE_INSTALL_FULL_LIBDIR "${CMAKE_INSTALL_PREFIX}/lib")
set (CMAKE_INSTALL_FULL_INCLUDEDIR "${CMAKE_INSTALL_PREFIX}/include")
endif ()
###############################################################################
#
# Parse VERSION.txt to determine the package version
#
set(LIBSBML_VERSION_MAJOR)
set(LIBSBML_VERSION_MINOR)
set(LIBSBML_VERSION_PATCH)
set(LIBSBML_VERSION_RELEASE)
set(LIBSBML_DOTTED_VERSION)
if(EXISTS "${CMAKE_CURRENT_SOURCE_DIR}/VERSION.txt")
file(STRINGS "${CMAKE_CURRENT_SOURCE_DIR}/VERSION.txt" VersionString NEWLINE_CONSUME)
string(STRIP "${VersionString}" VersionString)
set(LIBSBML_DOTTED_VERSION ${VersionString})
string(REPLACE "." ";" VersionString "${VersionString}" )
string(REPLACE "-" ";" VersionString "${VersionString}" )
list(LENGTH VersionString versionLength)
list(GET VersionString 0 LIBSBML_VERSION_MAJOR )
list(GET VersionString 1 LIBSBML_VERSION_MINOR )
list(GET VersionString 2 LIBSBML_VERSION_PATCH )
if(${versionLength} GREATER 3)
list(GET VersionString 3 LIBSBML_VERSION_RELEASE )
endif()
endif()
# version number needs to be calculated correctly
MATH(EXPR LIBSBML_VERSION_NUMERIC "${LIBSBML_VERSION_MAJOR} * 10000 + ${LIBSBML_VERSION_MINOR} * 100 + ${LIBSBML_VERSION_PATCH}" )
set(PACKAGE_VERSION "${LIBSBML_VERSION_MAJOR}.${LIBSBML_VERSION_MINOR}.${LIBSBML_VERSION_PATCH}${LIBSBML_VERSION_RELEASE}")
set(PACKAGE_NAME "libSBML")
set(PACKAGE_CONFIG_DIR "${CMAKE_INSTALL_LIBDIR}/cmake" CACHE PATH
"Path into which the cmake config files should be installed")
# PACKAGE_VERSION gets overridden by using other packages, so setting
# the PROJECT_VERSION, which will be used when exporting targets in
# src/CMakeLists.txt
set(PROJECT_VERSION ${PACKAGE_VERSION})
if (WITH_DOXYGEN OR WITH_PYTHON)
# configure the version for documentation / bindings
configure_file(
${CMAKE_CURRENT_SOURCE_DIR}/docs/src/common-text/libsbml-version.html.in
${CMAKE_CURRENT_SOURCE_DIR}/docs/src/common-text/libsbml-version.html
)
endif()
# add make dist and make check target as they are already familiar for
# everyone using the gnumake build
add_custom_target(dist COMMAND ${CMAKE_MAKE_PROGRAM} package_source)
add_custom_target(check COMMAND ${CMAKE_MAKE_PROGRAM} test)
###############################################################################
#
# The next lines configure the parameters for packaging the binaries.
# They can be invoked with "make package" or "nmake package" or by using
# cpack -G zip|deb|rpm|dmg|nsis
#
set(CMAKE_INSTALL_SYSTEM_RUNTIME_LIBS_NO_WARNINGS ON)
include(InstallRequiredSystemLibraries)
set(CPACK_PACKAGE_DESCRIPTION_SUMMARY "An API library for reading/writing/manipulating SBML.")
set(CPACK_PACKAGE_NAME "${PACKAGE_NAME}")
set(CPACK_PACKAGE_VENDOR "The libSBML Team")
set(CPACK_PACKAGE_CONTACT "LibSBML Team <libsbml-team@googlegroups.com>")
set(CPACK_PACKAGE_DESCRIPTION_FILE "${CMAKE_CURRENT_SOURCE_DIR}/README.md")
set(CPACK_RESOURCE_FILE_LICENSE "${CMAKE_CURRENT_SOURCE_DIR}/COPYING.txt")
set(CPACK_PACKAGE_VERSION_MAJOR "${LIBSBML_VERSION_MAJOR}")
set(CPACK_PACKAGE_VERSION_MINOR "${LIBSBML_VERSION_MINOR}")
set(CPACK_PACKAGE_VERSION_PATCH "${LIBSBML_VERSION_PATCH}")
set(CPACK_RPM_PACKAGE_LICENSE "LGPL")
set(CPACK_RPM_PACKAGE_GROUP "Libraries/Development")
set(CPACK_DEBIAN_PACKAGE_SECTION "Libraries")
set(CPACK_SOURCE_IGNORE_FILES "${CMAKE_CURRENT_BINARY_DIR};/.vs/;/.vscode/;/.svn/;/.libs/;/.deps/;/.bzr/;.*.o$;.*.lo$;.*.la$;${CPACK_SOURCE_IGNORE_FILES};/.DS_Store;/.svnignore;blib;libsbml-dist")
if(UNIX)
set(CPACK_INSTALL_PREFIX "${CMAKE_INSTALL_PREFIX}")
set(CPACK_SET_DESTDIR "ON")
endif()
if(CMAKE_SIZEOF_VOID_P EQUAL 4)
set(CPACK_DEBIAN_PACKAGE_ARCHITECTURE "i386")
set(CPACK_RPM_PACKAGE_ARCHITECTURE "i386")
else()
set(CPACK_DEBIAN_PACKAGE_ARCHITECTURE "amd64")
set(CPACK_RPM_PACKAGE_ARCHITECTURE "x86_64")
endif()
include(CPack)
# add local modules to module path
set(CMAKE_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules;${CMAKE_MODULE_PATH}")
# install find modules, so they can readily be used by others: start with libSBML
set (LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindLIBSBML.cmake")
