SLIM: Fix uppercase folder name in CMake file

Slim

See merge request !3

.editorconfig

@@ -1,44 +0,0 @@
-# C/C++
-[*.{c,cc,h,hh,inl,glsl}]
-charset = utf-8
-trim_trailing_whitespace = true
-insert_final_newline = true
-indent_style = tab
-indent_size = 4
-max_line_length = 120
-
-# CMake & Text
-[*.{cmake,txt}]
-charset = utf-8
-trim_trailing_whitespace = true
-insert_final_newline = true
-indent_style = tab
-indent_size = 4
-max_line_length = 120
-
-# Python
-[*.py]
-charset = utf-8
-trim_trailing_whitespace = true
-insert_final_newline = true
-indent_style = space
-indent_size = 4
-max_line_length = 120
-
-# Shell
-[*.sh]
-charset = utf-8
-trim_trailing_whitespace = true
-insert_final_newline = true
-indent_style = tab
-indent_size = 4
-max_line_length = 120
-
-# reStructuredText
-[*.rst]
-charset = utf-8
-trim_trailing_whitespace = true
-insert_final_newline = true
-indent_style = space
-indent_size = 3
-max_line_length = 120

CMakeLists.txt

@@ -66,12 +66,21 @@ endif()
 # set_property(GLOBAL PROPERTY RULE_MESSAGES OFF)
 
 # global compile definitions since add_definitions() adds for all.
+
+if(NOT (${CMAKE_VERSION} VERSION_LESS 3.0))
 	set_property(DIRECTORY APPEND PROPERTY COMPILE_DEFINITIONS
 		$<$<CONFIG:Debug>:DEBUG;_DEBUG>
 		$<$<CONFIG:Release>:NDEBUG>
 		$<$<CONFIG:MinSizeRel>:NDEBUG>
 		$<$<CONFIG:RelWithDebInfo>:NDEBUG>
 	)
+else()
+	# keep until CMake-3.0 is min requirement
+	set_property(DIRECTORY APPEND PROPERTY COMPILE_DEFINITIONS_DEBUG           DEBUG _DEBUG)
+	set_property(DIRECTORY APPEND PROPERTY COMPILE_DEFINITIONS_RELEASE         NDEBUG)
+	set_property(DIRECTORY APPEND PROPERTY COMPILE_DEFINITIONS_MINSIZEREL      NDEBUG)
+	set_property(DIRECTORY APPEND PROPERTY COMPILE_DEFINITIONS_RELWITHDEBINFO  NDEBUG)
+endif()
 
 #-----------------------------------------------------------------------------
 # Set policy
@@ -444,7 +453,7 @@ mark_as_advanced(WITH_MEM_VALGRIND)
 option(WITH_CXX_GUARDEDALLOC "Enable GuardedAlloc for C++ memory allocation tracking (only enable for development)" OFF)
 mark_as_advanced(WITH_CXX_GUARDEDALLOC)
 
-option(WITH_ASSERT_ABORT "Call abort() when raising an assertion through BLI_assert()" ON)
+option(WITH_ASSERT_ABORT "Call abort() when raising an assertion through BLI_assert()" OFF)
 mark_as_advanced(WITH_ASSERT_ABORT)
 
 option(WITH_BOOST					"Enable features depending on boost" ON)
@@ -527,49 +536,6 @@ if(CMAKE_COMPILER_IS_GNUCC)
 	mark_as_advanced(WITH_LINKER_GOLD)
 endif()
 
-if(CMAKE_COMPILER_IS_GNUCC OR CMAKE_C_COMPILER_ID MATCHES "Clang")
-	option(WITH_COMPILER_ASAN "Build and link against address sanitizer (only for Debug & RelWithDebInfo targets)." OFF)
-	mark_as_advanced(WITH_COMPILER_ASAN)
-
-	if(WITH_COMPILER_ASAN)
-		set(_asan_defaults "\
--fsanitize=address \
--fsanitize=bool \
--fsanitize=bounds \
--fsanitize=enum \
--fsanitize=float-cast-overflow \
--fsanitize=float-divide-by-zero \
--fsanitize=nonnull-attribute \
--fsanitize=returns-nonnull-attribute \
--fsanitize=signed-integer-overflow \
--fsanitize=undefined \
--fsanitize=vla-bound \
--fno-sanitize=alignment \
-")
-
-		if(NOT MSVC) # not all sanitizers are supported with clang-cl, these two however are very vocal about it
-			set(_asan_defaults "${_asan_defaults} -fsanitize=leak -fsanitize=object-size" )
-		endif()
-		set(COMPILER_ASAN_CFLAGS "${_asan_defaults}" CACHE STRING "C flags for address sanitizer")
-		mark_as_advanced(COMPILER_ASAN_CFLAGS)
-		set(COMPILER_ASAN_CXXFLAGS "${_asan_defaults}" CACHE STRING "C++ flags for address sanitizer")
-		mark_as_advanced(COMPILER_ASAN_CXXFLAGS)
-
-		unset(_asan_defaults)
-
-		if(NOT MSVC)
-			find_library(COMPILER_ASAN_LIBRARY asan ${CMAKE_C_IMPLICIT_LINK_DIRECTORIES})
-		else()
-			find_library( COMPILER_ASAN_LIBRARY NAMES clang_rt.asan-x86_64
-				PATHS
-				[HKEY_LOCAL_MACHINE\\SOFTWARE\\Wow6432Node\\LLVM\\LLVM;]/lib/clang/7.0.0/lib/windows
-				[HKEY_LOCAL_MACHINE\\SOFTWARE\\Wow6432Node\\LLVM\\LLVM;]/lib/clang/6.0.0/lib/windows
-			)
-		endif()
-		mark_as_advanced(COMPILER_ASAN_LIBRARY)
-	endif()
-endif()
-
 # Dependency graph
 option(WITH_LEGACY_DEPSGRAPH "Build Blender with legacy dependency graph" ON)
 mark_as_advanced(WITH_LEGACY_DEPSGRAPH)
@@ -638,12 +604,10 @@ endif()
 
 if(NOT WITH_AUDASPACE)
 	if(WITH_OPENAL)
-		message(WARNING "WITH_OPENAL requires WITH_AUDASPACE which is disabled")
-		set(WITH_OPENAL OFF)
+		message(FATAL_ERROR "WITH_OPENAL requires WITH_AUDASPACE")
 	endif()
 	if(WITH_JACK)
-		message(WARNING "WITH_JACK requires WITH_AUDASPACE which is disabled")
-		set(WITH_JACK OFF)
+		message(FATAL_ERROR "WITH_JACK requires WITH_AUDASPACE")
 	endif()
 	if(WITH_GAMEENGINE)
 		message(FATAL_ERROR "WITH_GAMEENGINE requires WITH_AUDASPACE")
@@ -855,8 +819,7 @@ set(C_WARNINGS)
 set(CXX_WARNINGS)
 
 # for gcc -Wno-blah-blah
-set(C_REMOVE_STRICT_FLAGS)
-set(CXX_REMOVE_STRICT_FLAGS)
+set(CC_REMOVE_STRICT_FLAGS)
 
 # libraries to link the binary with passed to target_link_libraries()
 # known as LLIBS to scons
@@ -868,21 +831,6 @@ set(PLATFORM_LINKLIBS "")
 set(PLATFORM_LINKFLAGS "")
 set(PLATFORM_LINKFLAGS_DEBUG "")
 
-if (NOT CMAKE_BUILD_TYPE MATCHES "Release")
-	if(WITH_COMPILER_ASAN)
-		set(CMAKE_C_FLAGS_DEBUG "${CMAKE_C_FLAGS_DEBUG} ${COMPILER_ASAN_CFLAGS}")
-		set(CMAKE_C_FLAGS_RELWITHDEBINFO "${CMAKE_C_FLAGS_RELWITHDEBINFO} ${COMPILER_ASAN_CFLAGS}")
-
-		set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} ${COMPILER_ASAN_CXXFLAGS}")
-		set(CMAKE_CXX_FLAGS_RELWITHDEBINFO "${CMAKE_CXX_FLAGS_RELWITHDEBINFO} ${COMPILER_ASAN_CXXFLAGS}")
-		if(MSVC)
-			set(COMPILER_ASAN_LINKER_FLAGS "/FUNCTIONPADMIN:6")
-		endif()
-		set(PLATFORM_LINKLIBS "${PLATFORM_LINKLIBS};${COMPILER_ASAN_LIBRARY}")
-		set(PLATFORM_LINKFLAGS "${COMPILER_ASAN_LIBRARY} ${COMPILER_ASAN_LINKER_FLAGS}")
-		set(PLATFORM_LINKFLAGS_DEBUG "${COMPILER_ASAN_LIBRARY} ${COMPILER_ASAN_LINKER_FLAGS}")
-	endif()
-endif()
 
 #-----------------------------------------------------------------------------
 #Platform specifics
@@ -1483,22 +1431,16 @@ if(CMAKE_COMPILER_IS_GNUCC)
 	endif()
 
 	# flags to undo strict flags
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_DEPRECATED_DECLARATIONS -Wno-deprecated-declarations)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_PARAMETER        -Wno-unused-parameter)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_FUNCTION         -Wno-unused-function)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_TYPE_LIMITS             -Wno-type-limits)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_INT_IN_BOOL_CONTEXT     -Wno-int-in-bool-context)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_FORMAT                  -Wno-format)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_SWITCH                  -Wno-switch)
-
-	ADD_CHECK_CXX_COMPILER_FLAG(CXX_REMOVE_STRICT_FLAGS CXX_WARN_NO_CLASS_MEMACCESS     -Wno-class-memaccess)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_DEPRECATED_DECLARATIONS -Wno-deprecated-declarations)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_PARAMETER        -Wno-unused-parameter)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_FUNCTION         -Wno-unused-function)
 
 	if(CMAKE_COMPILER_IS_GNUCC AND (NOT "${CMAKE_C_COMPILER_VERSION}" VERSION_LESS "7.0"))
-		ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_IMPLICIT_FALLTHROUGH    -Wno-implicit-fallthrough)
+		ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_IMPLICIT_FALLTHROUGH    -Wno-implicit-fallthrough)
 	endif()
 
 	if(NOT APPLE)
-		ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_ERROR_UNUSED_BUT_SET_VARIABLE -Wno-error=unused-but-set-variable)
+		ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_ERROR_UNUSED_BUT_SET_VARIABLE -Wno-error=unused-but-set-variable)
 	endif()
 
 elseif(CMAKE_C_COMPILER_ID MATCHES "Clang")
@@ -1527,23 +1469,23 @@ elseif(CMAKE_C_COMPILER_ID MATCHES "Clang")
 	# ADD_CHECK_CXX_COMPILER_FLAG(CXX_WARNINGS CXX_WARN_UNUSED_MACROS          -Wunused-macros)
 
 	# flags to undo strict flags
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_PARAMETER -Wno-unused-parameter)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_MACROS    -Wno-unused-macros)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_PARAMETER -Wno-unused-parameter)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_MACROS    -Wno-unused-macros)
 
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_MISSING_VARIABLE_DECLARATIONS -Wno-missing-variable-declarations)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_INCOMPAT_PTR_DISCARD_QUAL -Wno-incompatible-pointer-types-discards-qualifiers)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_FUNCTION -Wno-unused-function)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_INT_TO_VOID_POINTER_CAST -Wno-int-to-void-pointer-cast)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_MISSING_PROTOTYPES -Wno-missing-prototypes)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_DUPLICATE_ENUM -Wno-duplicate-enum)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_UNDEF -Wno-undef)
-	ADD_CHECK_C_COMPILER_FLAG(C_REMOVE_STRICT_FLAGS C_WARN_NO_MISSING_NORETURN -Wno-missing-noreturn)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_MISSING_VARIABLE_DECLARATIONS -Wno-missing-variable-declarations)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_INCOMPAT_PTR_DISCARD_QUAL -Wno-incompatible-pointer-types-discards-qualifiers)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_UNUSED_FUNCTION -Wno-unused-function)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_INT_TO_VOID_POINTER_CAST -Wno-int-to-void-pointer-cast)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_MISSING_PROTOTYPES -Wno-missing-prototypes)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_DUPLICATE_ENUM -Wno-duplicate-enum)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_UNDEF -Wno-undef)
+	ADD_CHECK_C_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS C_WARN_NO_MISSING_NORETURN -Wno-missing-noreturn)
 
-	ADD_CHECK_CXX_COMPILER_FLAG(CXX_REMOVE_STRICT_FLAGS CXX_WARN_NO_UNUSED_PRIVATE_FIELD -Wno-unused-private-field)
-	ADD_CHECK_CXX_COMPILER_FLAG(CXX_REMOVE_STRICT_FLAGS CXX_WARN_NO_CXX11_NARROWING -Wno-c++11-narrowing)
-	ADD_CHECK_CXX_COMPILER_FLAG(CXX_REMOVE_STRICT_FLAGS CXX_WARN_NO_NON_VIRTUAL_DTOR -Wno-non-virtual-dtor)
-	ADD_CHECK_CXX_COMPILER_FLAG(CXX_REMOVE_STRICT_FLAGS CXX_WARN_NO_UNUSED_MACROS -Wno-unused-macros)
-	ADD_CHECK_CXX_COMPILER_FLAG(CXX_REMOVE_STRICT_FLAGS CXX_WARN_NO_REORDER -Wno-reorder)
+	ADD_CHECK_CXX_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS CXX_WARN_NO_UNUSED_PRIVATE_FIELD -Wno-unused-private-field)
+	ADD_CHECK_CXX_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS CXX_WARN_NO_CXX11_NARROWING -Wno-c++11-narrowing)
+	ADD_CHECK_CXX_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS CXX_WARN_NO_NON_VIRTUAL_DTOR -Wno-non-virtual-dtor)
+	ADD_CHECK_CXX_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS CXX_WARN_NO_UNUSED_MACROS -Wno-unused-macros)
+	ADD_CHECK_CXX_COMPILER_FLAG(CC_REMOVE_STRICT_FLAGS CXX_WARN_NO_REORDER -Wno-reorder)
 
 elseif(CMAKE_C_COMPILER_ID MATCHES "Intel")
 
@@ -1635,12 +1577,7 @@ else()
 endif()
 
 # Visual Studio has all standards it supports available by default
-# Clang on windows copies this behavior and does not support these switches
-if(
-	CMAKE_COMPILER_IS_GNUCC OR
-	(CMAKE_C_COMPILER_ID MATCHES "Clang" AND (NOT MSVC)) OR
-	(CMAKE_C_COMPILER_ID MATCHES "Intel")
-)
+if(CMAKE_COMPILER_IS_GNUCC OR CMAKE_C_COMPILER_ID MATCHES "Clang" OR CMAKE_C_COMPILER_ID MATCHES "Intel")
 	# Use C99 + GNU extensions, works with GCC, Clang, ICC
 	if(WITH_C11)
 		set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -std=gnu11")

GNUmakefile

@@ -236,9 +236,7 @@ help: .FORCE
 	@echo "  * check_descriptions   - check for duplicate/invalid descriptions"
 	@echo ""
 	@echo "Utilities (not associated with building blender)"
-	@echo "  * icons    - Updates PNG icons from SVG files."
-	@echo "               Set environment variables 'BLENDER_BIN' and 'INKSCAPE_BIN'"
-	@echo "               to define your own commands."
+	@echo "  * icons    - updates PNG icons from SVG files."
 	@echo "  * tgz      - create a compressed archive of the source code."
 	@echo "  * update   - updates git and all submodules"
 	@echo ""

build_files/build_environment/cmake/llvm.cmake

@@ -58,3 +58,4 @@ if(MSVC)
 		DEPENDEES mkdir update patch download configure build install
 	)
 endif()
+

build_files/build_environment/cmake/openal.cmake

@@ -39,6 +39,5 @@ if(BUILD_MODE STREQUAL Release)
 		PREFIX ${BUILD_DIR}/openal
 		CMAKE_ARGS -DCMAKE_INSTALL_PREFIX=${LIBDIR}/openal ${DEFAULT_CMAKE_FLAGS} ${OPENAL_EXTRA_ARGS}
 		INSTALL_DIR ${LIBDIR}/openal
-		PATCH_COMMAND ${PATCH_CMD} -p 1 -d ${BUILD_DIR}/openal/src/external_openal < ${PATCH_DIR}/openal.diff
 	)
 endif()

build_files/build_environment/cmake/options.cmake

@@ -56,27 +56,24 @@ if(WIN32)
 	# For OIIO and OSL
 	set(COMMON_DEFINES /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS)
 