###############################################################################
#
# Here we have the main configuration options for libsbml.
#
# Build static / shared library
#
# Here we check whether the user has defined BUILD_SHARED_LIBS. If it is
# defined we will honor the value, otherwise we continue to use the
# LIBSBML_SKIP variables to determine whether to build shared or static
# libraries.
if(DEFINED BUILD_SHARED_LIBS)
if (BUILD_SHARED_LIBS)
set(LIBSBML_SKIP_SHARED_LIBRARY OFF)
set(LIBSBML_SKIP_STATIC_LIBRARY ON)
else()
set(LIBSBML_SKIP_SHARED_LIBRARY ON)
set(LIBSBML_SKIP_STATIC_LIBRARY OFF)
endif()
endif()
# Whether to compile examples
option(WITH_EXAMPLES "Compile the libSBML example programs." OFF)
option(WITH_CHECK "Enable testing of libSBML." OFF)
# Which language bindings should be built
option(WITH_CSHARP "Generate the C# language interface for libSBML." OFF)
option(WITH_JAVA "Generate the Java language interface for libSBML." OFF)
option(WITH_PYTHON "Generate the Python language interface for libSBML." OFF)
option(WITH_PERL "Generate the Perl language interface for libSBML." OFF)
option(WITH_PHP "Generate the PHP language interface for libSBML." OFF)
option(WITH_RUBY "Generate the Ruby language interface for libSBML" OFF)
option(WITH_R "Generate the R language interface for libSBML" OFF)
option(WITH_OCTAVE "Generate the Octave language interface for libSBML." OFF)
option(WITH_MATLAB "Generate the MATLAB language interface for libSBML." OFF)
option(WITH_JAVASCRIPT "Generate the experimental Node.js language interface for libSBML." OFF)
option(WITH_STABLE_PACKAGES "Compile libSBML with all stable packages." OFF)
option(WITH_ALL_PACKAGES "Compile libSBML with all packages." OFF)
if (WITH_ALL_PACKAGES)
set(_EXPERIMENTAL_PACKGES "arrays;dyn;REQUIREDELEMENTS")
foreach(package ${_EXPERIMENTAL_PACKGES})
string(TOUPPER ${package} package_upper)
string(CONCAT package_option "ENABLE_" ${package_upper})
set(${package_option} ON CACHE BOOL "Enable package" FORCE)
endforeach()
set(WITH_STABLE_PACKAGES ON CACHE BOOL "Enable stable packages" FORCE)
endif(WITH_ALL_PACKAGES)
if (WITH_STABLE_PACKAGES)
set(_STABLE_PACKGES "comp;distrib;fbc;groups;layout;multi;qual;render;spatial")
foreach(package ${_STABLE_PACKGES})
string(TOUPPER ${package} package_upper)
string(CONCAT package_option "ENABLE_" ${package_upper})
set(${package_option} ON CACHE BOOL "Enable package" FORCE)
endforeach()
endif(WITH_STABLE_PACKAGES)
if (WITH_JAVASCRIPT)
set(_PF86 "ProgramFiles(x86)")
find_program(NODE_GYP_EXECUTABLE
NAMES node-gyp node-gyp.cmd
PATHS
/usr/local/bin
/opt/local/bin
/usr/bin
"$ENV{ProgramFilesProgramFiles}/nodejs/"
"$ENV{ProgramW6432}/nodejs/"
DOC "The file name of the node-gyp executable."
)
find_program(NODEJS_EXECUTABLE
NAMES node nodeexe
PATHS
/usr/local/bin
/opt/local/bin
/usr/bin
"$ENV{ProgramFiles}/nodejs/"
"$ENV{ProgramW6432}/nodejs/"
DOC "The file name of the nodejs executable."
)
# check that we found node-gyp
if (NOT NODE_GYP_EXECUTABLE)
message(FATAL_ERROR
"In oder to build the JavaScript language interface, libSBML needs the
node-gyp executable. Please set the variable named NODE_GYP_EXECUTABLE.")
endif()
# ensure that the swig version is high enough for javascript
if (SWIG_VERSION AND NOT SWIG_VERSION VERSION_GREATER 3.0.1)
message(FATAL_ERROR
"SWIG version 3.0.2 or greater is needed in order to build the JavaScript
language interface for libSBML, but only version ${SWIG_VERSION} was found.")
endif()
endif()
# Add an option to compile with all warnings shown
option(WITH_WALL "Compile with -Wall, so that the compiler will display all warnings." OFF)
mark_as_advanced(WITH_WALL)
if(WITH_WALL)
if(MSVC OR USING_INTEL)
add_definitions(/W4)
string(REPLACE "/W3" "/W4" CMAKE_C_FLAGS "${CMAKE_C_FLAGS}")
string(REPLACE "/W3" "/W4" CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS}")
else()
add_definitions(-Wall)
endif()
endif()
# Add an option to instruct libSBML to not include SBMLTypes.h and other files internally.
option(LIBSBML_USE_STRICT_INCLUDES
"Compile using 'strict includes' rules: libSBML header files won't
use SBMLTypes.h, among others." OFF)
if(LIBSBML_USE_STRICT_INCLUDES)
add_definitions(-DLIBSBML_USE_STRICT_INCLUDES)
endif(LIBSBML_USE_STRICT_INCLUDES)
mark_as_advanced(LIBSBML_USE_STRICT_INCLUDES)
set(LIBSBML_BUILD_TYPE "native")
if (CMAKE_SIZEOF_VOID_P EQUAL 4)
set(LIBSBML_BUILD_TYPE "32bit")
else()
set(LIBSBML_BUILD_TYPE "64bit")
endif()
if (APPLE AND ENABLE_UNIVERSAL)
set(LIBSBML_BUILD_TYPE "universal")
endif()
# When allocation of memory fails or the libSBML C API is unable to open
# a file, libSBML can exit the current process. By default this behavior
# is disabled.
#
option (EXIT_ON_ERROR "Call exit(-1) in case of allocation or file error." OFF)
mark_as_advanced(EXIT_ON_ERROR)
# Use the version number in the shared library.
#
option (LIBSBML_SHARED_VERSION
"Include version information into the compiled libSBML shared library." ON)
mark_as_advanced(LIBSBML_SHARED_VERSION)
# initial value for xml2 parser will default to ON,
# unless expat or xerces are chosen
set(WITH_LIBXML_INITIAL ON)
if (WITH_EXPAT OR WITH_XERCES)
set(WITH_LIBXML_INITIAL OFF)
endif()
# Choose the xml parsing library to be used.
option(WITH_EXPAT "Use the Expat XML parser library." OFF)
option(WITH_LIBXML "Use the libxml2 XML parser library." ${WITH_LIBXML_INITIAL})
option(WITH_XERCES "Use the Xerces XML parser library." OFF)
# Use C++ namespace.
option(WITH_CPP_NAMESPACE "Use a C++ namespace for libSBML." OFF)
option(WITH_THREADSAFE_PARSER "Use a threadsafe parser." OFF)
if(WITH_THREADSAFE_PARSER)
add_definitions(-DLIBSBML_WITH_THREADSAFE_PARSER=1)
endif()
# Generate documentation.
option(WITH_DOXYGEN "Generate documentation for libSBML using Doxygen." OFF )
# marks as advanced, so as to hide documentation generation
mark_as_advanced(WITH_DOXYGEN)
# Re-generate the swig bindings? This really should be on by default
# otherwise one might have the wrong wrapper code without support for
# the libsbml packages one wants.
option(WITH_SWIG "Regenerate the programming language interface code
(for Java, Python, etc.) using SWIG." ON )
# Set build type default.
set(CMAKE_BUILD_TYPE "Release" CACHE STRING
"Choose the type of build to perform. The options are: None (CMAKE_CXX_FLAGS
or CMAKE_C_FLAGS are used), Debug, Release, RelWithDebInfo, MinSizeRel.")
if("${CMAKE_BUILD_TYPE}" STREQUAL "")
set(CMAKE_BUILD_TYPE "Release" CACHE STRING
"Choose the type of build to perform. The options are: None (CMAKE_CXX_FLAGS
or CMAKE_C_FLAGS are used), Debug, Release, RelWithDebInfo, MinSizeRel." FORCE)
endif()
# Set the default dependency directory.
set(LIBSBML_DEPENDENCY_DIR ${LIBSBML_ROOT_SOURCE_DIR}/dependencies/ CACHE PATH
"Directory containing libraries that libSBML depends upon.