-	if(MSVC_VERSION GREATER 1909)
-		set(COMMON_MSVC_FLAGS "/Wv:18") #some deps with warnings as error aren't quite ready for dealing with the new 2017 warnings.
+	# TODO FIXME highly MSVC specific
+	if(WITH_OPTIMIZED_DEBUG)
+		set(BLENDER_CMAKE_C_FLAGS_DEBUG "/MTd /O2 /Ob2 /DNDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+	else()
+		set(BLENDER_CMAKE_C_FLAGS_DEBUG "/MTd /Zi /Ob0 /Od /RTC1 /D_DEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
 	endif()
+	set(BLENDER_CMAKE_C_FLAGS_MINSIZEREL "/MT /O1 /Ob1 /D NDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+	set(BLENDER_CMAKE_C_FLAGS_RELEASE "/MT /O2 /Ob2 /DNDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+	set(BLENDER_CMAKE_C_FLAGS_RELWITHDEBINFO "/MT /Zi /O2 /Ob1 /D NDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
 
 	if(WITH_OPTIMIZED_DEBUG)
-		set(BLENDER_CMAKE_C_FLAGS_DEBUG "/MTd ${COMMON_MSVC_FLAGS} /O2 /Ob2 /DNDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+		set(BLENDER_CMAKE_CXX_FLAGS_DEBUG "/MTd /O2 /Ob2 /D NDEBUG /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
 	else()
-		set(BLENDER_CMAKE_C_FLAGS_DEBUG "/MTd ${COMMON_MSVC_FLAGS} /Zi /Ob0 /Od /RTC1 /D_DEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+		set(BLENDER_CMAKE_CXX_FLAGS_DEBUG "/D_DEBUG /D PLATFORM_WINDOWS /MTd /Zi /Ob0 /Od /RTC1 /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
 	endif()
-	set(BLENDER_CMAKE_C_FLAGS_MINSIZEREL "/MT ${COMMON_MSVC_FLAGS} /O1 /Ob1 /D NDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-	set(BLENDER_CMAKE_C_FLAGS_RELEASE "/MT ${COMMON_MSVC_FLAGS} /O2 /Ob2 /DNDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-	set(BLENDER_CMAKE_C_FLAGS_RELWITHDEBINFO "/MT ${COMMON_MSVC_FLAGS} /Zi /O2 /Ob1 /D NDEBUG /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-
-	if(WITH_OPTIMIZED_DEBUG)
-		set(BLENDER_CMAKE_CXX_FLAGS_DEBUG "/MTd ${COMMON_MSVC_FLAGS} /O2 /Ob2 /D NDEBUG /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-	else()
-		set(BLENDER_CMAKE_CXX_FLAGS_DEBUG "/D_DEBUG /D PLATFORM_WINDOWS /MTd  ${COMMON_MSVC_FLAGS} /Zi /Ob0 /Od /RTC1 /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-	endif()
-	set(BLENDER_CMAKE_CXX_FLAGS_MINSIZEREL "/MT /${COMMON_MSVC_FLAGS} /O1 /Ob1 /D NDEBUG  /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-	set(BLENDER_CMAKE_CXX_FLAGS_RELEASE "/MT ${COMMON_MSVC_FLAGS} /O2 /Ob2 /D NDEBUG /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
-	set(BLENDER_CMAKE_CXX_FLAGS_RELWITHDEBINFO "/MT ${COMMON_MSVC_FLAGS} /Zi /O2 /Ob1 /D NDEBUG /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+	set(BLENDER_CMAKE_CXX_FLAGS_MINSIZEREL "/MT /O1 /Ob1 /D NDEBUG  /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+	set(BLENDER_CMAKE_CXX_FLAGS_RELEASE "/MT /O2 /Ob2 /D NDEBUG /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
+	set(BLENDER_CMAKE_CXX_FLAGS_RELWITHDEBINFO "/MT /Zi /O2 /Ob1 /D NDEBUG /D PLATFORM_WINDOWS /DPSAPI_VERSION=1 /DOIIO_STATIC_BUILD /DTINYFORMAT_ALLOW_WCHAR_STRINGS")
 
 	set(PLATFORM_FLAGS)
 	set(PLATFORM_CXX_FLAGS)

build_files/build_environment/cmake/setup_mingw32.cmake

@@ -216,3 +216,4 @@ if(NOT EXISTS "${DOWNLOAD_DIR}/mingw/mingw32/bin/i686-w64-mingw32-ranlib.exe")
 		COMMAND ${CMAKE_COMMAND} -E copy "${DOWNLOAD_DIR}/mingw/mingw32/bin/ranlib.exe" "${DOWNLOAD_DIR}/mingw/mingw32/bin/i686-w64-mingw32-ranlib.exe"
 	)
 endif()
+

build_files/build_environment/cmake/setup_mingw64.cmake

@@ -216,3 +216,4 @@ if(NOT EXISTS "${DOWNLOAD_DIR}/mingw/mingw64/bin/x86_64-w64-mingw32-ranlib.exe")
 		COMMAND ${CMAKE_COMMAND} -E copy "${DOWNLOAD_DIR}/mingw/mingw64/bin/ranlib.exe" "${DOWNLOAD_DIR}/mingw/mingw64/bin/x86_64-w64-mingw32-ranlib.exe"
 	)
 endif()
+

build_files/build_environment/cmake/zlib_mingw.cmake

@@ -37,3 +37,4 @@ endif()
 if(MSVC)
 	set_target_properties(external_zlib_mingw PROPERTIES FOLDER Mingw)
 endif()
+

build_files/build_environment/patches/boost.diff

@@ -13,25 +13,3 @@
 -#     pragma message("Unknown compiler version - please run the configure tests and report the results")
 -#  endif
 -#endif
---- a/boost/type_traits/has_nothrow_assign.hpp	2015-12-13 05:49:42 -0700
-+++ b/boost/type_traits/has_nothrow_assign.hpp	2018-05-27 11:11:02 -0600
-@@ -24,7 +24,7 @@
- #include <boost/type_traits/remove_reference.hpp>
- #endif
- #endif
--#if defined(__GNUC__) || defined(__SUNPRO_CC)
-+#if defined(__GNUC__) || defined(__SUNPRO_CC) || defined(__clang__)
- #include <boost/type_traits/is_const.hpp>
- #include <boost/type_traits/is_volatile.hpp>
- #include <boost/type_traits/is_assignable.hpp>
---- a/boost/type_traits/has_nothrow_constructor.hpp	2015-12-13 05:49:42 -0700
-+++ b/boost/type_traits/has_nothrow_constructor.hpp	2018-05-27 11:11:02 -0600
-@@ -17,7 +17,7 @@
- #if defined(BOOST_MSVC) || defined(BOOST_INTEL)
- #include <boost/type_traits/has_trivial_constructor.hpp>
- #endif
--#if defined(__GNUC__ ) || defined(__SUNPRO_CC)
-+#if defined(__GNUC__ ) || defined(__SUNPRO_CC) || defined(__clang__)
- #include <boost/type_traits/is_default_constructible.hpp>
- #endif
- 

build_files/build_environment/patches/cmake/modules/SelectLibraryConfigurations.cmake

@@ -79,3 +79,4 @@ macro( select_library_configurations basename )
         ${basename}_LIBRARY_DEBUG
     )
 endmacro( select_library_configurations )
+

build_files/build_environment/patches/openal.diff

@@ -1,13 +0,0 @@
-diff -Naur external_openal_original/CMakeLists.txt external_openal/CMakeLists.txt
---- external_openal_original/CMakeLists.txt	2016-01-24 20:12:39 -0700
-+++ external_openal/CMakeLists.txt	2018-06-02 12:16:52 -0600
-@@ -885,7 +885,8 @@
- OPTION(ALSOFT_REQUIRE_MMDEVAPI "Require MMDevApi backend" OFF)
- IF(HAVE_WINDOWS_H)
-     # Check MMSystem backend
--    CHECK_INCLUDE_FILES("windows.h;mmsystem.h" HAVE_MMSYSTEM_H -D_WIN32_WINNT=0x0502)
-+    set(CMAKE_REQUIRED_FLAGS "-D_WIN32_WINNT=0x0502")
-+    CHECK_INCLUDE_FILES("windows.h;mmsystem.h" HAVE_MMSYSTEM_H)
-     IF(HAVE_MMSYSTEM_H)
-         CHECK_SHARED_FUNCTION_EXISTS(waveOutOpen "windows.h;mmsystem.h" winmm "" HAVE_LIBWINMM)
-         IF(HAVE_LIBWINMM)

build_files/build_environment/patches/osl.diff

@@ -10,29 +10,3 @@ diff -Naur osl/src/external_osl/src/cmake/flexbison.cmake osl_bak/src/external_o
            MAIN_DEPENDENCY ${flexsrc}
            DEPENDS ${${compiler_headers}}
            WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR} )
---- osl/src/external_osl/src/include/OSL/oslconfig.h	2016-10-31 16:48:19 -0600
-+++ osl/src/external_osl/src/include/OSL/oslconfig.h	2018-05-27 11:18:08 -0600
-@@ -44,12 +44,18 @@
- // same if another packages is compiling against OSL and using these headers
- // (OSL may be C++11 but the client package may be older, or vice versa --
- // use these two symbols to differentiate these cases, when important).
--#if (__cplusplus >= 201402L)
--#  define OSL_CPLUSPLUS_VERSION  14
--#elif (__cplusplus >= 201103L)
--#  define OSL_CPLUSPLUS_VERSION  11
-+
-+// Force C++03 for MSVC in blender since svn the libraries are build with that
-+#if !defined(_MSC_VER)
-+	#if (__cplusplus >= 201402L)
-+	#  define OSL_CPLUSPLUS_VERSION  14
-+	#elif (__cplusplus >= 201103L)
-+	#  define OSL_CPLUSPLUS_VERSION  11
-+	#else
-+	#  define OSL_CPLUSPLUS_VERSION  3 /* presume C++03 */
-+	#endif
- #else
--#  define OSL_CPLUSPLUS_VERSION  3 /* presume C++03 */
-+	#  define OSL_CPLUSPLUS_VERSION  3 /* presume C++03 */
- #endif
- 
- // Symbol export defines

build_files/build_environment/windows/build_deps.cmd

@@ -14,18 +14,10 @@ if NOT "%1" == "" (
     set BuildDir=VS14
     goto par2
   )
-	if "%1" == "2017" (
-    echo "Building for VS2017"
-    set VSVER=15.0
-    set VSVER_SHORT=15
-    set BuildDir=VS15
-    goto par2
-  )
-  
 )
 :usage
 
-Echo Usage build_deps 2013/2015/2017 x64/x86
+Echo Usage build_deps 2013/2015 x64/x86
 goto exit
 :par2
 if NOT "%2" == "" (
@@ -39,10 +31,6 @@ if NOT "%2" == "" (
 		if "%1" == "2015" (
 			set CMAKE_BUILDER=Visual Studio 14 2015
 		)
-		if "%1" == "2017" (
-			set CMAKE_BUILDER=Visual Studio 15 2017
-		)
-		
     goto start
   )
 	if "%2" == "x64" (
@@ -55,10 +43,6 @@ if NOT "%2" == "" (
 		if "%1" == "2015" (
 			set CMAKE_BUILDER=Visual Studio 14 2015 Win64
 		)
-		if "%1" == "2017" (
-			set CMAKE_BUILDER=Visual Studio 15 2017 Win64
-		)
-		
     goto start
   )
 )

build_files/buildbot/slave_compile.py

@@ -78,13 +78,7 @@ if 'cmake' in builder:
         # cmake_extra_options.append('-DCUDA_NVCC_EXECUTABLE=/usr/local/cuda-hack/nvcc')
 
     elif builder.startswith('win'):
-        if builder.endswith('_vs2017'):
-            if builder.startswith('win64'):
-                cmake_options.extend(['-G', 'Visual Studio 15 2017 Win64'])
-            elif builder.startswith('win32'):
-                bits = 32
-                cmake_options.extend(['-G', 'Visual Studio 15 2017'])
-        elif builder.endswith('_vc2015'):
+        if builder.endswith('_vc2015'):
             if builder.startswith('win64'):
                 cmake_options.extend(['-G', 'Visual Studio 14 2015 Win64'])
             elif builder.startswith('win32'):

build_files/cmake/Modules/FindLLVM.cmake

@@ -93,3 +93,4 @@ FIND_PACKAGE_HANDLE_STANDARD_ARGS(LLVM DEFAULT_MSG
 MARK_AS_ADVANCED(
   LLVM_LIBRARY
 )
+

build_files/cmake/macros.cmake

@@ -352,11 +352,6 @@ function(SETUP_LIBDIRS)
 	endif()
 endfunction()
 
-macro(setup_platform_linker_flags)
-	set(CMAKE_EXE_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} ${PLATFORM_LINKFLAGS}")
-	set(CMAKE_EXE_LINKER_FLAGS_DEBUG "${CMAKE_EXE_LINKER_FLAGS_DEBUG} ${PLATFORM_LINKFLAGS_DEBUG}")
-endmacro()
-
 function(setup_liblinks
 	target
 	)
@@ -1041,19 +1036,13 @@ macro(remove_cc_flag
 
 endmacro()
 
-macro(add_c_flag
+macro(add_cc_flag
 	flag)
 
 	set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${flag}")
 	set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${flag}")
 endmacro()
 
-macro(add_cxx_flag
-	flag)
-
-	set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${flag}")
-endmacro()
-
 macro(remove_strict_flags)
 
 	if(CMAKE_COMPILER_IS_GNUCC)
@@ -1076,8 +1065,7 @@ macro(remove_strict_flags)
 		)
 
 		# negate flags implied by '-Wall'
-		add_c_flag("${C_REMOVE_STRICT_FLAGS}")
-		add_cxx_flag("${CXX_REMOVE_STRICT_FLAGS}")
+		add_cc_flag("${CC_REMOVE_STRICT_FLAGS}")
 	endif()
 
 	if(CMAKE_C_COMPILER_ID MATCHES "Clang")
@@ -1089,8 +1077,7 @@ macro(remove_strict_flags)
 		)
 
 		# negate flags implied by '-Wall'
-		add_c_flag("${C_REMOVE_STRICT_FLAGS}")
-		add_cxx_flag("${CXX_REMOVE_STRICT_FLAGS}")
+		add_cc_flag("${CC_REMOVE_STRICT_FLAGS}")
 	endif()
 
 	if(MSVC)
@@ -1120,39 +1107,28 @@ endmacro()
 # note, we can only append flags on a single file so we need to negate the options.
 # at the moment we cant shut up ffmpeg deprecations, so use this, but will
 # probably add more removals here.
-macro(remove_strict_c_flags_file
+macro(remove_strict_flags_file
 	filenames)
+
 	foreach(_SOURCE ${ARGV})
+
 		if(CMAKE_COMPILER_IS_GNUCC OR
 		  (CMAKE_C_COMPILER_ID MATCHES "Clang"))
-			set_source_files_properties(${_SOURCE}
-				PROPERTIES
-					COMPILE_FLAGS "${C_REMOVE_STRICT_FLAGS}"
-			)
-		endif()
-		if(MSVC)
-			# TODO
-		endif()
-	endforeach()
-	unset(_SOURCE)
-endmacro()
 
-macro(remove_strict_cxx_flags_file
-	filenames)
-	remove_strict_c_flags_file(${filenames} ${ARHV})
-	foreach(_SOURCE ${ARGV})
-		if(CMAKE_COMPILER_IS_GNUCC OR
-		   (CMAKE_CXX_COMPILER_ID MATCHES "Clang"))
 			set_source_files_properties(${_SOURCE}
 				PROPERTIES
-					COMPILE_FLAGS "${CXX_REMOVE_STRICT_FLAGS}"
+					COMPILE_FLAGS "${CC_REMOVE_STRICT_FLAGS}"
 			)
 		endif()
+
 		if(MSVC)
 			# TODO
 		endif()
+
 	endforeach()
+
 	unset(_SOURCE)
+
 endmacro()
 
 # External libs may need 'signed char' to be default.

build_files/cmake/platform/platform_apple.cmake

@@ -356,7 +356,7 @@ if(WITH_LLVM)
 			execute_process(COMMAND ${LLVM_CONFIG} --libfiles
 					OUTPUT_VARIABLE LLVM_LIBRARY
 					OUTPUT_STRIP_TRAILING_WHITESPACE)
-			string(REPLACE ".a /" ".a;/" LLVM_LIBRARY ${LLVM_LIBRARY})
+			string(REPLACE " " ";" LLVM_LIBRARY ${LLVM_LIBRARY})
 		else()
 			set(PLATFORM_LINKFLAGS "${PLATFORM_LINKFLAGS} -lLLVM-3.4")
 		endif()
@@ -416,7 +416,7 @@ if(${XCODE_VERSION} VERSION_EQUAL 5 OR ${XCODE_VERSION} VERSION_GREATER 5)
 endif()
 # Get rid of eventually clashes, we export some symbols explicite as local
 set(PLATFORM_LINKFLAGS
-	"${PLATFORM_LINKFLAGS} -Xlinker -unexported_symbols_list -Xlinker '${CMAKE_SOURCE_DIR}/source/creator/osx_locals.map'"
+	"${PLATFORM_LINKFLAGS} -Xlinker -unexported_symbols_list -Xlinker ${CMAKE_SOURCE_DIR}/source/creator/osx_locals.map"
 )
 
 set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -stdlib=libc++")

build_files/cmake/platform/platform_win32.cmake

@@ -29,16 +29,7 @@ if(NOT MSVC)
 	message(FATAL_ERROR "Compiler is unsupported")
 endif()
 
-if(CMAKE_C_COMPILER_ID MATCHES "Clang")
-	set(MSVC_CLANG On)
-	set(VC_TOOLS_DIR $ENV{VCToolsRedistDir} CACHE STRING "Location of the msvc redistributables")
-	set(MSVC_REDIST_DIR ${VC_TOOLS_DIR})
-	if (DEFINED MSVC_REDIST_DIR)
-		file(TO_CMAKE_PATH ${MSVC_REDIST_DIR} MSVC_REDIST_DIR)
-	else()
-		message("Unable to detect the Visual Studio redist directory, copying of the runtime dlls will not work, try running from the visual studio developer prompt.")
-	endif()
-endif()
+# Libraries configuration for Windows when compiling with MSVC.
 
 set_property(GLOBAL PROPERTY USE_FOLDERS ${WINDOWS_USE_VISUAL_STUDIO_FOLDERS})
 
@@ -128,18 +119,8 @@ set(CMAKE_INSTALL_OPENMP_LIBRARIES ${WITH_OPENMP})
 set(CMAKE_INSTALL_SYSTEM_RUNTIME_DESTINATION .)
 include(InstallRequiredSystemLibraries)
 
-remove_cc_flag("/MDd" "/MD")
-
-if(MSVC_CLANG) # Clangs version of cl doesn't support all flags
-	if(NOT WITH_CXX11) # C++11 is on by default in clang-cl and can't be turned off, if c++11 is not enabled in blender repress some c++11 related warnings.
-		set(CXX_WARN_FLAGS "-Wno-inconsistent-missing-override")
-	endif()
-	set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${CXX_WARN_FLAGS} /nologo /J /Gd /EHsc -Wno-unused-command-line-argument -Wno-microsoft-enum-forward-reference ")
-	set(CMAKE_C_FLAGS     "${CMAKE_C_FLAGS} /nologo /J /Gd -Wno-unused-command-line-argument -Wno-microsoft-enum-forward-reference")
-else()
 set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /nologo /J /Gd /MP /EHsc")
 set(CMAKE_C_FLAGS     "${CMAKE_C_FLAGS} /nologo /J /Gd /MP")
-endif()
 
 set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} /MTd")
 set(CMAKE_C_FLAGS_DEBUG "${CMAKE_C_FLAGS_DEBUG} /MTd")
@@ -150,7 +131,7 @@ set(CMAKE_C_FLAGS_MINSIZEREL "${CMAKE_C_FLAGS_MINSIZEREL} /MT")
 set(CMAKE_CXX_FLAGS_RELWITHDEBINFO "${CMAKE_CXX_FLAGS_RELWITHDEBINFO} /MT")
 set(CMAKE_C_FLAGS_RELWITHDEBINFO "${CMAKE_C_FLAGS_RELWITHDEBINFO} /MT")
 
-set(PLATFORM_LINKFLAGS "${PLATFORM_LINKFLAGS} /SUBSYSTEM:CONSOLE /STACK:2097152 /INCREMENTAL:NO ")
+set(PLATFORM_LINKFLAGS "/SUBSYSTEM:CONSOLE /STACK:2097152 /INCREMENTAL:NO ")
 set(PLATFORM_LINKFLAGS "${PLATFORM_LINKFLAGS} /NODEFAULTLIB:msvcrt.lib /NODEFAULTLIB:msvcmrt.lib /NODEFAULTLIB:msvcurt.lib /NODEFAULTLIB:msvcrtd.lib ")
 
 # Ignore meaningless for us linker warnings.
@@ -163,7 +144,7 @@ else()
 	set(PLATFORM_LINKFLAGS "/MACHINE:IX86 /LARGEADDRESSAWARE ${PLATFORM_LINKFLAGS}")
 endif()
 
-set(PLATFORM_LINKFLAGS_DEBUG "${PLATFORM_LINKFLAGS_DEBUG} /IGNORE:4099 /NODEFAULTLIB:libcmt.lib /NODEFAULTLIB:libc.lib")
+set(PLATFORM_LINKFLAGS_DEBUG "/IGNORE:4099 /NODEFAULTLIB:libcmt.lib /NODEFAULTLIB:libc.lib")
 
 if(NOT DEFINED LIBDIR)
 

build_files/windows/autodetect_msvc.cmd

@@ -1,14 +0,0 @@
-echo No explicit msvc version requested, autodetecting version.
-
-call "%~dp0\detect_msvc2017.cmd"
-if %ERRORLEVEL% EQU 0 goto DetectionComplete
-
-call "%~dp0\detect_msvc2015.cmd"
-if %ERRORLEVEL% EQU 0 goto DetectionComplete
-
-echo Compiler Detection failed. Use verbose switch for more information. 
-exit /b 1
-
-:DetectionComplete
-echo Compiler Detection successfull, detected VS%BUILD_VS_YEAR%
-exit /b 0

build_files/windows/build_msbuild.cmd

@@ -1,26 +0,0 @@
-if "%NOBUILD%"=="1" goto EOF
-echo %TIME% > %BUILD_DIR%\buildtime.txt
-msbuild ^
-	%BUILD_DIR%\Blender.sln ^
-	/target:build ^
-	/property:Configuration=%BUILD_TYPE% ^
-	/maxcpucount:2 ^
-	/verbosity:minimal ^
-	/p:platform=%MSBUILD_PLATFORM% ^
-	/flp:Summary;Verbosity=minimal;LogFile=%BUILD_DIR%\Build.log 
-	if errorlevel 1 (
-		echo Error during build, see %BUILD_DIR%\Build.log for details 
-		exit /b 1
-	)
-
-msbuild ^
-	%BUILD_DIR%\INSTALL.vcxproj ^
-	/property:Configuration=%BUILD_TYPE% ^
-	/verbosity:minimal ^
-	/p:platform=%MSBUILD_PLATFORM% 
-	if errorlevel 1 (
-		echo Error during install phase
-		exit /b 1
-	)
-echo %TIME% >> %BUILD_DIR%\buildtime.txt
-:EOF

build_files/windows/build_ninja.cmd

@@ -1,16 +0,0 @@
-if "%NOBUILD%"=="1" goto EOF
-set HAS_ERROR=
-cd %BUILD_DIR%
-echo %TIME% > buildtime.txt
-ninja install
-if errorlevel 1 (
-		set HAS_ERROR=1
-	)
-echo %TIME% >>buildtime.txt
-cd %BLENDER_DIR%
-
-if "%HAS_ERROR%" == "1" (
-		echo Error during build
-		exit /b 1
-)
-:EOF

build_files/windows/check_libraries.cmd

@@ -1,53 +0,0 @@
-if "%BUILD_VS_YEAR%"=="2015" set BUILD_VS_LIBDIRPOST=vc14
-if "%BUILD_VS_YEAR%"=="2017" set BUILD_VS_LIBDIRPOST=vc14
-
-if "%BUILD_ARCH%"=="x64" (
-	set BUILD_VS_SVNDIR=win64_%BUILD_VS_LIBDIRPOST%
-) else if "%BUILD_ARCH%"=="x86" (
-	set BUILD_VS_SVNDIR=windows_%BUILD_VS_LIBDIRPOST%
-)
-set BUILD_VS_LIBDIR="%BLENDER_DIR%..\lib\%BUILD_VS_SVNDIR%"
-
-if NOT "%verbose%" == "" (
-	echo Library Directory = "%BUILD_VS_LIBDIR%"
-)
-if NOT EXIST %BUILD_VS_LIBDIR% (
-	rem libs not found, but svn is on the system
-	echo 
-	if not "%SVN%"=="" (
-		echo.
-		echo The required external libraries in %BUILD_VS_LIBDIR% are missing
-		echo.
-		set /p GetLibs= "Would you like to download them? (y/n)"
-		if /I "!GetLibs!"=="Y" (
-			echo.
-			echo Downloading %BUILD_VS_SVNDIR% libraries, please wait.
-			echo.
-:RETRY			
-			"%SVN%" checkout https://svn.blender.org/svnroot/bf-blender/trunk/lib/%BUILD_VS_SVNDIR% %BUILD_VS_LIBDIR%
-			if errorlevel 1 (
-				set /p LibRetry= "Error during donwload, retry? y/n"
-				if /I "!LibRetry!"=="Y" (
-					cd %BUILD_VS_LIBDIR%
-					"%SVN%" cleanup 
-					cd %BLENDER_DIR%
-					goto RETRY
-				)
-				echo.
-				echo Error: Download of external libraries failed. 
-				echo This is needed for building, please manually run 'svn cleanup' and 'svn update' in
-				echo %BUILD_VS_LIBDIR% , until this is resolved you CANNOT make a successfull blender build
-				echo.
-				exit /b 1
-			)
-		)
-	)
-)
-
-if NOT EXIST %BUILD_VS_LIBDIR% (
-	echo.
-	echo Error: Required libraries not found at "%BUILD_VS_LIBDIR%"
-	echo This is needed for building, aborting!
-	echo.
-	exit /b 1
-)

build_files/windows/check_spaces_in_path.cmd

@@ -1,6 +0,0 @@
-set BLENDER_DIR_NOSPACES=%BLENDER_DIR: =%
-
-if not "%BLENDER_DIR%"=="%BLENDER_DIR_NOSPACES%" (
-	echo There are spaces detected in the build path "%BLENDER_DIR%", this is currently not supported, exiting....
-	exit /b 1
-)

build_files/windows/check_submodules.cmd

@@ -1,20 +0,0 @@
-if NOT exist "%BLENDER_DIR%/source/tools" (
-	echo Checking out sub-modules 
-	if not "%GIT%" == "" (
-		"%GIT%" submodule update --init --recursive --progress
-		if errorlevel 1 goto FAIL
-		"%GIT%" submodule foreach git checkout master
-		if errorlevel 1 goto FAIL
-		"%GIT%" submodule foreach git pull --rebase origin master
-		if errorlevel 1 goto FAIL
-		goto EOF
-	) else (
-		echo Blender submodules not found, and git not found in path to retrieve them.
-		goto FAIL
-	)
-)
-goto EOF
-
-:FAIL
-exit /b 1
-:EOF

build_files/windows/configure_msbuild.cmd

@@ -1,74 +0,0 @@
-if "%BUILD_ARCH%"=="x64" (
-	set MSBUILD_PLATFORM=x64
-) else if "%BUILD_ARCH%"=="x86" (
-	set MSBUILD_PLATFORM=win32
-	if "%WITH_CLANG%"=="1" (
-		echo Clang not supported for X86
-		exit /b 1
-	)
-)
-
-if "%WITH_CLANG%"=="1" (
-	set CLANG_CMAKE_ARGS=-T"LLVM-vs2017"
-	if "%WITH_ASAN%"=="1" (
-		set ASAN_CMAKE_ARGS=-DWITH_COMPILER_ASAN=On
-	)
-) else (
-	if "%WITH_ASAN%"=="1" (
-		echo ASAN is only supported with clang.
-		exit /b 1 
-	)
-)
-set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -G "Visual Studio %BUILD_VS_VER% %BUILD_VS_YEAR%%WINDOWS_ARCH%" %TESTS_CMAKE_ARGS% %CLANG_CMAKE_ARGS% %ASAN_CMAKE_ARGS%
-
-if NOT EXIST %BUILD_DIR%\nul (
-	mkdir %BUILD_DIR%
-)
-
-if "%MUST_CLEAN%"=="1" (
-	echo Cleaning %BUILD_DIR%
-	msbuild ^
-		%BUILD_DIR%\Blender.sln ^
-		/target:clean ^
-		/property:Configuration=%BUILD_TYPE% ^
-		/verbosity:minimal ^
-		/p:platform=%MSBUILD_PLATFORM%
-)
-
-if NOT EXIST %BUILD_DIR%\Blender.sln set MUST_CONFIGURE=1
-if "%NOBUILD%"=="1" set MUST_CONFIGURE=1
-
-if "%MUST_CONFIGURE%"=="1" (
-
-	if NOT "%verbose%" == "" (
-		echo %CMAKE% %BUILD_CMAKE_ARGS% -H%BLENDER_DIR% -B%BUILD_DIR% 
-	)
-
-	cmake ^
-		%BUILD_CMAKE_ARGS% ^
-		-H%BLENDER_DIR% ^
-		-B%BUILD_DIR% 
-
-	if %ERRORLEVEL% NEQ 0 (
-		echo "Configuration Failed"
-		exit /b 1
-	)
-)
-
-echo call "%VCVARS%" %BUILD_ARCH% > %BUILD_DIR%\rebuild.cmd
-echo "%CMAKE%" . >> %BUILD_DIR%\rebuild.cmd
-echo echo %%TIME%% ^> buildtime.txt >> %BUILD_DIR%\rebuild.cmd
-echo msbuild ^
-	%BUILD_DIR%\Blender.sln ^
-	/target:build ^
-	/property:Configuration=%BUILD_TYPE% ^
-	/maxcpucount:2 ^
-	/verbosity:minimal ^
-	/p:platform=%MSBUILD_PLATFORM% ^
-	/flp:Summary;Verbosity=minimal;LogFile=%BUILD_DIR%\Build.log >> %BUILD_DIR%\rebuild.cmd
-echo msbuild ^
-	%BUILD_DIR%\INSTALL.vcxproj ^
-	/property:Configuration=%BUILD_TYPE% ^
-	/verbosity:minimal ^
-	/p:platform=%MSBUILD_PLATFORM% >> %BUILD_DIR%\rebuild.cmd
-echo echo %%TIME%% ^>^> buildtime.txt >> %BUILD_DIR%\rebuild.cmd

build_files/windows/configure_ninja.cmd

@@ -1,80 +0,0 @@
-ninja --version 1>NUL 2>&1
-if %ERRORLEVEL% NEQ 0 (
-		echo "Ninja not detected in the path"
-		exit /b 1
-	)
-
-set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -G "Ninja" %TESTS_CMAKE_ARGS% -DCMAKE_BUILD_TYPE=%BUILD_TYPE%
-
-if "%WITH_CLANG%" == "1" (
-set LLVM_DIR=
-	for /F "usebackq skip=2 tokens=1-2*" %%A IN (`REG QUERY "HKEY_LOCAL_MACHINE\SOFTWARE\Wow6432Node\LLVM\LLVM" /ve 2^>nul`) DO set LLVM_DIR=%%C
-	if DEFINED LLVM_DIR (
-		if NOT "%verbose%" == "" (
-			echo LLVM Detected at "%LLVM_DIR%"
-		)
-	goto DetectionComplete
-	)
-
-	REM Check 32 bits
-	for /F "usebackq skip=2 tokens=1-2*" %%A IN (`REG QUERY "HKEY_LOCAL_MACHINE\SOFTWARE\LLVM\LLVM" /ve 2^>nul`) DO set LLVM_DIR=%%C
-	if DEFINED LLVM_DIR (
-		if NOT "%verbose%" == "" (
-			echo LLVM Detected at "%LLVM_DIR%"
-		)
-		goto DetectionComplete
-	)
-	echo LLVM not found 
-	exit /b 1
-	
-:DetectionComplete	
-	set CC=%LLVM_DIR%\bin\clang-cl
-	set CXX=%LLVM_DIR%\bin\clang-cl
-	rem build and tested against 2017 15.7
-	set CFLAGS=-m64 -fmsc-version=1914
-	set CXXFLAGS=-m64 -fmsc-version=1914
-	if "%WITH_ASAN%"=="1" (
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -DWITH_COMPILER_ASAN=On
-	)	
-)
-
-if "%WITH_ASAN%"=="1" (
-	if "%WITH_CLANG%" == "" (
-		echo ASAN is only supported with clang.
-		exit /b 1 
-	)
-)
-
-if NOT "%verbose%" == "" (
-	echo BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% 
-)
-
-if NOT EXIST %BUILD_DIR%\nul (
-	mkdir %BUILD_DIR%
-)
-
-if "%MUST_CLEAN%"=="1" (
-	echo Cleaning %BUILD_DIR%
-	cd %BUILD_DIR%
-	%CMAKE% cmake --build . --config Clean
-)
-
-if NOT EXIST %BUILD_DIR%\Blender.sln set MUST_CONFIGURE=1
-if "%NOBUILD%"=="1" set MUST_CONFIGURE=1
-
-if "%MUST_CONFIGURE%"=="1" (
-	cmake ^
-		%BUILD_CMAKE_ARGS% ^
-		-H%BLENDER_DIR% ^
-		-B%BUILD_DIR% 
-
-	if %ERRORLEVEL% NEQ 0 (
-		echo "Configuration Failed"
-		exit /b 1
-	)
-)
-
-echo call "%VCVARS%" %BUILD_ARCH% > %BUILD_DIR%\rebuild.cmd
-echo echo %%TIME%% ^> buildtime.txt >> %BUILD_DIR%\rebuild.cmd
-echo ninja install >> %BUILD_DIR%\rebuild.cmd 
-echo echo %%TIME%% ^>^> buildtime.txt >> %BUILD_DIR%\rebuild.cmd

build_files/windows/detect_architecture.cmd

@@ -1,16 +0,0 @@
-if "%BUILD_ARCH%"=="" (
-	if "%PROCESSOR_ARCHITECTURE%" == "AMD64" (
-		set WINDOWS_ARCH= Win64
-		set BUILD_ARCH=x64
-	) else if "%PROCESSOR_ARCHITEW6432%" == "AMD64" (
-		set WINDOWS_ARCH= Win64
-		set BUILD_ARCH=x64
-	) else (
-		set WINDOWS_ARCH=
-		set BUILD_ARCH=x86
-	)
-) else if "%BUILD_ARCH%"=="x64" (
-	set WINDOWS_ARCH= Win64
-) else if "%BUILD_ARCH%"=="x86" (
-	set WINDOWS_ARCH=
-)

build_files/windows/detect_msvc2015.cmd

@@ -1,3 +0,0 @@
-set BUILD_VS_VER=14
-set BUILD_VS_YEAR=2015
-call "%~dp0\detect_msvc_classic.cmd"

build_files/windows/detect_msvc2017.cmd

@@ -1,76 +0,0 @@
-if NOT "%verbose%" == "" (
-	echo Detecting msvc 2017
-)
-set BUILD_VS_VER=15
-set BUILD_VS_YEAR=2017
-set ProgramFilesX86=%ProgramFiles(x86)%
-if not exist "%ProgramFilesX86%" set ProgramFilesX86=%ProgramFiles%
-
-set vs_where=%ProgramFilesX86%\Microsoft Visual Studio\Installer\vswhere.exe
-if not exist "%vs_where%" (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio 2017 ^(15.2 or newer^) is not detected
-		goto FAIL
-	)
-)
-
-if NOT "%verbose%" == "" (
-		echo "%vs_where%" -latest %VSWHERE_ARGS% -requires Microsoft.VisualStudio.Component.VC.Tools.x86.x64`
-	)
-
-for /f "usebackq tokens=1* delims=: " %%i in (`"%vs_where%" -latest %VSWHERE_ARGS% -requires Microsoft.VisualStudio.Component.VC.Tools.x86.x64`) do (
-	if /i "%%i"=="installationPath" set VS_InstallDir=%%j
-)
-
-if "%VS_InstallDir%"=="" (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio is detected but the "Desktop development with C++" workload has not been instlled
-		goto FAIL
-	)
-)
-
-set VCVARS=%VS_InstallDir%\VC\Auxiliary\Build\vcvarsall.bat
-if exist "%VCVARS%" (
-	call "%VCVARS%" %BUILD_ARCH%
-) else (
-	if NOT "%verbose%" == "" (
-		echo "%VCVARS%" not found
-	)
-	goto FAIL
-)
-
-rem try msbuild
-msbuild /version > NUL 
-if errorlevel 1 (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% msbuild not found
-	)
-	goto FAIL
-)
-
-if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% msbuild found 
-)
-
-REM try the c++ compiler
-cl 2> NUL 1>&2
-if errorlevel 1 (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% C/C++ Compiler not found
-	)
-	goto FAIL
-)
-
-if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% C/C++ Compiler found
-)
-
-if NOT "%verbose%" == "" (
-	echo Visual Studio 2017 is detected successfully  
-)
-goto EOF
-
-:FAIL
-exit /b 1 
-
-:EOF