(Particularly important on Windows.)")
if("${LIBSBML_DEPENDENCY_DIR}" STREQUAL "")
set(LIBSBML_DEPENDENCY_DIR ${LIBSBML_ROOT_SOURCE_DIR}/dependencies/ CACHE PATH
"Directory containing libraries that libSBML depends upon.
(Particularly important on Windows.)" FORCE)
endif()
if (WITH_PYTHON)
# add option to enable Python API2 (with warnings)
option(PYTHON_USE_API2_WARNINGS "Enable the new Python API2 with warnings." OFF)
endif (WITH_PYTHON)
###############################################################################
#
# If WITH_SWIG is selected, we need to find swig
#
set(LIBSBML_USE_CPP_NAMESPACE OFF)
if(WITH_CPP_NAMESPACE)
add_definitions(-DLIBSBML_USE_CPP_NAMESPACE=1)
set(LIBSBML_USE_CPP_NAMESPACE ON)
endif()
if(WITH_SWIG)
find_program(SWIG_EXECUTABLE
NAMES swig
PATHS
c:/swigwin-3.0.10
c:/swigwin-3.0.9
c:/swigwin-3.0.8
c:/swigwin-3.0.7
c:/swigwin-3.0.6
c:/swigwin-3.0.5
c:/swigwin-3.0.4
c:/swigwin-3.0.3
c:/swigwin-3.0.2
c:/swigwin-3.0.1
c:/swigwin-2.0.12
c:/swigwin-2.0.11
c:/swigwin-2.0.10
c:/swigwin-2.0.9
c:/swigwin-2.0.8
c:/swigwin-2.0.7
c:/swigwin-2.0.6
c:/swigwin-2.0.5
c:/swigwin-2.0.4
c:/swigwin-2.0.3
c:/swigwin-2.0.2
c:/swigwin-2.0.1
c:/swigwin-2.0.0
/usr/local/bin
/opt/local/bin
/usr/bin
"C:/Program Files (x86)/Swig"
"C:/Program Files/Swig"
DOC "The file name of the SWIG executable."
)
find_package(SWIG)
if (SWIG_FOUND AND SWIG_VERSION VERSION_LESS "2.0.4")
message(WARNING
"You are using SWIG version ${SWIG_VERSION}. We strongly recommend
using version 2.0.4 or greater. For libSBML JavaScript support, you
will need version 3.0.1 at minimum.")
endif()
set(SWIG_EXTRA_ARGS -DLIBSBML_COMPILED_IN_SRC)
add_definitions(-DLIBSBML_COMPILED_IN_SRC)
set(SWIG_SWIGDOCDEFINES)
endif(WITH_SWIG)
###############################################################################
#
# Locate expat if needed
#
set(LIBSBML_XML_LIBRARY)
set(LIBSBML_XML_LIBRARY_INCLUDE)
set(LIBSBML_XML_LIBRARY_LIBS)
if(WITH_EXPAT)
if(NOT TARGET EXPAT::EXPAT)
find_package(EXPAT REQUIRED)
endif()
add_definitions( -DUSE_EXPAT )
list(APPEND SWIG_EXTRA_ARGS -DUSE_EXPAT)
set(LIBSBML_XML_LIBRARY "expat")
set(LIBSBML_XML_LIBRARY_INCLUDE ${EXPAT_INCLUDE_DIR})
set(LIBSBML_XML_LIBRARY_LIBS ${EXPAT_LIBRARY})
list(APPEND LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindEXPAT.cmake")
endif(WITH_EXPAT)
###############################################################################
#
# Locate Libxml2 if needed
#
set(USE_LIBXML OFF)
if(WITH_LIBXML)
find_package(LIBXML REQUIRED)
add_definitions( -DUSE_LIBXML )
list(APPEND SWIG_EXTRA_ARGS -DUSE_LIBXML)
set(USE_LIBXML ON)
set(LIBSBML_XML_LIBRARY "libxml2")
set(LIBSBML_XML_LIBRARY_INCLUDE ${LIBXML_INCLUDE_DIR})
set(LIBSBML_XML_LIBRARY_LIBS ${LIBXML_LIBRARY})
list(APPEND LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindLIBXML.cmake")
endif(WITH_LIBXML)
###############################################################################
#
# Locate xerces
#
if(WITH_XERCES)
find_package(XERCES REQUIRED)
add_definitions( -DUSE_XERCES )
list(APPEND SWIG_EXTRA_ARGS -DUSE_XERCES)
set(LIBSBML_XML_LIBRARY "xerces-c")
set(LIBSBML_XML_LIBRARY_INCLUDE ${XERCES_INCLUDE_DIR})
set(LIBSBML_XML_LIBRARY_LIBS ${XERCES_LIBRARY})
list(APPEND LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindXERCES.cmake")
endif(WITH_XERCES)
###############################################################################
#
# Locate bz2
#
set(BZIP_INITIAL_VALUE)
find_package(BZ2 QUIET)
if(EXISTS ${LIBBZ_LIBRARY})
set(BZIP_INITIAL_VALUE ON)
else()
set(BZIP_INITIAL_VALUE OFF)
endif()
option(WITH_BZIP2 "Enable the use of bzip2 compression." ${BZIP_INITIAL_VALUE})
set(USE_BZ2 OFF)
if(WITH_BZIP2)
find_package(BZ2 REQUIRED)
set(USE_BZ2 ON)
add_definitions( -DUSE_BZ2 )
list(APPEND SWIG_EXTRA_ARGS -DUSE_BZ2)
list(APPEND LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindBZ2.cmake")
endif(WITH_BZIP2)
###############################################################################
#
# list of additional files to link against.
#
set(EXTRA_LIBS "" CACHE STRING
"List of additional libraries to link against. Separate multiple
names using semicolons." )
set(EXTRA_INCLUDE_DIRS "" CACHE STRING
"List of additional include directories to use during compilation.
Separate multiple directories using semicolons." )
###############################################################################
#
# Locate zlib
#
find_package(ZLIB QUIET)
set(ZLIB_INITIAL_VALUE ON)
if(NOT TARGET ZLIB::ZLIB)
set(ZLIB_INITIAL_VALUE OFF)
endif()
option(WITH_ZLIB "Enable the use of zip compression." ${ZLIB_INITIAL_VALUE} )
set(USE_ZLIB OFF)
if(WITH_ZLIB)
find_package(ZLIB REQUIRED)
set(USE_ZLIB ON)
add_definitions( -DUSE_ZLIB )
list(APPEND SWIG_EXTRA_ARGS -DUSE_ZLIB)
list(APPEND LIBSBML_FIND_MODULES "${CMAKE_CURRENT_SOURCE_DIR}/CMakeModules/FindZLIB.cmake")
endif(WITH_ZLIB)
# install find scripts only for used dependencies
install(FILES ${LIBSBML_FIND_MODULES} DESTINATION share/cmake/Modules)
###############################################################################
#
# Find the C# compiler to use and set name for resulting library
#
if(WITH_CSHARP)
FILE(TO_CMAKE_PATH "$ENV{WINDIR}" windir)
find_program(CSHARP_COMPILER
NAMES gmcs csc mcs
PATHS
${windir}/Microsoft.NET/Framework/v2.0.50727/
${windir}/Microsoft.NET/Framework/v3.0/
/usr/bin
/usr/local/bin
DOC "The file name of the C# compiler for the libsbmlcs assembly."
)
find_program(CSHARP_EXAMPLE_COMPILER
NAMES gmcs csc mcs
PATHS
${windir}/Microsoft.NET/Framework/v4.0.30319/
${windir}/Microsoft.NET/Framework/v3.5/
${windir}/Microsoft.NET/Framework/v3.0/
${windir}/Microsoft.NET/Framework/v2.0.50727/
/usr/bin
/usr/local/bin
DOC "The file name of the C# compiler to be used for the examples."
)
if(UNIX)
else()
if(CMAKE_SIZEOF_VOID_P EQUAL 4)
# mark libsbml library as x86
set(CSHARP_EXTRA_ARGS -platform:x86 )
elseif(CMAKE_SIZEOF_VOID_P EQUAL 8)
# mark libsbml library as x64
set(CSHARP_EXTRA_ARGS -platform:x64 )
endif()
endif()
endif(WITH_CSHARP)
###############################################################################
#
# Enable support for testing ... can be invoked by running ctest
# or make test
#
if(WITH_CHECK)
# set test timeout to 3000 as the normal time limit is not sufficient
# for the comp tests
SET(DART_TESTING_TIMEOUT "3000" CACHE STRING "" FORCE)
enable_testing()
find_package(CHECK REQUIRED)
if (UNIX)
# setup valgrind
set(CMAKE_MEMORYCHECK_COMMAND valgrind)
set(CMAKE_MEMORYCHECK_COMMAND_OPTIONS
"--error-exitcode=1 --trace-children=yes --leak-check=full --show-reachable=yes --leak-resolution=high --track-origins=yes --error-limit=no ")
set(MEMCHECK_COMMAND
"${CMAKE_MEMORYCHECK_COMMAND} ${CMAKE_MEMORYCHECK_COMMAND_OPTIONS}")
separate_arguments(MEMCHECK_COMMAND)
endif(UNIX)
include(CTest)
endif(WITH_CHECK)