build_files/windows/detect_msvc_classic.cmd

@@ -1,69 +0,0 @@
-if NOT "%verbose%" == "" (
-	echo Detecting msvc %BUILD_VS_YEAR%
-)
-set KEY_NAME="HKEY_LOCAL_MACHINE\SOFTWARE\Wow6432Node\Microsoft\VisualStudio\%BUILD_VS_VER%.0\Setup\VC"
-for /F "usebackq skip=2 tokens=1-2*" %%A IN (`REG QUERY %KEY_NAME% /v ProductDir 2^>nul`) DO set MSVC_VC_DIR=%%C
-if DEFINED MSVC_VC_DIR (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% on Win64 detected at "%MSVC_VC_DIR%"
-	)
-	goto msvc_detect_finally
-)
-
-REM Check 32 bits
-set KEY_NAME="HKEY_LOCAL_MACHINE\SOFTWARE\Microsoft\VisualStudio\%BUILD_VS_VER%.0\Setup\VC"
-for /F "usebackq skip=2 tokens=1-2*" %%A IN (`REG QUERY %KEY_NAME% /v ProductDir 2^>nul`) DO set MSVC_VC_DIR=%%C
-if DEFINED MSVC_VC_DIR (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% on Win32 detected at "%MSVC_VC_DIR%"
-	)
-	goto msvc_detect_finally
-)
-if NOT "%verbose%" == "" (
-	echo Visual Studio %BUILD_VS_YEAR% not found. 
-)
-goto FAIL
-:msvc_detect_finally
-set VCVARS=%MSVC_VC_DIR%\vcvarsall.bat
-if not exist "%VCVARS%" (
-	echo "%VCVARS%" not found.
-	goto FAIL
-)
-
-call "%vcvars%" %BUILD_ARCH%
-
-rem try msbuild
-msbuild /version > NUL 
-if errorlevel 1 (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% msbuild not found
-	)
-	goto FAIL
-)
-
-if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% msbuild found 
-)
-
-REM try the c++ compiler
-cl 2> NUL 1>&2
-if errorlevel 1 (
-	if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% C/C++ Compiler not found
-	)
-	goto FAIL
-)
-
-if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% C/C++ Compiler found
-)
-goto DetectionComplete
-
-:FAIL
-exit /b 1
-
-:DetectionComplete
-if NOT "%verbose%" == "" (
-		echo Visual Studio %BUILD_VS_YEAR% Detected successfuly 
-)
-exit /b 0

build_files/windows/find_dependencies.cmd

@@ -1,13 +0,0 @@
-REM find all dependencies and set the corresponding environement variables. 
-for %%X in (svn.exe) do (set SVN=%%~$PATH:X)
-for %%X in (cmake.exe) do (set CMAKE=%%~$PATH:X)
-for %%X in (git.exe) do (set GIT=%%~$PATH:X)
-if NOT "%verbose%" == "" (
-	echo svn   : %SVN%
-	echo cmake : %CMAKE%
-	echo git   : %GIT%
-)
-if "%CMAKE%" == "" (
-	echo Cmake not found in path, required for building, exiting...
-	exit /b 1
-)

build_files/windows/parse_arguments.cmd

@@ -1,86 +0,0 @@
-set BUILD_DIR=%BLENDER_DIR%..\build_windows
-set BUILD_TYPE=Release
-:argv_loop
-if NOT "%1" == "" (
-
-	REM Help Message
-	if "%1" == "help" (
-		set SHOW_HELP=1
-		goto EOF
-	)
-	REM Build Types
-	if "%1" == "debug" (
-		set BUILD_TYPE=Debug
-	REM Build Configurations
-	) else if "%1" == "noge" (
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -DWITH_GAMEENGINE=OFF -DWITH_PLAYER=OFF
-		set BUILD_NGE=_noge
-	) else if "%1" == "builddir" (
-		set BUILD_DIR_OVERRRIDE="%BLENDER_DIR%..\%2"
-		shift /1
-	) else if "%1" == "with_tests" (
-		set TESTS_CMAKE_ARGS=-DWITH_GTESTS=On
-	) else if "%1" == "full" (
-		set TARGET=Full
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% ^
-		    -C"%BLENDER_DIR%\build_files\cmake\config\blender_full.cmake"
-	) else if "%1" == "lite" (
-		set TARGET=Lite
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -C"%BLENDER_DIR%\build_files\cmake\config\blender_lite.cmake"
-	) else if "%1" == "cycles" (
-		set TARGET=Cycles
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -C"%BLENDER_DIR%\build_files\cmake\config\cycles_standalone.cmake"
-	) else if "%1" == "headless" (
-		set TARGET=Headless
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -C"%BLENDER_DIR%\build_files\cmake\config\blender_headless.cmake"
-	) else if "%1" == "bpy" (
-		set TARGET=Bpy
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -C"%BLENDER_DIR%\build_files\cmake\config\bpy_module.cmake"
-	) else if "%1" == "clang" (
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS%
-		set WITH_CLANG=1
-	) else if "%1" == "release" (
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -C"%BLENDER_DIR%\build_files\cmake\config\blender_release.cmake"
-		set TARGET=Release
-	) else if "%1" == "asan" (
-		set WITH_ASAN=1
-	) else if "%1" == "x86" (
-		set BUILD_ARCH=x86
-	) else if "%1" == "x64" (
-		set BUILD_ARCH=x64
-	) else if "%1" == "2017" (
-		set BUILD_VS_YEAR=2017
-	) else if "%1" == "2017pre" (
-		set BUILD_VS_YEAR=2017
-		set VSWHERE_ARGS=-prerelease
-		set BUILD_VS_YEAR=2017
-	) else if "%1" == "2017b" (
-		set BUILD_VS_YEAR=2017
-		set VSWHERE_ARGS=-products Microsoft.VisualStudio.Product.BuildTools
-	) else if "%1" == "2015" (
-		set BUILD_VS_YEAR=2015
-	) else if "%1" == "packagename" (
-		set BUILD_CMAKE_ARGS=%BUILD_CMAKE_ARGS% -DCPACK_OVERRIDE_PACKAGENAME="%2"
-		shift /1
-	) else if "%1" == "nobuild" (
-		set NOBUILD=1
-	) else if "%1" == "showhash" (
-		SET BUILD_SHOW_HASHES=1
-	REM Non-Build Commands
-	) else if "%1" == "update" (
-		SET BUILD_UPDATE=1
-	) else if "%1" == "ninja" (
-		SET BUILD_WITH_NINJA=1
-	) else if "%1" == "clean" (
-		set MUST_CLEAN=1
-	) else if "%1" == "verbose" (
-		set VERBOSE=1
-	) else (
-		echo Command "%1" unknown, aborting!
-		exit /b 1
-	)
-	shift /1
-	goto argv_loop
-)
-:EOF
-exit /b 0

build_files/windows/reset_variables.cmd

@@ -1,27 +0,0 @@
-rem reset all variables so they do not get accidentally get carried over from previous builds
-set BUILD_DIR_OVERRRIDE=
-set BUILD_CMAKE_ARGS=
-set BUILD_ARCH=
-set BUILD_VS_VER=
-set BUILD_VS_YEAR=
-set BUILD_VS_LIBDIRPOST=
-set BUILD_VS_LIBDIR=
-set BUILD_VS_SVNDIR=
-set BUILD_NGE=
-set KEY_NAME=
-set MSBUILD_PLATFORM=
-set MUST_CLEAN=
-set NOBUILD=
-set TARGET=
-set VERBOSE=
-set WINDOWS_ARCH=
-set TESTS_CMAKE_ARGS=
-set VSWHERE_ARGS=
-set BUILD_UPDATE=
-set BUILD_SHOW_HASHES=
-set SHOW_HELP=
-set BUILD_WITH_NINJA=
-set WITH_CLANG=
-set WITH_ASAN=
-set CLANG_CMAKE_ARGS=
-set ASAN_CMAKE_ARGS=

build_files/windows/set_build_dir.cmd

@@ -1,4 +0,0 @@
-set BUILD_DIR=%BUILD_DIR%_%TARGET%%BUILD_NGE%_%BUILD_ARCH%_vc%BUILD_VS_VER%_%BUILD_TYPE%
-if NOT "%BUILD_DIR_OVERRRIDE%"=="" (
-	set BUILD_DIR=%BUILD_DIR_OVERRRIDE%
-)

build_files/windows/show_hashes.cmd

@@ -1,12 +0,0 @@
-if "%GIT%" == "" (
-	echo Git not found, cannot show hashes.
-	goto EOF
-)
-cd "%BLENDER_DIR%"
-for /f "delims=" %%i in ('"%GIT%" rev-parse HEAD') do echo Branch_hash=%%i
-cd "%BLENDER_DIR%/release/datafiles/locale"
-for /f "delims=" %%i in ('"%GIT%" rev-parse HEAD') do echo Locale_hash=%%i
-cd "%BLENDER_DIR%/release/scripts/addons"
-for /f "delims=" %%i in ('"%GIT%" rev-parse HEAD') do echo Addons_Hash=%%i
-cd "%BLENDER_DIR%"
-:EOF

build_files/windows/show_help.cmd

@@ -1,35 +0,0 @@
-echo.
-echo Convenience targets
-echo - release ^(identical to the official blender.org builds^)
-echo - full ^(same as release minus the cuda kernels^)
-echo - lite
-echo - headless
-echo - cycles
-echo - bpy
-echo.
-echo Utilities ^(not associated with building^)
-echo - clean ^(Target must be set^)
-echo - update
-echo - nobuild ^(only generate project files^)
-echo - showhash ^(Show git hashes of source tree^)
-echo.
-echo Configuration options
-echo - verbose ^(enable diagnostic output during configuration^)
-echo - with_tests ^(enable building unit tests^)
-echo - noge ^(disable building game enginge and player^)
-echo - debug ^(Build an unoptimized debuggable build^)
-echo - packagename [newname] ^(override default cpack package name^)
-echo - buildir [newdir] ^(override default build folder^)
-echo - x86 ^(override host auto-detect and build 32 bit code^)
-echo - x64 ^(override host auto-detect and build 64 bit code^)
-echo - 2017 ^(build with visual studio 2017^)
-echo - 2017pre ^(build with visual studio 2017 pre-release^)
-echo - 2017b ^(build with visual studio 2017 Build Tools^)
-
-echo.
-echo Experimental options
-echo - 2015 ^(build with visual studio 2015^)
-echo - clang ^(enable building with clang^)
-echo - asan ^(enable asan when building with clang^)
-echo - ninja ^(enable building with ninja instead of msbuild^)
-echo.

build_files/windows/update_sources.cmd

@@ -1,16 +0,0 @@
-if "%SVN%" == "" (
-	echo svn not found, cannot update libraries
-	goto UPDATE_GIT
-)
-"%SVN%" up "%BLENDER_DIR%/../lib/*"
-
-:UPDATE_GIT
-
-if "%GIT%" == "" (
-	echo Git not found, cannot update code
-	goto EOF
-)
-"%GIT%" pull --rebase
-"%GIT%" submodule foreach git pull --rebase origin master
-
-:EOF

doc/blender_file_format/BlendFileReader.py

@@ -34,7 +34,6 @@ log = logging.getLogger("BlendFileReader")
 # module global routines
 ######################################################
 
-
 def ReadString(handle, length):
     '''
     ReadString reads a String of given length or a zero terminating String
@@ -339,7 +338,7 @@ class DNAName:
         return result
 
     def ShortName(self):
-        result = self.Name
+        result = self.Name;
         result = result.replace("*", "")
         result = result.replace("(", "")
         result = result.replace(")", "")
@@ -399,7 +398,7 @@ class DNAStructure:
         splitted = path.partition(".")
         name = splitted[0]
         rest = splitted[2]
-        offset = 0
+        offset = 0;
         for field in self.Fields:
             if field.Name.ShortName() == name:
                 log.debug("found "+name+"@"+str(offset))
@@ -444,3 +443,4 @@ class DNAField:
                 return ReadString(handle, self.Name.ArraySize())
         else:
             return self.Type.Structure.GetField(header, handle, path)
+

doc/manpage/blender.1.py

@@ -42,7 +42,6 @@ def man_format(data):
     data = data.replace("\t", "  ")
     return data
 
-
 if len(sys.argv) != 3:
     import getopt
     raise getopt.GetoptError("Usage: %s <path-to-blender> <output-filename>" % sys.argv[0])

doc/python_api/examples/bge.texture.2.py

@@ -220,8 +220,6 @@ def config_video(obj, format, pixel, is3D=False, mat=0, card=0):
 # Attach this function to an object that has a material with texture
 # and call it once to initialize the object
 #
-
-
 def init(cont):
     # config_video(cont.owner, 'HD720p5994', '8BitBGRA')
     # config_video(cont.owner, 'HD720p5994', '8BitYUV')

doc/python_api/examples/blf.py

@@ -15,7 +15,6 @@ font_info = {
     "handler": None,
 }
 
-
 def init():
     """init function - runs once"""
     import os

doc/python_api/examples/bpy.app.handlers.1.py

@@ -17,5 +17,4 @@ from bpy.app.handlers import persistent
 def load_handler(dummy):
     print("Load Handler:", bpy.data.filepath)
 
-
 bpy.app.handlers.load_post.append(load_handler)

doc/python_api/examples/bpy.app.handlers.py

@@ -11,5 +11,4 @@ import bpy
 def my_handler(scene):
     print("Frame Change", scene.frame_current)
 
-
 bpy.app.handlers.frame_change_pre.append(my_handler)

doc/python_api/examples/bpy.app.translations.py

@@ -81,7 +81,6 @@ for msg in translations_tuple:
 
 # Define remaining addon (operators, UI...) here.
 
-
 def register():
    # Usual operator/UI/etc. registration...
 

doc/python_api/examples/bpy.props.2.py

@@ -14,7 +14,6 @@ class MaterialSettings(bpy.types.PropertyGroup):
     my_float = bpy.props.FloatProperty()
     my_string = bpy.props.StringProperty()
 
-
 bpy.utils.register_class(MaterialSettings)
 
 bpy.types.Material.my_settings = \

doc/python_api/examples/bpy.props.3.py

@@ -14,7 +14,6 @@ class SceneSettingItem(bpy.types.PropertyGroup):
     name = bpy.props.StringProperty(name="Test Prop", default="Unknown")
     value = bpy.props.IntProperty(name="Test Prop", default=22)
 
-
 bpy.utils.register_class(SceneSettingItem)
 
 bpy.types.Scene.my_settings = \

doc/python_api/examples/bpy.props.4.py

@@ -14,7 +14,6 @@ import bpy
 def update_func(self, context):
     print("my test function", self)
 
-
 bpy.types.Scene.testprop = bpy.props.FloatProperty(update=update_func)
 
 bpy.context.scene.testprop = 11.0

doc/python_api/examples/bpy.props.5.py

@@ -19,7 +19,6 @@ def get_float(self):
 def set_float(self, value):
     self["testprop"] = value
 
-
 bpy.types.Scene.test_float = bpy.props.FloatProperty(get=get_float, set=set_float)
 
 
@@ -28,7 +27,6 @@ def get_date(self):
     import datetime
     return str(datetime.datetime.now())
 
-
 bpy.types.Scene.test_date = bpy.props.StringProperty(get=get_date)
 
 
@@ -42,7 +40,6 @@ def get_array(self):
 def set_array(self, values):
     self["somebool"] = values[0] and values[1]
 
-
 bpy.types.Scene.test_array = bpy.props.BoolVectorProperty(size=2, get=get_array, set=set_array)
 
 
@@ -64,7 +61,6 @@ def get_enum(self):
 def set_enum(self, value):
     print("setting value", value)
 
-
 bpy.types.Scene.test_enum = bpy.props.EnumProperty(items=test_items, get=get_enum, set=set_enum)
 
 

doc/python_api/examples/bpy.types.Menu.2.py

@@ -14,5 +14,4 @@ import bpy
 def menu_draw(self, context):
     self.layout.operator("wm.save_homefile")
 
-
 bpy.types.INFO_MT_file.append(menu_draw)

doc/python_api/examples/bpy.types.Menu.4.py

@@ -60,7 +60,6 @@ def menu_func(self, context):
     layout.separator()
     layout.operator(WM_OT_button_context_test.bl_idname)
 
-
 classes = (
     WM_OT_button_context_test,
     WM_MT_button_context,
@@ -78,6 +77,5 @@ def unregister():
         bpy.utils.unregister_class(cls)
     bpy.types.WM_MT_button_context.remove(menu_func)
 
-
 if __name__ == "__main__":
     register()

doc/python_api/examples/bpy.types.NodeTree.py

@@ -21,5 +21,4 @@ class CyclesNodeTree(bpy.types.NodeTree):
     def poll(cls, context):
         return context.scene.render.engine == 'CYCLES'
 
-
 bpy.utils.register_class(CyclesNodeTree)

doc/python_api/examples/bpy.types.Operator.1.py

@@ -42,7 +42,6 @@ class SimpleMouseOperator(bpy.types.Operator):
         self.y = event.mouse_y
         return self.execute(context)
 
-
 bpy.utils.register_class(SimpleMouseOperator)
 
 # Test call to the newly defined operator.

doc/python_api/examples/bpy.types.Operator.2.py

@@ -42,7 +42,6 @@ def menu_func(self, context):
     self.layout.operator_context = 'INVOKE_DEFAULT'
     self.layout.operator(ExportSomeData.bl_idname, text="Text Export Operator")
 
-
 # Register and add to the file selector
 bpy.utils.register_class(ExportSomeData)
 bpy.types.INFO_MT_file_export.append(menu_func)

doc/python_api/examples/bpy.types.Operator.4.py

@@ -41,7 +41,6 @@ class CustomDrawOperator(bpy.types.Operator):
 
         col.prop(self, "my_string")
 
-
 bpy.utils.register_class(CustomDrawOperator)
 
 # test call

doc/python_api/examples/bpy.types.Operator.py

@@ -22,7 +22,6 @@ class HelloWorldOperator(bpy.types.Operator):
         print("Hello World")
         return {'FINISHED'}
 
-
 bpy.utils.register_class(HelloWorldOperator)
 
 # test call to the newly defined operator

doc/python_api/examples/bpy.types.PropertyGroup.py

@@ -31,7 +31,6 @@ class MyPropertyGroup(bpy.types.PropertyGroup):
     custom_1 = bpy.props.FloatProperty(name="My Float")
     custom_2 = bpy.props.IntProperty(name="My Int")
 
-
 bpy.utils.register_class(MyPropertyGroup)
 
 bpy.types.Object.my_prop_grp = bpy.props.PointerProperty(type=MyPropertyGroup)

doc/python_api/examples/bpy.types.WindowManager.popup_menu.py

@@ -10,5 +10,4 @@ import bpy
 def draw(self, context):
     self.layout.label("Hello World")
 
-
 bpy.context.window_manager.popup_menu(draw, title="Greeting", icon='INFO')

doc/python_api/examples/bpy.types.bpy_struct.keyframe_insert.1.py

@@ -12,7 +12,6 @@ from bpy.props import PointerProperty
 class MyPropGroup(bpy.types.PropertyGroup):
     nested = bpy.props.FloatProperty(name="Nested", default=0.0)
 
-
 # register it so its available for all bones
 bpy.utils.register_class(MyPropGroup)
 bpy.types.Bone.my_prop = PointerProperty(type=MyPropGroup,

doc/python_api/sphinx_doc_gen.py

@@ -73,8 +73,6 @@ def rna_info_BuildRNAInfo_cache():
     if rna_info_BuildRNAInfo_cache.ret is None:
         rna_info_BuildRNAInfo_cache.ret = rna_info.BuildRNAInfo()
     return rna_info_BuildRNAInfo_cache.ret
-
-
 rna_info_BuildRNAInfo_cache.ret = None
 # --- end rna_info cache
 
@@ -515,8 +513,6 @@ def escape_rst(text):
     """ Escape plain text which may contain characters used by RST.
     """
     return text.translate(escape_rst.trans)
-
-
 escape_rst.trans = str.maketrans({
     "`": "\\`",
     "|": "\\|",
@@ -1019,7 +1015,6 @@ def pymodule2sphinx(basepath, module_name, module, title):
 
     file.close()
 
-
 # Changes in Blender will force errors here
 context_type_map = {
     "active_base": ("ObjectBase", False),

doc/python_api/sphinx_doc_update.py

@@ -107,16 +107,14 @@ def main():
 
     with tempfile.TemporaryDirectory() as tmp_dir:
         # II) Generate doc source in temp dir.
-        doc_gen_cmd = (
-            args.blender, "--background", "-noaudio", "--factory-startup", "--python-exit-code", "1",
+        doc_gen_cmd = (args.blender, "--background", "-noaudio", "--factory-startup", "--python-exit-code", "1",
                        "--python", "%s/doc/python_api/sphinx_doc_gen.py" % args.source_dir, "--",
-            "--output", tmp_dir
-        )
+                       "--output", tmp_dir)
         subprocess.run(doc_gen_cmd)
 
         # III) Get Blender version info.
         getver_file = os.path.join(tmp_dir, "blendver.txt")
-        getver_script = (
+        getver_script = (""
             "import sys, bpy\n"
             "with open(sys.argv[-1], 'w') as f:\n"
             "    is_release = bpy.app.version_cycle in {'rc', 'release'}\n"
@@ -126,8 +124,7 @@ def main():
             "    f.write('%d.%d%s\\n' % (bpy.app.version[0], bpy.app.version[1], bpy.app.version_char)\n"
             "            if is_release else '%s\\n' % branch)\n"
             "    f.write('%d_%d%s_release' % (bpy.app.version[0], bpy.app.version[1], bpy.app.version_char)\n"
-            "            if is_release else '%d_%d_%d' % bpy.app.version)\n"
-        )
+            "            if is_release else '%d_%d_%d' % bpy.app.version)\n")
         get_ver_cmd = (args.blender, "--background", "-noaudio", "--factory-startup", "--python-exit-code", "1",
                        "--python-expr", getver_script, "--", getver_file)
         subprocess.run(get_ver_cmd)

extern/Eigen3/Eigen/src/Core/arch/SSE/PacketMath.h

@@ -335,7 +335,7 @@ template<> EIGEN_STRONG_INLINE void prefetch<float>(const float*   addr) { _mm_p
 template<> EIGEN_STRONG_INLINE void prefetch<double>(const double* addr) { _mm_prefetch((const char*)(addr), _MM_HINT_T0); }
 template<> EIGEN_STRONG_INLINE void prefetch<int>(const int*       addr) { _mm_prefetch((const char*)(addr), _MM_HINT_T0); }
 
-#if defined(_MSC_VER) && defined(_WIN64) && !defined(__INTEL_COMPILER) && !defined(__clang__)
+#if defined(_MSC_VER) && defined(_WIN64) && !defined(__INTEL_COMPILER)
 // The temporary variable fixes an internal compilation error in vs <= 2008 and a wrong-result bug in vs 2010
 // Direct of the struct members fixed bug #62.
 template<> EIGEN_STRONG_INLINE float  pfirst<Packet4f>(const Packet4f& a) { return a.m128_f32[0]; }

extern/Eigen3/patches/blender.diff

@@ -1,12 +0,0 @@
-diff -Naur c:\blender-git\blender\extern\Eigen3/Eigen/src/Core/arch/SSE/PacketMath.h k:\BlenderGit\blender\extern\Eigen3/Eigen/src/Core/arch/SSE/PacketMath.h
---- c:\blender-git\blender\extern\Eigen3/Eigen/src/Core/arch/SSE/PacketMath.h	2018-05-25 13:29:14 -0600
-+++ k:\BlenderGit\blender\extern\Eigen3/Eigen/src/Core/arch/SSE/PacketMath.h	2018-05-26 19:56:36 -0600
-@@ -335,7 +335,7 @@
- template<> EIGEN_STRONG_INLINE void prefetch<double>(const double* addr) { _mm_prefetch((const char*)(addr), _MM_HINT_T0); }
- template<> EIGEN_STRONG_INLINE void prefetch<int>(const int*       addr) { _mm_prefetch((const char*)(addr), _MM_HINT_T0); }
- 
--#if defined(_MSC_VER) && defined(_WIN64) && !defined(__INTEL_COMPILER)
-+#if defined(_MSC_VER) && defined(_WIN64) && !defined(__INTEL_COMPILER) && !defined(__clang__)
- // The temporary variable fixes an internal compilation error in vs <= 2008 and a wrong-result bug in vs 2010
- // Direct of the struct members fixed bug #62.
- template<> EIGEN_STRONG_INLINE float  pfirst<Packet4f>(const Packet4f& a) { return a.m128_f32[0]; }

extern/Eigen3/unsupported/Eigen/AdolcForward

@@ -0,0 +1,156 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2008-2009 Gael Guennebaud <g.gael@free.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_ADLOC_FORWARD
+#define EIGEN_ADLOC_FORWARD
+
+//--------------------------------------------------------------------------------
+//
+// This file provides support for adolc's adouble type in forward mode.
+// ADOL-C is a C++ automatic differentiation library,
+// see https://projects.coin-or.org/ADOL-C for more information.
+//
+// Note that the maximal number of directions is controlled by
+// the preprocessor token NUMBER_DIRECTIONS. The default is 2.
+//
+//--------------------------------------------------------------------------------
+
+#define ADOLC_TAPELESS
+#ifndef NUMBER_DIRECTIONS
+# define NUMBER_DIRECTIONS 2
+#endif
+#include <adolc/adouble.h>
+
+// adolc defines some very stupid macros:
+#if defined(malloc)
+# undef malloc
+#endif
+
+#if defined(calloc)
+# undef calloc
+#endif
+
+#if defined(realloc)
+# undef realloc
+#endif
+
+#include <Eigen/Core>
+
+namespace Eigen {
+
+/**
+  * \defgroup AdolcForward_Module Adolc forward module
+  * This module provides support for adolc's adouble type in forward mode.
+  * ADOL-C is a C++ automatic differentiation library,
+  * see https://projects.coin-or.org/ADOL-C for more information.
+  * It mainly consists in:
+  *  - a struct Eigen::NumTraits<adtl::adouble> specialization
+  *  - overloads of internal::* math function for adtl::adouble type.
+  *
+  * Note that the maximal number of directions is controlled by
+  * the preprocessor token NUMBER_DIRECTIONS. The default is 2.
+  *
+  * \code
+  * #include <unsupported/Eigen/AdolcSupport>
+  * \endcode
+  */
+  //@{
+
+} // namespace Eigen
+
+// Eigen's require a few additional functions which must be defined in the same namespace
+// than the custom scalar type own namespace
+namespace adtl {
+
+inline const adouble& conj(const adouble& x)  { return x; }
+inline const adouble& real(const adouble& x)  { return x; }
+inline adouble imag(const adouble&)    { return 0.; }
+inline adouble abs(const adouble&  x)  { return fabs(x); }
+inline adouble abs2(const adouble& x)  { return x*x; }
+
+}
+
+namespace Eigen {
+
+template<> struct NumTraits<adtl::adouble>
+    : NumTraits<double>
+{
+  typedef adtl::adouble Real;
+  typedef adtl::adouble NonInteger;
+  typedef adtl::adouble Nested;
+  enum {
+    IsComplex = 0,
+    IsInteger = 0,
+    IsSigned = 1,
+    RequireInitialization = 1,
+    ReadCost = 1,
+    AddCost = 1,
+    MulCost = 1
+  };
+};
+
+template<typename Functor> class AdolcForwardJacobian : public Functor
+{
+  typedef adtl::adouble ActiveScalar;
+public:
+
+  AdolcForwardJacobian() : Functor() {}
+  AdolcForwardJacobian(const Functor& f) : Functor(f) {}
+
+  // forward constructors
+  template<typename T0>
+  AdolcForwardJacobian(const T0& a0) : Functor(a0) {}
+  template<typename T0, typename T1>
+  AdolcForwardJacobian(const T0& a0, const T1& a1) : Functor(a0, a1) {}
+  template<typename T0, typename T1, typename T2>
+  AdolcForwardJacobian(const T0& a0, const T1& a1, const T1& a2) : Functor(a0, a1, a2) {}
+
+  typedef typename Functor::InputType InputType;
+  typedef typename Functor::ValueType ValueType;
+  typedef typename Functor::JacobianType JacobianType;
+
+  typedef Matrix<ActiveScalar, InputType::SizeAtCompileTime, 1> ActiveInput;
+  typedef Matrix<ActiveScalar, ValueType::SizeAtCompileTime, 1> ActiveValue;
+
+  void operator() (const InputType& x, ValueType* v, JacobianType* _jac) const
+  {
+    eigen_assert(v!=0);
+    if (!_jac)
+    {
+      Functor::operator()(x, v);
+      return;
+    }
+
+    JacobianType& jac = *_jac;
+
+    ActiveInput ax = x.template cast<ActiveScalar>();
+    ActiveValue av(jac.rows());
+
+    for (int j=0; j<jac.cols(); j++)
+      for (int i=0; i<jac.cols(); i++)
+        ax[i].setADValue(j, i==j ? 1 : 0);
+
+    Functor::operator()(ax, &av);
+
+    for (int i=0; i<jac.rows(); i++)
+    {
+      (*v)[i] = av[i].getValue();
+      for (int j=0; j<jac.cols(); j++)
+        jac.coeffRef(i,j) = av[i].getADValue(j);
+    }
+  }
+protected:
+
+};
+
+//@}
+
+}
+
+#endif // EIGEN_ADLOC_FORWARD

extern/Eigen3/unsupported/Eigen/AlignedVector3

@@ -0,0 +1,190 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Gael Guennebaud <g.gael@free.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_ALIGNED_VECTOR3
+#define EIGEN_ALIGNED_VECTOR3
+
+#include <Eigen/Geometry>
+
+namespace Eigen {
+
+/**
+  * \defgroup AlignedVector3_Module Aligned vector3 module
+  *
+  * \code
+  * #include <unsupported/Eigen/AlignedVector3>
+  * \endcode
+  */
+  //@{
+
+
+/** \class AlignedVector3
+  *
+  * \brief A vectorization friendly 3D vector
+  *
+  * This class represents a 3D vector internally using a 4D vector
+  * such that vectorization can be seamlessly enabled. Of course,
+  * the same result can be achieved by directly using a 4D vector.
+  * This class makes this process simpler.
+  *
+  */
+// TODO specialize Cwise
+template<typename _Scalar> class AlignedVector3;
+
+namespace internal {
+template<typename _Scalar> struct traits<AlignedVector3<_Scalar> >
+  : traits<Matrix<_Scalar,3,1,0,4,1> >
+{
+};
+}
+
+template<typename _Scalar> class AlignedVector3
+  : public MatrixBase<AlignedVector3<_Scalar> >
+{
+    typedef Matrix<_Scalar,4,1> CoeffType;
+    CoeffType m_coeffs;
+  public:
+
+    typedef MatrixBase<AlignedVector3<_Scalar> > Base;	
+    EIGEN_DENSE_PUBLIC_INTERFACE(AlignedVector3)
+    using Base::operator*;
+
+    inline Index rows() const { return 3; }
+    inline Index cols() const { return 1; }
+
+    inline const Scalar& coeff(Index row, Index col) const
+    { return m_coeffs.coeff(row, col); }
+
+    inline Scalar& coeffRef(Index row, Index col)
+    { return m_coeffs.coeffRef(row, col); }
+
+    inline const Scalar& coeff(Index index) const
+    { return m_coeffs.coeff(index); }
+
+    inline Scalar& coeffRef(Index index)
+    { return m_coeffs.coeffRef(index);}
+
+
+    inline AlignedVector3(const Scalar& x, const Scalar& y, const Scalar& z)
+      : m_coeffs(x, y, z, Scalar(0))
+    {}
+
+    inline AlignedVector3(const AlignedVector3& other)
+      : Base(), m_coeffs(other.m_coeffs)
+    {}
+
+    template<typename XprType, int Size=XprType::SizeAtCompileTime>
+    struct generic_assign_selector {};
+
+    template<typename XprType> struct generic_assign_selector<XprType,4>
+    {
+      inline static void run(AlignedVector3& dest, const XprType& src)
+      {
+        dest.m_coeffs = src;
+      }
+    };
+
+    template<typename XprType> struct generic_assign_selector<XprType,3>
+    {
+      inline static void run(AlignedVector3& dest, const XprType& src)
+      {
+        dest.m_coeffs.template head<3>() = src;
+        dest.m_coeffs.w() = Scalar(0);
+      }
+    };
+
+    template<typename Derived>
+    inline explicit AlignedVector3(const MatrixBase<Derived>& other)
+    {
+      generic_assign_selector<Derived>::run(*this,other.derived());
+    }
+
+    inline AlignedVector3& operator=(const AlignedVector3& other)
+    { m_coeffs = other.m_coeffs; return *this; }
+
+
+    inline AlignedVector3 operator+(const AlignedVector3& other) const
+    { return AlignedVector3(m_coeffs + other.m_coeffs); }
+
+    inline AlignedVector3& operator+=(const AlignedVector3& other)
+    { m_coeffs += other.m_coeffs; return *this; }
+
+    inline AlignedVector3 operator-(const AlignedVector3& other) const
+    { return AlignedVector3(m_coeffs - other.m_coeffs); }
+
+    inline AlignedVector3 operator-=(const AlignedVector3& other)
+    { m_coeffs -= other.m_coeffs; return *this; }
+
+    inline AlignedVector3 operator*(const Scalar& s) const
+    { return AlignedVector3(m_coeffs * s); }
+
+    inline friend AlignedVector3 operator*(const Scalar& s,const AlignedVector3& vec)
+    { return AlignedVector3(s * vec.m_coeffs); }
+
+    inline AlignedVector3& operator*=(const Scalar& s)
+    { m_coeffs *= s; return *this; }
+
+    inline AlignedVector3 operator/(const Scalar& s) const
+    { return AlignedVector3(m_coeffs / s); }
+
+    inline AlignedVector3& operator/=(const Scalar& s)
+    { m_coeffs /= s; return *this; }
+
+    inline Scalar dot(const AlignedVector3& other) const
+    {
+      eigen_assert(m_coeffs.w()==Scalar(0));
+      eigen_assert(other.m_coeffs.w()==Scalar(0));
+      return m_coeffs.dot(other.m_coeffs);
+    }
+
+    inline void normalize()
+    {
+      m_coeffs /= norm();
+    }
+
+    inline AlignedVector3 normalized()
+    {
+      return AlignedVector3(m_coeffs / norm());
+    }
+
+    inline Scalar sum() const
+    {
+      eigen_assert(m_coeffs.w()==Scalar(0));
+      return m_coeffs.sum();
+    }
+
+    inline Scalar squaredNorm() const
+    {
+      eigen_assert(m_coeffs.w()==Scalar(0));
+      return m_coeffs.squaredNorm();
+    }
+
+    inline Scalar norm() const
+    {
+      using std::sqrt;
+      return sqrt(squaredNorm());
+    }
+
+    inline AlignedVector3 cross(const AlignedVector3& other) const
+    {
+      return AlignedVector3(m_coeffs.cross3(other.m_coeffs));
+    }
+
+    template<typename Derived>
+    inline bool isApprox(const MatrixBase<Derived>& other, const RealScalar& eps=NumTraits<Scalar>::dummy_precision()) const
+    {
+      return m_coeffs.template head<3>().isApprox(other,eps);
+    }
+};
+
+//@}
+
+}
+
+#endif // EIGEN_ALIGNED_VECTOR3