###############################################################################
#
# Need some variables set up, such as the name for the libSBML
# library and the Path and file separator characters. The
# MISC_PREFIX variable will cause libsbml bindings, examples and
# documentation to be installed in PREFIX/${MISC_PREFIX}.
#
set( MISC_PREFIX )
if(UNIX OR CYGWIN)
set(PATH_SEP "/")
set(FILE_SEP ":")
set( MISC_PREFIX "${CMAKE_INSTALL_DATADIR}/libsbml/" )
set(LIBSBML_LIBRARY sbml)
else()
set( MISC_PREFIX ".\\" )
set(PATH_SEP "\\")
set(FILE_SEP ";")
if(MINGW)
set(LIBSBML_LIBRARY sbml)
else()
set(LIBSBML_LIBRARY libsbml)
endif()
endif()
# On some Linux (64bit) systems (64bit) the libraries should be installed into lib64 rather
# than lib. It will default to 'lib' but can be overwritten.
set(CMAKE_INSTALL_LIBDIR lib CACHE PATH "Full path to the library output directory")
mark_as_advanced(CMAKE_INSTALL_LIBDIR)
###############################################################################
#
# Set up remaining variables, add option for universal binaries
#
set(USING_INTEL)
if (WIN32 AND CMAKE_C_COMPILER AND ${CMAKE_C_COMPILER} MATCHES ".*icl.*$")
message(STATUS "Detected Intel Compiler")
set(USING_INTEL TRUE)
endif ()
set(BUILD_DEFINITIONS)
if(UNIX)
if(APPLE)
# on osx starting with xcode 4.3 the system root is in
# the app bundle, however cmake (up to 2.8.8) does not seem
# to update the path, so lets try it here
if (CMAKE_OSX_SYSROOT AND NOT EXISTS ${CMAKE_OSX_SYSROOT})
if (EXISTS "/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/${CMAKE_OSX_SYSROOT}")
set(CMAKE_OSX_SYSROOT "/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/${CMAKE_OSX_SYSROOT}" CACHE STRING "The SDK root to be used" FORCE)
endif()
endif()
add_definitions(-DMACOSX)
set(BUILD_DEFINITIONS "${BUILD_DEFINITIONS} -DMACOSX")
# Since we are encountering errors with the use of libc++ on OSX
# this option allows to override which stdlib to use
if ("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Clang")
option(CLANG_USE_STDLIB "Use libstdc++ rather than libc++" OFF)
if (CLANG_USE_STDLIB)
SET( CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -stdlib=libstdc++" )
endif()
endif()
# On OSX it is common to build universal binaries to support multiple
# processor architectures. The default behavior is not to build
# multiple architectures, as most users might not need that.
option(ENABLE_UNIVERSAL
"Create 'universal' binaries on Mac OS X. (Not available on
other operating systems.)" OFF)
set(CMAKE_OSX_ARCHITECTURES "${CMAKE_OSX_ARCHITECTURES}" CACHE STRING
"A semicolon-separated list of architectures for which libSBML should be built.")
if(ENABLE_UNIVERSAL)
# if universal binaries are requested and none defined so far
# overwrite them with all three common architectures. If the user
# specified their own list of architectures do not touch!
if(CMAKE_OSX_ARCHITECTURES STREQUAL "")
STRING(REGEX REPLACE "^.*MacOSX([0-9]*\\.[0-9]*)\\.sdk$" "\\1"
OSX_SDK_VERSION "${CMAKE_OSX_SYSROOT}")
if(OSX_SDK_VERSION VERSION_EQUAL "10.7" OR
OSX_SDK_VERSION VERSION_GREATER "10.7" OR
OSX_SDK_VERSION VERSION_EQUAL "10.8" OR
OSX_SDK_VERSION VERSION_GREATER "10.8")
# OSX Lion no longer supports ppc architecture
set(CMAKE_OSX_ARCHITECTURES "i386;x86_64" CACHE STRING
"A semicolon-separated list of architectures for which libSBML should be built." FORCE)
elseif(OSX_SDK_VERSION AND OSX_SDK_VERSION VERSION_LESS "10.7" )
set(CMAKE_OSX_ARCHITECTURES "i386;ppc;x86_64" CACHE STRING
"A semicolon-separated list of architectures for which libSBML should be built." FORCE)
else()
set(CMAKE_OSX_ARCHITECTURES "i386;x86_64" CACHE STRING
"A semicolon-separated list of architectures for which libSBML should be built." FORCE)
endif()
endif()
endif(ENABLE_UNIVERSAL)
else(APPLE)