extern/Eigen3/unsupported/Eigen/ArpackSupport

@@ -0,0 +1,31 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_ARPACKSUPPORT_MODULE_H
+#define EIGEN_ARPACKSUPPORT_MODULE_H
+
+#include <Eigen/Core>
+
+#include <Eigen/src/Core/util/DisableStupidWarnings.h>
+
+/** \defgroup ArpackSupport_Module Arpack support module
+  *
+  * This module provides a wrapper to Arpack, a library for sparse eigenvalue decomposition.
+  *
+  * \code
+  * #include <Eigen/ArpackSupport>
+  * \endcode
+  */
+
+#include <Eigen/SparseCholesky>
+#include "src/Eigenvalues/ArpackSelfAdjointEigenSolver.h"
+
+#include <Eigen/src/Core/util/ReenableStupidWarnings.h>
+
+#endif // EIGEN_ARPACKSUPPORT_MODULE_H
+/* vim: set filetype=cpp et sw=2 ts=2 ai: */

extern/Eigen3/unsupported/Eigen/AutoDiff

@@ -0,0 +1,40 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2008-2009 Gael Guennebaud <g.gael@free.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_AUTODIFF_MODULE
+#define EIGEN_AUTODIFF_MODULE
+
+namespace Eigen {
+
+/**
+  * \defgroup AutoDiff_Module Auto Diff module
+  *
+  * This module features forward automatic differentation via a simple
+  * templated scalar type wrapper AutoDiffScalar.
+  *
+  * Warning : this should NOT be confused with numerical differentiation, which
+  * is a different method and has its own module in Eigen : \ref NumericalDiff_Module.
+  *
+  * \code
+  * #include <unsupported/Eigen/AutoDiff>
+  * \endcode
+  */
+//@{
+
+}
+
+#include "src/AutoDiff/AutoDiffScalar.h"
+// #include "src/AutoDiff/AutoDiffVector.h"
+#include "src/AutoDiff/AutoDiffJacobian.h"
+
+namespace Eigen {
+//@}
+}
+
+#endif // EIGEN_AUTODIFF_MODULE

extern/Eigen3/unsupported/Eigen/BVH

@@ -0,0 +1,95 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Ilya Baran <ibaran@mit.edu>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_BVH_MODULE_H
+#define EIGEN_BVH_MODULE_H
+
+#include <Eigen/Core>
+#include <Eigen/Geometry>
+#include <Eigen/StdVector>
+#include <algorithm>
+#include <queue>
+
+namespace Eigen {
+
+/**
+  * \defgroup BVH_Module BVH module
+  * \brief This module provides generic bounding volume hierarchy algorithms
+  * and reference tree implementations.
+  *
+  *
+  * \code
+  * #include <unsupported/Eigen/BVH>
+  * \endcode
+  *
+  * A bounding volume hierarchy (BVH) can accelerate many geometric queries.  This module provides a generic implementation
+  * of the two basic algorithms over a BVH: intersection of a query object against all objects in the hierarchy and minimization
+  * of a function over the objects in the hierarchy.  It also provides intersection and minimization over a cartesian product of
+  * two BVH's.  A BVH accelerates intersection by using the fact that if a query object does not intersect a volume, then it cannot
+  * intersect any object contained in that volume.  Similarly, a BVH accelerates minimization because the minimum of a function
+  * over a volume is no greater than the minimum of a function over any object contained in it.
+  *
+  * Some sample queries that can be written in terms of intersection are:
+  *   - Determine all points where a ray intersects a triangle mesh
+  *   - Given a set of points, determine which are contained in a query sphere
+  *   - Given a set of spheres, determine which contain the query point
+  *   - Given a set of disks, determine if any is completely contained in a query rectangle (represent each 2D disk as a point \f$(x,y,r)\f$
+  *     in 3D and represent the rectangle as a pyramid based on the original rectangle and shrinking in the \f$r\f$ direction)
+  *   - Given a set of points, count how many pairs are \f$d\pm\epsilon\f$ apart (done by looking at the cartesian product of the set
+  *     of points with itself)
+  *
+  * Some sample queries that can be written in terms of function minimization over a set of objects are:
+  *   - Find the intersection between a ray and a triangle mesh closest to the ray origin (function is infinite off the ray)
+  *   - Given a polyline and a query point, determine the closest point on the polyline to the query
+  *   - Find the diameter of a point cloud (done by looking at the cartesian product and using negative distance as the function)
+  *   - Determine how far two meshes are from colliding (this is also a cartesian product query)
+  *
+  * This implementation decouples the basic algorithms both from the type of hierarchy (and the types of the bounding volumes) and
+  * from the particulars of the query.  To enable abstraction from the BVH, the BVH is required to implement a generic mechanism
+  * for traversal.  To abstract from the query, the query is responsible for keeping track of results.
+  *
+  * To be used in the algorithms, a hierarchy must implement the following traversal mechanism (see KdBVH for a sample implementation): \code
+      typedef Volume  //the type of bounding volume
+      typedef Object  //the type of object in the hierarchy
+      typedef Index   //a reference to a node in the hierarchy--typically an int or a pointer
+      typedef VolumeIterator //an iterator type over node children--returns Index
+      typedef ObjectIterator //an iterator over object (leaf) children--returns const Object &
+      Index getRootIndex() const //returns the index of the hierarchy root
+      const Volume &getVolume(Index index) const //returns the bounding volume of the node at given index
+      void getChildren(Index index, VolumeIterator &outVBegin, VolumeIterator &outVEnd,
+                      ObjectIterator &outOBegin, ObjectIterator &outOEnd) const
+      //getChildren takes a node index and makes [outVBegin, outVEnd) range over its node children
+      //and [outOBegin, outOEnd) range over its object children
+    \endcode
+  *
+  * To use the hierarchy, call BVIntersect or BVMinimize, passing it a BVH (or two, for cartesian product) and a minimizer or intersector.
+  * For an intersection query on a single BVH, the intersector encapsulates the query and must provide two functions:
+  * \code
+      bool intersectVolume(const Volume &volume) //returns true if the query intersects the volume
+      bool intersectObject(const Object &object) //returns true if the intersection search should terminate immediately
+    \endcode
+  * The guarantee that BVIntersect provides is that intersectObject will be called on every object whose bounding volume
+  * intersects the query (but possibly on other objects too) unless the search is terminated prematurely.  It is the
+  * responsibility of the intersectObject function to keep track of the results in whatever manner is appropriate.
+  * The cartesian product intersection and the BVMinimize queries are similar--see their individual documentation.
+  *
+  * The following is a simple but complete example for how to use the BVH to accelerate the search for a closest red-blue point pair:
+  * \include BVH_Example.cpp
+  * Output: \verbinclude BVH_Example.out
+  */
+}
+
+//@{
+
+#include "src/BVH/BVAlgorithms.h"
+#include "src/BVH/KdBVH.h"
+
+//@}
+
+#endif // EIGEN_BVH_MODULE_H

extern/Eigen3/unsupported/Eigen/CMakeLists.txt

@@ -0,0 +1,11 @@
+set(Eigen_HEADERS AdolcForward AlignedVector3 ArpackSupport AutoDiff BVH FFT IterativeSolvers KroneckerProduct LevenbergMarquardt
+                  MatrixFunctions MoreVectorization MPRealSupport NonLinearOptimization NumericalDiff OpenGLSupport Polynomials
+                  Skyline SparseExtra Splines
+   )
+
+install(FILES
+  ${Eigen_HEADERS}
+  DESTINATION ${INCLUDE_INSTALL_DIR}/unsupported/Eigen COMPONENT Devel
+  )
+
+add_subdirectory(src)

extern/Eigen3/unsupported/Eigen/FFT

@@ -0,0 +1,418 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra. 
+//
+// Copyright (C) 2009 Mark Borgerding mark a borgerding net
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_FFT_H
+#define EIGEN_FFT_H
+
+#include <complex>
+#include <vector>
+#include <map>
+#include <Eigen/Core>
+
+
+/**
+  * \defgroup FFT_Module Fast Fourier Transform module
+  *
+  * \code
+  * #include <unsupported/Eigen/FFT>
+  * \endcode
+  *
+  * This module provides Fast Fourier transformation, with a configurable backend
+  * implementation.
+  *
+  * The default implementation is based on kissfft. It is a small, free, and
+  * reasonably efficient default.
+  *
+  * There are currently two implementation backend:
+  *
+  * - fftw (http://www.fftw.org) : faster, GPL -- incompatible with Eigen in LGPL form, bigger code size.
+  * - MKL (http://en.wikipedia.org/wiki/Math_Kernel_Library) : fastest, commercial -- may be incompatible with Eigen in GPL form.
+  *
+  * \section FFTDesign Design
+  *
+  * The following design decisions were made concerning scaling and
+  * half-spectrum for real FFT.
+  *
+  * The intent is to facilitate generic programming and ease migrating code
+  * from  Matlab/octave.
+  * We think the default behavior of Eigen/FFT should favor correctness and
+  * generality over speed. Of course, the caller should be able to "opt-out" from this
+  * behavior and get the speed increase if they want it.
+  *
+  * 1) %Scaling:
+  * Other libraries (FFTW,IMKL,KISSFFT)  do not perform scaling, so there
+  * is a constant gain incurred after the forward&inverse transforms , so 
+  * IFFT(FFT(x)) = Kx;  this is done to avoid a vector-by-value multiply.  
+  * The downside is that algorithms that worked correctly in Matlab/octave 
+  * don't behave the same way once implemented in C++.
+  *
+  * How Eigen/FFT differs: invertible scaling is performed so IFFT( FFT(x) ) = x. 
+  *
+  * 2) Real FFT half-spectrum
+  * Other libraries use only half the frequency spectrum (plus one extra 
+  * sample for the Nyquist bin) for a real FFT, the other half is the 
+  * conjugate-symmetric of the first half.  This saves them a copy and some 
+  * memory.  The downside is the caller needs to have special logic for the 
+  * number of bins in complex vs real.
+  *
+  * How Eigen/FFT differs: The full spectrum is returned from the forward 
+  * transform.  This facilitates generic template programming by obviating 
+  * separate specializations for real vs complex.  On the inverse
+  * transform, only half the spectrum is actually used if the output type is real.
+  */
+ 
+
+#ifdef EIGEN_FFTW_DEFAULT
+// FFTW: faster, GPL -- incompatible with Eigen in LGPL form, bigger code size
+#  include <fftw3.h>
+#  include "src/FFT/ei_fftw_impl.h"
+   namespace Eigen {
+     //template <typename T> typedef struct internal::fftw_impl  default_fft_impl; this does not work
+     template <typename T> struct default_fft_impl : public internal::fftw_impl<T> {};
+   }
+#elif defined EIGEN_MKL_DEFAULT
+// TODO 
+// intel Math Kernel Library: fastest, commercial -- may be incompatible with Eigen in GPL form
+#  include "src/FFT/ei_imklfft_impl.h"
+   namespace Eigen {
+     template <typename T> struct default_fft_impl : public internal::imklfft_impl {};
+   }
+#else
+// internal::kissfft_impl:  small, free, reasonably efficient default, derived from kissfft
+//
+# include "src/FFT/ei_kissfft_impl.h"
+  namespace Eigen {
+     template <typename T> 
+       struct default_fft_impl : public internal::kissfft_impl<T> {};
+  }
+#endif
+
+namespace Eigen {
+
+ 
+// 
+template<typename T_SrcMat,typename T_FftIfc> struct fft_fwd_proxy;
+template<typename T_SrcMat,typename T_FftIfc> struct fft_inv_proxy;
+
+namespace internal {
+template<typename T_SrcMat,typename T_FftIfc>
+struct traits< fft_fwd_proxy<T_SrcMat,T_FftIfc> >
+{
+  typedef typename T_SrcMat::PlainObject ReturnType;
+};
+template<typename T_SrcMat,typename T_FftIfc>
+struct traits< fft_inv_proxy<T_SrcMat,T_FftIfc> >
+{
+  typedef typename T_SrcMat::PlainObject ReturnType;
+};
+}
+
+template<typename T_SrcMat,typename T_FftIfc> 
+struct fft_fwd_proxy
+ : public ReturnByValue<fft_fwd_proxy<T_SrcMat,T_FftIfc> >
+{
+  typedef DenseIndex Index;
+
+  fft_fwd_proxy(const T_SrcMat& src,T_FftIfc & fft, Index nfft) : m_src(src),m_ifc(fft), m_nfft(nfft) {}
+
+  template<typename T_DestMat> void evalTo(T_DestMat& dst) const;
+
+  Index rows() const { return m_src.rows(); }
+  Index cols() const { return m_src.cols(); }
+protected:
+  const T_SrcMat & m_src;
+  T_FftIfc & m_ifc;
+  Index m_nfft;
+private:
+  fft_fwd_proxy& operator=(const fft_fwd_proxy&);
+};
+
+template<typename T_SrcMat,typename T_FftIfc> 
+struct fft_inv_proxy
+ : public ReturnByValue<fft_inv_proxy<T_SrcMat,T_FftIfc> >
+{
+  typedef DenseIndex Index;
+
+  fft_inv_proxy(const T_SrcMat& src,T_FftIfc & fft, Index nfft) : m_src(src),m_ifc(fft), m_nfft(nfft) {}
+
+  template<typename T_DestMat> void evalTo(T_DestMat& dst) const;
+
+  Index rows() const { return m_src.rows(); }
+  Index cols() const { return m_src.cols(); }
+protected:
+  const T_SrcMat & m_src;
+  T_FftIfc & m_ifc;
+  Index m_nfft;
+private:
+  fft_inv_proxy& operator=(const fft_inv_proxy&);
+};
+
+
+template <typename T_Scalar,
+         typename T_Impl=default_fft_impl<T_Scalar> >
+class FFT
+{
+  public:
+    typedef T_Impl impl_type;
+    typedef DenseIndex Index;
+    typedef typename impl_type::Scalar Scalar;
+    typedef typename impl_type::Complex Complex;
+
+    enum Flag {
+      Default=0, // goof proof
+      Unscaled=1,
+      HalfSpectrum=2,
+      // SomeOtherSpeedOptimization=4
+      Speedy=32767
+    };
+
+    FFT( const impl_type & impl=impl_type() , Flag flags=Default ) :m_impl(impl),m_flag(flags) { }
+
+    inline
+    bool HasFlag(Flag f) const { return (m_flag & (int)f) == f;}
+
+    inline
+    void SetFlag(Flag f) { m_flag |= (int)f;}
+
+    inline
+    void ClearFlag(Flag f) { m_flag &= (~(int)f);}
+
+    inline
+    void fwd( Complex * dst, const Scalar * src, Index nfft)
+    {
+        m_impl.fwd(dst,src,static_cast<int>(nfft));
+        if ( HasFlag(HalfSpectrum) == false)
+          ReflectSpectrum(dst,nfft);
+    }
+
+    inline
+    void fwd( Complex * dst, const Complex * src, Index nfft)
+    {
+        m_impl.fwd(dst,src,static_cast<int>(nfft));
+    }
+
+    /*
+    inline 
+    void fwd2(Complex * dst, const Complex * src, int n0,int n1)
+    {
+      m_impl.fwd2(dst,src,n0,n1);
+    }
+    */
+
+    template <typename _Input>
+    inline
+    void fwd( std::vector<Complex> & dst, const std::vector<_Input> & src) 
+    {
+      if ( NumTraits<_Input>::IsComplex == 0 && HasFlag(HalfSpectrum) )
+        dst.resize( (src.size()>>1)+1); // half the bins + Nyquist bin
+      else
+        dst.resize(src.size());
+      fwd(&dst[0],&src[0],src.size());
+    }
+
+    template<typename InputDerived, typename ComplexDerived>
+    inline
+    void fwd( MatrixBase<ComplexDerived> & dst, const MatrixBase<InputDerived> & src, Index nfft=-1)
+    {
+      typedef typename ComplexDerived::Scalar dst_type;
+      typedef typename InputDerived::Scalar src_type;
+      EIGEN_STATIC_ASSERT_VECTOR_ONLY(InputDerived)
+      EIGEN_STATIC_ASSERT_VECTOR_ONLY(ComplexDerived)
+      EIGEN_STATIC_ASSERT_SAME_VECTOR_SIZE(ComplexDerived,InputDerived) // size at compile-time
+      EIGEN_STATIC_ASSERT((internal::is_same<dst_type, Complex>::value),
+            YOU_MIXED_DIFFERENT_NUMERIC_TYPES__YOU_NEED_TO_USE_THE_CAST_METHOD_OF_MATRIXBASE_TO_CAST_NUMERIC_TYPES_EXPLICITLY)
+      EIGEN_STATIC_ASSERT(int(InputDerived::Flags)&int(ComplexDerived::Flags)&DirectAccessBit,
+            THIS_METHOD_IS_ONLY_FOR_EXPRESSIONS_WITH_DIRECT_MEMORY_ACCESS_SUCH_AS_MAP_OR_PLAIN_MATRICES)
+
+      if (nfft<1)
+        nfft = src.size();
+
+      if ( NumTraits< src_type >::IsComplex == 0 && HasFlag(HalfSpectrum) )
+        dst.derived().resize( (nfft>>1)+1);
+      else
+        dst.derived().resize(nfft);
+
+      if ( src.innerStride() != 1 || src.size() < nfft ) {
+        Matrix<src_type,1,Dynamic> tmp;
+        if (src.size()<nfft) {
+          tmp.setZero(nfft);
+          tmp.block(0,0,src.size(),1 ) = src;
+        }else{
+          tmp = src;
+        }
+        fwd( &dst[0],&tmp[0],nfft );
+      }else{
+        fwd( &dst[0],&src[0],nfft );
+      }
+    }
+ 
+    template<typename InputDerived>
+    inline
+    fft_fwd_proxy< MatrixBase<InputDerived>, FFT<T_Scalar,T_Impl> >
+    fwd( const MatrixBase<InputDerived> & src, Index nfft=-1)
+    {
+      return fft_fwd_proxy< MatrixBase<InputDerived> ,FFT<T_Scalar,T_Impl> >( src, *this,nfft );
+    }
+
+    template<typename InputDerived>
+    inline
+    fft_inv_proxy< MatrixBase<InputDerived>, FFT<T_Scalar,T_Impl> >
+    inv( const MatrixBase<InputDerived> & src, Index nfft=-1)
+    {
+      return  fft_inv_proxy< MatrixBase<InputDerived> ,FFT<T_Scalar,T_Impl> >( src, *this,nfft );
+    }
+
+    inline
+    void inv( Complex * dst, const Complex * src, Index nfft)
+    {
+      m_impl.inv( dst,src,static_cast<int>(nfft) );
+      if ( HasFlag( Unscaled ) == false)
+        scale(dst,Scalar(1./nfft),nfft); // scale the time series
+    }
+
+    inline
+    void inv( Scalar * dst, const Complex * src, Index nfft)
+    {
+      m_impl.inv( dst,src,static_cast<int>(nfft) );
+      if ( HasFlag( Unscaled ) == false)
+        scale(dst,Scalar(1./nfft),nfft); // scale the time series
+    }
+
+    template<typename OutputDerived, typename ComplexDerived>
+    inline
+    void inv( MatrixBase<OutputDerived> & dst, const MatrixBase<ComplexDerived> & src, Index nfft=-1)
+    {
+      typedef typename ComplexDerived::Scalar src_type;
+      typedef typename OutputDerived::Scalar dst_type;
+      const bool realfft= (NumTraits<dst_type>::IsComplex == 0);
+      EIGEN_STATIC_ASSERT_VECTOR_ONLY(OutputDerived)
+      EIGEN_STATIC_ASSERT_VECTOR_ONLY(ComplexDerived)
+      EIGEN_STATIC_ASSERT_SAME_VECTOR_SIZE(ComplexDerived,OutputDerived) // size at compile-time
+      EIGEN_STATIC_ASSERT((internal::is_same<src_type, Complex>::value),
+            YOU_MIXED_DIFFERENT_NUMERIC_TYPES__YOU_NEED_TO_USE_THE_CAST_METHOD_OF_MATRIXBASE_TO_CAST_NUMERIC_TYPES_EXPLICITLY)
+      EIGEN_STATIC_ASSERT(int(OutputDerived::Flags)&int(ComplexDerived::Flags)&DirectAccessBit,
+            THIS_METHOD_IS_ONLY_FOR_EXPRESSIONS_WITH_DIRECT_MEMORY_ACCESS_SUCH_AS_MAP_OR_PLAIN_MATRICES)
+
+      if (nfft<1) { //automatic FFT size determination
+        if ( realfft && HasFlag(HalfSpectrum) ) 
+          nfft = 2*(src.size()-1); //assume even fft size
+        else
+          nfft = src.size();
+      }
+      dst.derived().resize( nfft );
+
+      // check for nfft that does not fit the input data size
+      Index resize_input= ( realfft && HasFlag(HalfSpectrum) )
+        ? ( (nfft/2+1) - src.size() )
+        : ( nfft - src.size() );
+
+      if ( src.innerStride() != 1 || resize_input ) {
+        // if the vector is strided, then we need to copy it to a packed temporary
+        Matrix<src_type,1,Dynamic> tmp;
+        if ( resize_input ) {
+          size_t ncopy = (std::min)(src.size(),src.size() + resize_input);
+          tmp.setZero(src.size() + resize_input);
+          if ( realfft && HasFlag(HalfSpectrum) ) {
+            // pad at the Nyquist bin
+            tmp.head(ncopy) = src.head(ncopy);
+            tmp(ncopy-1) = real(tmp(ncopy-1)); // enforce real-only Nyquist bin
+          }else{
+            size_t nhead,ntail;
+            nhead = 1+ncopy/2-1; // range  [0:pi)
+            ntail = ncopy/2-1;   // range (-pi:0)
+            tmp.head(nhead) = src.head(nhead);
+            tmp.tail(ntail) = src.tail(ntail);
+            if (resize_input<0) { //shrinking -- create the Nyquist bin as the average of the two bins that fold into it
+              tmp(nhead) = ( src(nfft/2) + src( src.size() - nfft/2 ) )*src_type(.5);
+            }else{ // expanding -- split the old Nyquist bin into two halves
+              tmp(nhead) = src(nhead) * src_type(.5);
+              tmp(tmp.size()-nhead) = tmp(nhead);
+            }
+          }
+        }else{
+          tmp = src;
+        }
+        inv( &dst[0],&tmp[0], nfft);
+      }else{
+        inv( &dst[0],&src[0], nfft);
+      }
+    }
+
+    template <typename _Output>
+    inline
+    void inv( std::vector<_Output> & dst, const std::vector<Complex> & src,Index nfft=-1)
+    {
+      if (nfft<1)
+        nfft = ( NumTraits<_Output>::IsComplex == 0 && HasFlag(HalfSpectrum) ) ? 2*(src.size()-1) : src.size();
+      dst.resize( nfft );
+      inv( &dst[0],&src[0],nfft);
+    }
+
+
+    /*
+    // TODO: multi-dimensional FFTs
+    inline 
+    void inv2(Complex * dst, const Complex * src, int n0,int n1)
+    {
+      m_impl.inv2(dst,src,n0,n1);
+      if ( HasFlag( Unscaled ) == false)
+          scale(dst,1./(n0*n1),n0*n1);
+    }
+  */
+
+    inline
+    impl_type & impl() {return m_impl;}
+  private:
+
+    template <typename T_Data>
+    inline
+    void scale(T_Data * x,Scalar s,Index nx)
+    {
+#if 1
+      for (int k=0;k<nx;++k)
+        *x++ *= s;
+#else
+      if ( ((ptrdiff_t)x) & 15 )
+        Matrix<T_Data, Dynamic, 1>::Map(x,nx) *= s;
+      else
+        Matrix<T_Data, Dynamic, 1>::MapAligned(x,nx) *= s;
+         //Matrix<T_Data, Dynamic, Dynamic>::Map(x,nx) * s;
+#endif  
+    }
+
+    inline
+    void ReflectSpectrum(Complex * freq, Index nfft)
+    {
+      // create the implicit right-half spectrum (conjugate-mirror of the left-half)
+      Index nhbins=(nfft>>1)+1;
+      for (Index k=nhbins;k < nfft; ++k )
+        freq[k] = conj(freq[nfft-k]);
+    }
+
+    impl_type m_impl;
+    int m_flag;
+};
+
+template<typename T_SrcMat,typename T_FftIfc> 
+template<typename T_DestMat> inline 
+void fft_fwd_proxy<T_SrcMat,T_FftIfc>::evalTo(T_DestMat& dst) const
+{
+    m_ifc.fwd( dst, m_src, m_nfft);
+}
+
+template<typename T_SrcMat,typename T_FftIfc> 
+template<typename T_DestMat> inline 
+void fft_inv_proxy<T_SrcMat,T_FftIfc>::evalTo(T_DestMat& dst) const
+{
+    m_ifc.inv( dst, m_src, m_nfft);
+}
+
+}
+#endif
+/* vim: set filetype=cpp et sw=2 ts=2 ai: */

extern/Eigen3/unsupported/Eigen/IterativeSolvers

@@ -0,0 +1,45 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2008-2009 Gael Guennebaud <g.gael@free.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_ITERATIVE_SOLVERS_MODULE_H
+#define EIGEN_ITERATIVE_SOLVERS_MODULE_H
+
+#include <Eigen/Sparse>
+
+/**
+  * \defgroup IterativeSolvers_Module Iterative solvers module
+  * This module aims to provide various iterative linear and non linear solver algorithms.
+  * It currently provides:
+  *  - a constrained conjugate gradient
+  *  - a Householder GMRES implementation
+  * \code
+  * #include <unsupported/Eigen/IterativeSolvers>
+  * \endcode
+  */
+//@{
+
+#include "../../Eigen/src/misc/Solve.h"
+#include "../../Eigen/src/misc/SparseSolve.h"
+
+#ifndef EIGEN_MPL2_ONLY
+#include "src/IterativeSolvers/IterationController.h"
+#include "src/IterativeSolvers/ConstrainedConjGrad.h"
+#endif
+
+#include "src/IterativeSolvers/IncompleteLU.h"
+#include "../../Eigen/Jacobi"
+#include "../../Eigen/Householder"
+#include "src/IterativeSolvers/GMRES.h"
+#include "src/IterativeSolvers/IncompleteCholesky.h"
+//#include "src/IterativeSolvers/SSORPreconditioner.h"
+#include "src/IterativeSolvers/MINRES.h"
+
+//@}
+
+#endif // EIGEN_ITERATIVE_SOLVERS_MODULE_H

extern/Eigen3/unsupported/Eigen/KroneckerProduct

@@ -0,0 +1,34 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_KRONECKER_PRODUCT_MODULE_H
+#define EIGEN_KRONECKER_PRODUCT_MODULE_H
+
+#include "../../Eigen/Core"
+
+#include "../../Eigen/src/Core/util/DisableStupidWarnings.h"
+
+namespace Eigen {
+
+/**
+  * \defgroup KroneckerProduct_Module KroneckerProduct module
+  *
+  * This module contains an experimental Kronecker product implementation.
+  *
+  * \code
+  * #include <Eigen/KroneckerProduct>
+  * \endcode
+  */
+
+} // namespace Eigen
+
+#include "src/KroneckerProduct/KroneckerTensorProduct.h"
+
+#include "../../Eigen/src/Core/util/ReenableStupidWarnings.h"
+
+#endif // EIGEN_KRONECKER_PRODUCT_MODULE_H

extern/Eigen3/unsupported/Eigen/LevenbergMarquardt

@@ -0,0 +1,45 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Thomas Capricelli <orzel@freehackers.org>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_LEVENBERGMARQUARDT_MODULE
+#define EIGEN_LEVENBERGMARQUARDT_MODULE
+
+// #include <vector>
+
+#include <Eigen/Core>
+#include <Eigen/Jacobi>
+#include <Eigen/QR>
+#include <unsupported/Eigen/NumericalDiff> 
+
+#include <Eigen/SparseQR>
+
+/**
+  * \defgroup LevenbergMarquardt_Module Levenberg-Marquardt module
+  *
+  * \code
+  * #include </Eigen/LevenbergMarquardt>
+  * \endcode
+  *
+  * 
+  */
+
+#include "Eigen/SparseCore"
+#ifndef EIGEN_PARSED_BY_DOXYGEN
+
+#include "src/LevenbergMarquardt/LMqrsolv.h"
+#include "src/LevenbergMarquardt/LMcovar.h"
+#include "src/LevenbergMarquardt/LMpar.h"
+
+#endif
+
+#include "src/LevenbergMarquardt/LevenbergMarquardt.h"
+#include "src/LevenbergMarquardt/LMonestep.h"
+
+
+#endif // EIGEN_LEVENBERGMARQUARDT_MODULE

extern/Eigen3/unsupported/Eigen/MPRealSupport

@@ -0,0 +1,203 @@
+// This file is part of a joint effort between Eigen, a lightweight C++ template library
+// for linear algebra, and MPFR C++, a C++ interface to MPFR library (http://www.holoborodko.com/pavel/)
+//
+// Copyright (C) 2010-2012 Pavel Holoborodko <pavel@holoborodko.com>
+// Copyright (C) 2010 Konstantin Holoborodko <konstantin@holoborodko.com>
+// Copyright (C) 2010 Gael Guennebaud <gael.guennebaud@inria.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_MPREALSUPPORT_MODULE_H
+#define EIGEN_MPREALSUPPORT_MODULE_H
+
+#include <Eigen/Core>
+#include <mpreal.h>
+
+namespace Eigen {
+  
+/**
+  * \defgroup MPRealSupport_Module MPFRC++ Support module
+  * \code
+  * #include <Eigen/MPRealSupport>
+  * \endcode
+  *
+  * This module provides support for multi precision floating point numbers
+  * via the <a href="http://www.holoborodko.com/pavel/mpfr">MPFR C++</a>
+  * library which itself is built upon <a href="http://www.mpfr.org/">MPFR</a>/<a href="http://gmplib.org/">GMP</a>.
+  *
+  * You can find a copy of MPFR C++ that is known to be compatible in the unsupported/test/mpreal folder.
+  *
+  * Here is an example:
+  *
+\code
+#include <iostream>
+#include <Eigen/MPRealSupport>
+#include <Eigen/LU>
+using namespace mpfr;
+using namespace Eigen;
+int main()
+{
+  // set precision to 256 bits (double has only 53 bits)
+  mpreal::set_default_prec(256);
+  // Declare matrix and vector types with multi-precision scalar type
+  typedef Matrix<mpreal,Dynamic,Dynamic>  MatrixXmp;
+  typedef Matrix<mpreal,Dynamic,1>        VectorXmp;
+
+  MatrixXmp A = MatrixXmp::Random(100,100);
+  VectorXmp b = VectorXmp::Random(100);
+
+  // Solve Ax=b using LU
+  VectorXmp x = A.lu().solve(b);
+  std::cout << "relative error: " << (A*x - b).norm() / b.norm() << std::endl;
+  return 0;
+}
+\endcode
+  *
+  */
+	
+  template<> struct NumTraits<mpfr::mpreal>
+    : GenericNumTraits<mpfr::mpreal>
+  {
+    enum {
+      IsInteger = 0,
+      IsSigned = 1,
+      IsComplex = 0,
+      RequireInitialization = 1,
+      ReadCost = 10,
+      AddCost = 10,
+      MulCost = 40
+    };
+
+    typedef mpfr::mpreal Real;
+    typedef mpfr::mpreal NonInteger;
+    
+    inline static Real highest   (long Precision = mpfr::mpreal::get_default_prec())  { return  mpfr::maxval(Precision); }
+    inline static Real lowest    (long Precision = mpfr::mpreal::get_default_prec())  { return -mpfr::maxval(Precision); }
+
+    // Constants
+    inline static Real Pi       (long Precision = mpfr::mpreal::get_default_prec())     {    return mpfr::const_pi(Precision);        }
+    inline static Real Euler    (long Precision = mpfr::mpreal::get_default_prec())     {    return mpfr::const_euler(Precision);     }
+    inline static Real Log2     (long Precision = mpfr::mpreal::get_default_prec())     {    return mpfr::const_log2(Precision);      }
+    inline static Real Catalan  (long Precision = mpfr::mpreal::get_default_prec())     {    return mpfr::const_catalan(Precision);   }
+
+    inline static Real epsilon  (long Precision = mpfr::mpreal::get_default_prec())     {    return mpfr::machine_epsilon(Precision); }
+    inline static Real epsilon  (const Real& x)                                         {    return mpfr::machine_epsilon(x); }
+
+    inline static Real dummy_precision()   
+    { 
+        unsigned int weak_prec = ((mpfr::mpreal::get_default_prec()-1) * 90) / 100;
+        return mpfr::machine_epsilon(weak_prec);
+    }
+  };
+
+  namespace internal {
+
+  template<> inline mpfr::mpreal random<mpfr::mpreal>()
+  {
+    return mpfr::random();
+  }
+
+  template<> inline mpfr::mpreal random<mpfr::mpreal>(const mpfr::mpreal& a, const mpfr::mpreal& b)
+  {
+    return a + (b-a) * random<mpfr::mpreal>();
+  }
+
+  inline bool isMuchSmallerThan(const mpfr::mpreal& a, const mpfr::mpreal& b, const mpfr::mpreal& eps)
+  {
+    return mpfr::abs(a) <= mpfr::abs(b) * eps;
+  }
+
+  inline bool isApprox(const mpfr::mpreal& a, const mpfr::mpreal& b, const mpfr::mpreal& eps)
+  {
+    return mpfr::isEqualFuzzy(a,b,eps);
+  }
+
+  inline bool isApproxOrLessThan(const mpfr::mpreal& a, const mpfr::mpreal& b, const mpfr::mpreal& eps)
+  {
+    return a <= b || mpfr::isEqualFuzzy(a,b,eps);
+  }
+
+  template<> inline long double cast<mpfr::mpreal,long double>(const mpfr::mpreal& x)
+  { return x.toLDouble(); }
+
+  template<> inline double cast<mpfr::mpreal,double>(const mpfr::mpreal& x)
+  { return x.toDouble(); }
+
+  template<> inline long cast<mpfr::mpreal,long>(const mpfr::mpreal& x)
+  { return x.toLong(); }
+
+  template<> inline int cast<mpfr::mpreal,int>(const mpfr::mpreal& x)
+  { return int(x.toLong()); }
+
+  // Specialize GEBP kernel and traits for mpreal (no need for peeling, nor complicated stuff)
+  // This also permits to directly call mpfr's routines and avoid many temporaries produced by mpreal
+    template<>
+    class gebp_traits<mpfr::mpreal, mpfr::mpreal, false, false>
+    {
+    public:
+      typedef mpfr::mpreal ResScalar;
+      enum {
+        nr = 2, // must be 2 for proper packing...
+        mr = 1,
+        WorkSpaceFactor = nr,
+        LhsProgress = 1,
+        RhsProgress = 1
+      };
+    };
+
+    template<typename Index, int mr, int nr, bool ConjugateLhs, bool ConjugateRhs>
+    struct gebp_kernel<mpfr::mpreal,mpfr::mpreal,Index,mr,nr,ConjugateLhs,ConjugateRhs>
+    {
+      typedef mpfr::mpreal mpreal;
+
+      EIGEN_DONT_INLINE
+      void operator()(mpreal* res, Index resStride, const mpreal* blockA, const mpreal* blockB, Index rows, Index depth, Index cols, mpreal alpha,
+                      Index strideA=-1, Index strideB=-1, Index offsetA=0, Index offsetB=0, mpreal* /*unpackedB*/ = 0)
+      {
+        mpreal acc1, acc2, tmp;
+        
+        if(strideA==-1) strideA = depth;
+        if(strideB==-1) strideB = depth;
+
+        for(Index j=0; j<cols; j+=nr)
+        {
+          Index actual_nr = (std::min<Index>)(nr,cols-j);
+          mpreal *C1 = res + j*resStride;
+          mpreal *C2 = res + (j+1)*resStride;
+          for(Index i=0; i<rows; i++)
+          {
+            mpreal *B = const_cast<mpreal*>(blockB) + j*strideB + offsetB*actual_nr;
+            mpreal *A = const_cast<mpreal*>(blockA) + i*strideA + offsetA;
+            acc1 = 0;
+            acc2 = 0;
+            for(Index k=0; k<depth; k++)
+            {
+              mpfr_mul(tmp.mpfr_ptr(), A[k].mpfr_ptr(), B[0].mpfr_ptr(), mpreal::get_default_rnd());
+              mpfr_add(acc1.mpfr_ptr(), acc1.mpfr_ptr(), tmp.mpfr_ptr(),  mpreal::get_default_rnd());
+              
+              if(actual_nr==2) {
+                mpfr_mul(tmp.mpfr_ptr(), A[k].mpfr_ptr(), B[1].mpfr_ptr(), mpreal::get_default_rnd());
+                mpfr_add(acc2.mpfr_ptr(), acc2.mpfr_ptr(), tmp.mpfr_ptr(),  mpreal::get_default_rnd());
+              }
+              
+              B+=actual_nr;
+            }
+            
+            mpfr_mul(acc1.mpfr_ptr(), acc1.mpfr_ptr(), alpha.mpfr_ptr(), mpreal::get_default_rnd());
+            mpfr_add(C1[i].mpfr_ptr(), C1[i].mpfr_ptr(), acc1.mpfr_ptr(),  mpreal::get_default_rnd());
+            
+            if(actual_nr==2) {
+              mpfr_mul(acc2.mpfr_ptr(), acc2.mpfr_ptr(), alpha.mpfr_ptr(), mpreal::get_default_rnd());
+              mpfr_add(C2[i].mpfr_ptr(), C2[i].mpfr_ptr(), acc2.mpfr_ptr(),  mpreal::get_default_rnd());
+            }
+          }
+        }
+      }
+    };
+
+  } // end namespace internal
+}
+
+#endif // EIGEN_MPREALSUPPORT_MODULE_H