add_definitions(-DLINUX)
if(NOT CYGWIN)
# on cygwin all code is position independent so -fPIC is not needed
set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -fno-strict-aliasing -fPIC")
set (CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -fno-strict-aliasing -fPIC")
endif()
set(BUILD_DEFINITIONS "${BUILD_DEFINITIONS} -DLINUX")
endif(APPLE)
else(UNIX)
# not needing these defines, and they do cause warnings
# add_definitions(-DPACKAGE_VERSION=\"${PACKAGE_VERSION}\" -DPACKAGE_NAME=\"${PROJECT_NAME}\")
add_definitions(-DWIN32 -DLIBSBML_EXPORTS -DLIBLAX_EXPORTS)
set(BUILD_DEFINITIONS "${BUILD_DEFINITIONS} -DWIN32 -DLIBSBML_EXPORTS -DLIBLAX_EXPORTS")
if(MSVC OR USING_INTEL)
add_definitions(-D_CRT_SECURE_NO_WARNINGS -D_CRT_NONSTDC_NO_DEPRECATE)
set(BUILD_DEFINITIONS "${BUILD_DEFINITIONS} -D_CRT_SECURE_NO_WARNINGS")
option(WITH_STATIC_RUNTIME "Compile using the static MSVC Runtime." OFF)
if(WITH_STATIC_RUNTIME)
foreach(flag_var
CMAKE_CXX_FLAGS CMAKE_CXX_FLAGS_DEBUG CMAKE_CXX_FLAGS_RELEASE
CMAKE_CXX_FLAGS_MINSIZEREL CMAKE_CXX_FLAGS_RELWITHDEBINFO
CMAKE_C_FLAGS CMAKE_C_FLAGS_DEBUG CMAKE_C_FLAGS_RELEASE
CMAKE_C_FLAGS_MINSIZEREL CMAKE_C_FLAGS_RELWITHDEBINFO)
if(${flag_var} MATCHES "/MD")
string(REGEX REPLACE "/MD" "/MT" ${flag_var} "${${flag_var}}")
endif(${flag_var} MATCHES "/MD")
endforeach(flag_var)
add_definitions( -D_MT)
set(CMAKE_MSVC_RUNTIME_LIBRARY "MultiThreaded$<$<CONFIG:Debug>:Debug>")
endif(WITH_STATIC_RUNTIME)
# on VS enable multiprocessor build
SET (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /MP")
# Provide an easy way to use Visual Leak Detector (https://vld.codeplex.com)
option(LIBSBML_USE_VLD "When running debug builds with MSVC use Visual Leak Detector." OFF)
mark_as_advanced(LIBSBML_USE_VLD)
if (LIBSBML_USE_VLD)
find_path(VLD_INCLUDE_DIR
NAMES vld.h
PATHS ${LIBSBML_DEPENDENCY_DIR}/include
"$ENV{PROGRAMFILES}/Visual Leak Detector/include"
"$ENV{ProgramW6432}/Visual Leak Detector/include"
DOC "Directory containing VLD files."
)
if (NOT VLD_INCLUDE_DIR)
message(WARNING "VLD is not found on your system, please ensure you installed it correctly.")
else()
include_directories(${VLD_INCLUDE_DIR})
endif()
add_definitions( -DLIBSBML_USE_VLD)
endif (LIBSBML_USE_VLD)
# CMake no longer creates PDB files for static libraries after 2.8.11
# so we store debug information in the object files instead
if (${CMAKE_VERSION} VERSION_GREATER "2.8.11")
foreach(flag_var
CMAKE_CXX_FLAGS CMAKE_CXX_FLAGS_DEBUG CMAKE_CXX_FLAGS_RELEASE
CMAKE_CXX_FLAGS_MINSIZEREL CMAKE_CXX_FLAGS_RELWITHDEBINFO
CMAKE_C_FLAGS CMAKE_C_FLAGS_DEBUG CMAKE_C_FLAGS_RELEASE
CMAKE_C_FLAGS_MINSIZEREL CMAKE_C_FLAGS_RELWITHDEBINFO)
if(${flag_var} MATCHES "/Zi")
STRING(REPLACE "/Zi" "/Z7" "${flag_var}" "${${flag_var}}")
endif(${flag_var} MATCHES "/Zi")
endforeach(flag_var)
# add /bigobj to allow debug builds to work with swig and packages
ADD_DEFINITIONS(/bigobj)
SET(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} /bigobj")
SET(CMAKE_CXX_FLAGS_RELWITHDEBINFO "${CMAKE_CXX_FLAGS_RELWITHDEBINFO} /bigobj")
endif()
file(GLOB WIN32_BINARIES ${LIBSBML_DEPENDENCY_DIR}/bin/*.dll)
INSTALL(FILES ${WIN32_BINARIES} DESTINATION bin)
file(GLOB WIN32_DEPENDENCIES ${LIBSBML_DEPENDENCY_DIR}/lib/*.lib)
install(FILES ${WIN32_DEPENDENCIES} DESTINATION lib)
elseif(CYGWIN)
add_definitions(-DCYGWIN)
set(BUILD_DEFINITIONS "${BUILD_DEFINITIONS} -DCYGWIN")
elseif(MINGW)
if(WITH_LIBXML)
# this is necessary to build with libxml2 on mingw
add_definitions(-DLIBXML_STATIC)
endif(WITH_LIBXML)
endif(MSVC OR USING_INTEL)
endif(UNIX)
###############################################################################
#
# Disable in-source build
#
if("${LIBSBML_ROOT_SOURCE_DIR}" STREQUAL "${LIBSBML_ROOT_BINARY_DIR}" )
message(FATAL_ERROR "In-source builds of libSBML are disabled.
Please create a separate build directory.")
endif()
###############################################################################
#
# Add check that only one XML library was selection
#
set(LIBRARY_COUNT 0)
if(WITH_EXPAT)
math(EXPR LIBRARY_COUNT "${LIBRARY_COUNT} + 1")
endif()
if(WITH_LIBXML)
math(EXPR LIBRARY_COUNT "${LIBRARY_COUNT} + 1")
endif()
if(WITH_XERCES)
math(EXPR LIBRARY_COUNT "${LIBRARY_COUNT} + 1")
endif()
if(LIBRARY_COUNT GREATER 1)
message(FATAL_ERROR
"Only one XML library should be chosen. Please select only one of the
following options: WITH_LIBXML, WITH_EXPAT or WITH_XERCES.")
endif()
###############################################################################
#
# Add check that at least one XML library was selection
#
if(LIBRARY_COUNT EQUAL 0)
message(FATAL_ERROR
"A XML library must be selected. Please select one of the following
options: WITH_LIBXML, WITH_EXPAT or WITH_XERCES.")
endif()
###############################################################################
#
# Include options for all libSBML packages
#
set(LIBSBML_PACKAGE_INCLUDES)
set(LIBSBML_PACKAGE_SUMMARY)
file(GLOB PACKAGE_OPTIONS "*package.cmake")
foreach(package ${PACKAGE_OPTIONS})
include(${package})
endforeach()
if (LIBSBML_PACKAGE_INCLUDES)
list(REMOVE_DUPLICATES LIBSBML_PACKAGE_INCLUDES)
endif()
###############################################################################
#
# Build the actual libSBML library
#
add_subdirectory(src)
###############################################################################
#
# Build examples if specified
#
if(WITH_EXAMPLES)
# code that builds the examples
add_subdirectory(examples)
endif(WITH_EXAMPLES)
if(WITH_DOXYGEN)
add_subdirectory(docs)
endif()
###############################################################################
#
# Install documentation
#
set(DOCUMENTATION_FILES
COPYING.txt
FUNDING.txt
LICENSE.txt
NEWS.txt
README.md
VERSION.txt
)
install(FILES ${DOCUMENTATION_FILES} DESTINATION ${MISC_PREFIX})
###############################################################################
#
# Write libsbml.pc
#
set (PRIVATE_LIBS "-lstdc++ -lm")
if (WITH_ZLIB)
set (PRIVATE_LIBS "${LIBZ_LIBRARY} ${PRIVATE_LIBS}")
endif()
if (WITH_BZIP2)
set (PRIVATE_LIBS "${LIBBZ_LIBRARY} ${PRIVATE_LIBS}")
endif()
if (WITH_LIBXML)
set (PRIVATE_LIBS "${LIBXML_LIBRARY} ${PRIVATE_LIBS}")
endif()
if (WITH_EXPAT)
set (PRIVATE_LIBS "${LIBEXPAT_LIBRARY} ${PRIVATE_LIBS}")
endif()
if (WITH_XERCES)
set (PRIVATE_LIBS "${XERCES_LIBRARY} ${PRIVATE_LIBS}")
endif()
file(WRITE "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Name: ${PACKAGE_NAME}\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Description: A library for reading/writing/manipulating SBML\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "URL: http://sbml.org/Software/libSBML\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Version: ${PACKAGE_VERSION}\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "prefix=${CMAKE_INSTALL_PREFIX}\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "libdir=${CMAKE_INSTALL_FULL_LIBDIR}\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "includedir=${CMAKE_INSTALL_FULL_INCLUDEDIR}\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Libs: -L\${libdir} -lsbml\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Libs.private: ${PRIVATE_LIBS}\n")
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Cflags: -I\${includedir}\n")
if (WITH_XERCES)
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Conflicts: xerces-c = 2.6.0\n")
endif()
if (WITH_LIBXML)
file(APPEND "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc" "Requires.private: libxml-2.0 >= 2.6.22\n")
endif()
if (UNIX OR MINGW)
install(FILES "${CMAKE_CURRENT_BINARY_DIR}/libsbml.pc"
DESTINATION ${CMAKE_INSTALL_LIBDIR}/pkgconfig)
endif()
###############################################################################
#
# Print Summary
#
if (NOT HOSTNAME)
site_name(HOSTNAME)
endif()
message(STATUS "
----------------------------------------------------------------------