extern/Eigen3/unsupported/Eigen/MatrixFunctions

@@ -0,0 +1,447 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Jitse Niesen <jitse@maths.leeds.ac.uk>
+// Copyright (C) 2012 Chen-Pang He <jdh8@ms63.hinet.net>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_MATRIX_FUNCTIONS
+#define EIGEN_MATRIX_FUNCTIONS
+
+#include <cfloat>
+#include <list>
+#include <functional>
+#include <iterator>
+
+#include <Eigen/Core>
+#include <Eigen/LU>
+#include <Eigen/Eigenvalues>
+
+/**
+  * \defgroup MatrixFunctions_Module Matrix functions module
+  * \brief This module aims to provide various methods for the computation of
+  * matrix functions. 
+  *
+  * To use this module, add 
+  * \code
+  * #include <unsupported/Eigen/MatrixFunctions>
+  * \endcode
+  * at the start of your source file.
+  *
+  * This module defines the following MatrixBase methods.
+  *  - \ref matrixbase_cos "MatrixBase::cos()", for computing the matrix cosine
+  *  - \ref matrixbase_cosh "MatrixBase::cosh()", for computing the matrix hyperbolic cosine
+  *  - \ref matrixbase_exp "MatrixBase::exp()", for computing the matrix exponential
+  *  - \ref matrixbase_log "MatrixBase::log()", for computing the matrix logarithm
+  *  - \ref matrixbase_pow "MatrixBase::pow()", for computing the matrix power
+  *  - \ref matrixbase_matrixfunction "MatrixBase::matrixFunction()", for computing general matrix functions
+  *  - \ref matrixbase_sin "MatrixBase::sin()", for computing the matrix sine
+  *  - \ref matrixbase_sinh "MatrixBase::sinh()", for computing the matrix hyperbolic sine
+  *  - \ref matrixbase_sqrt "MatrixBase::sqrt()", for computing the matrix square root
+  *
+  * These methods are the main entry points to this module. 
+  *
+  * %Matrix functions are defined as follows.  Suppose that \f$ f \f$
+  * is an entire function (that is, a function on the complex plane
+  * that is everywhere complex differentiable).  Then its Taylor
+  * series
+  * \f[ f(0) + f'(0) x + \frac{f''(0)}{2} x^2 + \frac{f'''(0)}{3!} x^3 + \cdots \f]
+  * converges to \f$ f(x) \f$. In this case, we can define the matrix
+  * function by the same series:
+  * \f[ f(M) = f(0) + f'(0) M + \frac{f''(0)}{2} M^2 + \frac{f'''(0)}{3!} M^3 + \cdots \f]
+  *
+  */
+
+#include "src/MatrixFunctions/MatrixExponential.h"
+#include "src/MatrixFunctions/MatrixFunction.h"
+#include "src/MatrixFunctions/MatrixSquareRoot.h"
+#include "src/MatrixFunctions/MatrixLogarithm.h"
+#include "src/MatrixFunctions/MatrixPower.h"
+
+
+/** 
+\page matrixbaseextra_page
+\ingroup MatrixFunctions_Module
+
+\section matrixbaseextra MatrixBase methods defined in the MatrixFunctions module
+
+The remainder of the page documents the following MatrixBase methods
+which are defined in the MatrixFunctions module.
+
+
+
+\subsection matrixbase_cos MatrixBase::cos()
+
+Compute the matrix cosine.
+
+\code
+const MatrixFunctionReturnValue<Derived> MatrixBase<Derived>::cos() const
+\endcode
+
+\param[in]  M  a square matrix.
+\returns  expression representing \f$ \cos(M) \f$.
+
+This function calls \ref matrixbase_matrixfunction "matrixFunction()" with StdStemFunctions::cos().
+
+\sa \ref matrixbase_sin "sin()" for an example.
+
+
+
+\subsection matrixbase_cosh MatrixBase::cosh()
+
+Compute the matrix hyberbolic cosine.
+
+\code
+const MatrixFunctionReturnValue<Derived> MatrixBase<Derived>::cosh() const
+\endcode
+
+\param[in]  M  a square matrix.
+\returns  expression representing \f$ \cosh(M) \f$
+
+This function calls \ref matrixbase_matrixfunction "matrixFunction()" with StdStemFunctions::cosh().
+
+\sa \ref matrixbase_sinh "sinh()" for an example.
+
+
+
+\subsection matrixbase_exp MatrixBase::exp()
+
+Compute the matrix exponential.
+
+\code
+const MatrixExponentialReturnValue<Derived> MatrixBase<Derived>::exp() const
+\endcode
+
+\param[in]  M  matrix whose exponential is to be computed.
+\returns    expression representing the matrix exponential of \p M.
+
+The matrix exponential of \f$ M \f$ is defined by
+\f[ \exp(M) = \sum_{k=0}^\infty \frac{M^k}{k!}. \f]
+The matrix exponential can be used to solve linear ordinary
+differential equations: the solution of \f$ y' = My \f$ with the
+initial condition \f$ y(0) = y_0 \f$ is given by
+\f$ y(t) = \exp(M) y_0 \f$.
+
+The cost of the computation is approximately \f$ 20 n^3 \f$ for
+matrices of size \f$ n \f$. The number 20 depends weakly on the
+norm of the matrix.
+
+The matrix exponential is computed using the scaling-and-squaring
+method combined with Pad&eacute; approximation. The matrix is first
+rescaled, then the exponential of the reduced matrix is computed
+approximant, and then the rescaling is undone by repeated
+squaring. The degree of the Pad&eacute; approximant is chosen such
+that the approximation error is less than the round-off
+error. However, errors may accumulate during the squaring phase.
+
+Details of the algorithm can be found in: Nicholas J. Higham, "The
+scaling and squaring method for the matrix exponential revisited,"
+<em>SIAM J. %Matrix Anal. Applic.</em>, <b>26</b>:1179&ndash;1193,
+2005.
+
+Example: The following program checks that
+\f[ \exp \left[ \begin{array}{ccc}
+      0 & \frac14\pi & 0 \\
+      -\frac14\pi & 0 & 0 \\
+      0 & 0 & 0
+    \end{array} \right] = \left[ \begin{array}{ccc}
+      \frac12\sqrt2 & -\frac12\sqrt2 & 0 \\
+      \frac12\sqrt2 & \frac12\sqrt2 & 0 \\
+      0 & 0 & 1
+    \end{array} \right]. \f]
+This corresponds to a rotation of \f$ \frac14\pi \f$ radians around
+the z-axis.
+
+\include MatrixExponential.cpp
+Output: \verbinclude MatrixExponential.out
+
+\note \p M has to be a matrix of \c float, \c double, \c long double
+\c complex<float>, \c complex<double>, or \c complex<long double> .
+
+
+\subsection matrixbase_log MatrixBase::log()
+
+Compute the matrix logarithm.
+
+\code
+const MatrixLogarithmReturnValue<Derived> MatrixBase<Derived>::log() const
+\endcode
+
+\param[in]  M  invertible matrix whose logarithm is to be computed.
+\returns    expression representing the matrix logarithm root of \p M.
+
+The matrix logarithm of \f$ M \f$ is a matrix \f$ X \f$ such that 
+\f$ \exp(X) = M \f$ where exp denotes the matrix exponential. As for
+the scalar logarithm, the equation \f$ \exp(X) = M \f$ may have
+multiple solutions; this function returns a matrix whose eigenvalues
+have imaginary part in the interval \f$ (-\pi,\pi] \f$.
+
+In the real case, the matrix \f$ M \f$ should be invertible and
+it should have no eigenvalues which are real and negative (pairs of
+complex conjugate eigenvalues are allowed). In the complex case, it
+only needs to be invertible.
+
+This function computes the matrix logarithm using the Schur-Parlett
+algorithm as implemented by MatrixBase::matrixFunction(). The
+logarithm of an atomic block is computed by MatrixLogarithmAtomic,
+which uses direct computation for 1-by-1 and 2-by-2 blocks and an
+inverse scaling-and-squaring algorithm for bigger blocks, with the
+square roots computed by MatrixBase::sqrt().
+
+Details of the algorithm can be found in Section 11.6.2 of:
+Nicholas J. Higham,
+<em>Functions of Matrices: Theory and Computation</em>,
+SIAM 2008. ISBN 978-0-898716-46-7.
+
+Example: The following program checks that
+\f[ \log \left[ \begin{array}{ccc} 
+      \frac12\sqrt2 & -\frac12\sqrt2 & 0 \\
+      \frac12\sqrt2 & \frac12\sqrt2 & 0 \\
+      0 & 0 & 1
+    \end{array} \right] = \left[ \begin{array}{ccc}
+      0 & \frac14\pi & 0 \\ 
+      -\frac14\pi & 0 & 0 \\
+      0 & 0 & 0 
+    \end{array} \right]. \f]
+This corresponds to a rotation of \f$ \frac14\pi \f$ radians around
+the z-axis. This is the inverse of the example used in the
+documentation of \ref matrixbase_exp "exp()".
+
+\include MatrixLogarithm.cpp
+Output: \verbinclude MatrixLogarithm.out
+
+\note \p M has to be a matrix of \c float, \c double, <tt>long
+double</tt>, \c complex<float>, \c complex<double>, or \c complex<long
+double> .
+
+\sa MatrixBase::exp(), MatrixBase::matrixFunction(), 
+    class MatrixLogarithmAtomic, MatrixBase::sqrt().
+
+
+\subsection matrixbase_pow MatrixBase::pow()
+
+Compute the matrix raised to arbitrary real power.
+
+\code
+const MatrixPowerReturnValue<Derived> MatrixBase<Derived>::pow(RealScalar p) const
+\endcode
+
+\param[in]  M  base of the matrix power, should be a square matrix.
+\param[in]  p  exponent of the matrix power, should be real.
+
+The matrix power \f$ M^p \f$ is defined as \f$ \exp(p \log(M)) \f$,
+where exp denotes the matrix exponential, and log denotes the matrix
+logarithm.
+
+The matrix \f$ M \f$ should meet the conditions to be an argument of
+matrix logarithm. If \p p is not of the real scalar type of \p M, it
+is casted into the real scalar type of \p M.
+
+This function computes the matrix power using the Schur-Pad&eacute;
+algorithm as implemented by class MatrixPower. The exponent is split
+into integral part and fractional part, where the fractional part is
+in the interval \f$ (-1, 1) \f$. The main diagonal and the first
+super-diagonal is directly computed.
+
+Details of the algorithm can be found in: Nicholas J. Higham and
+Lijing Lin, "A Schur-Pad&eacute; algorithm for fractional powers of a
+matrix," <em>SIAM J. %Matrix Anal. Applic.</em>,
+<b>32(3)</b>:1056&ndash;1078, 2011.
+
+Example: The following program checks that
+\f[ \left[ \begin{array}{ccc}
+      \cos1 & -\sin1 & 0 \\
+      \sin1 & \cos1 & 0 \\
+      0 & 0 & 1
+    \end{array} \right]^{\frac14\pi} = \left[ \begin{array}{ccc}
+      \frac12\sqrt2 & -\frac12\sqrt2 & 0 \\
+      \frac12\sqrt2 & \frac12\sqrt2 & 0 \\
+      0 & 0 & 1
+    \end{array} \right]. \f]
+This corresponds to \f$ \frac14\pi \f$ rotations of 1 radian around
+the z-axis.
+
+\include MatrixPower.cpp
+Output: \verbinclude MatrixPower.out
+
+MatrixBase::pow() is user-friendly. However, there are some
+circumstances under which you should use class MatrixPower directly.
+MatrixPower can save the result of Schur decomposition, so it's
+better for computing various powers for the same matrix.
+
+Example:
+\include MatrixPower_optimal.cpp
+Output: \verbinclude MatrixPower_optimal.out
+
+\note \p M has to be a matrix of \c float, \c double, <tt>long
+double</tt>, \c complex<float>, \c complex<double>, or \c complex<long
+double> .
+
+\sa MatrixBase::exp(), MatrixBase::log(), class MatrixPower.
+
+
+\subsection matrixbase_matrixfunction MatrixBase::matrixFunction()
+
+Compute a matrix function.
+
+\code
+const MatrixFunctionReturnValue<Derived> MatrixBase<Derived>::matrixFunction(typename internal::stem_function<typename internal::traits<Derived>::Scalar>::type f) const
+\endcode
+
+\param[in]  M  argument of matrix function, should be a square matrix.
+\param[in]  f  an entire function; \c f(x,n) should compute the n-th
+derivative of f at x.
+\returns  expression representing \p f applied to \p M.
+
+Suppose that \p M is a matrix whose entries have type \c Scalar. 
+Then, the second argument, \p f, should be a function with prototype
+\code 
+ComplexScalar f(ComplexScalar, int) 
+\endcode
+where \c ComplexScalar = \c std::complex<Scalar> if \c Scalar is
+real (e.g., \c float or \c double) and \c ComplexScalar =
+\c Scalar if \c Scalar is complex. The return value of \c f(x,n)
+should be \f$ f^{(n)}(x) \f$, the n-th derivative of f at x.
+
+This routine uses the algorithm described in:
+Philip Davies and Nicholas J. Higham, 
+"A Schur-Parlett algorithm for computing matrix functions", 
+<em>SIAM J. %Matrix Anal. Applic.</em>, <b>25</b>:464&ndash;485, 2003.
+
+The actual work is done by the MatrixFunction class.
+
+Example: The following program checks that
+\f[ \exp \left[ \begin{array}{ccc} 
+      0 & \frac14\pi & 0 \\ 
+      -\frac14\pi & 0 & 0 \\
+      0 & 0 & 0 
+    \end{array} \right] = \left[ \begin{array}{ccc}
+      \frac12\sqrt2 & -\frac12\sqrt2 & 0 \\
+      \frac12\sqrt2 & \frac12\sqrt2 & 0 \\
+      0 & 0 & 1
+    \end{array} \right]. \f]
+This corresponds to a rotation of \f$ \frac14\pi \f$ radians around
+the z-axis. This is the same example as used in the documentation
+of \ref matrixbase_exp "exp()".
+
+\include MatrixFunction.cpp
+Output: \verbinclude MatrixFunction.out
+
+Note that the function \c expfn is defined for complex numbers 
+\c x, even though the matrix \c A is over the reals. Instead of
+\c expfn, we could also have used StdStemFunctions::exp:
+\code
+A.matrixFunction(StdStemFunctions<std::complex<double> >::exp, &B);
+\endcode
+
+
+
+\subsection matrixbase_sin MatrixBase::sin()
+
+Compute the matrix sine.
+
+\code
+const MatrixFunctionReturnValue<Derived> MatrixBase<Derived>::sin() const
+\endcode
+
+\param[in]  M  a square matrix.
+\returns  expression representing \f$ \sin(M) \f$.
+
+This function calls \ref matrixbase_matrixfunction "matrixFunction()" with StdStemFunctions::sin().
+
+Example: \include MatrixSine.cpp
+Output: \verbinclude MatrixSine.out
+
+
+
+\subsection matrixbase_sinh MatrixBase::sinh()
+
+Compute the matrix hyperbolic sine.
+
+\code
+MatrixFunctionReturnValue<Derived> MatrixBase<Derived>::sinh() const
+\endcode
+
+\param[in]  M  a square matrix.
+\returns  expression representing \f$ \sinh(M) \f$
+
+This function calls \ref matrixbase_matrixfunction "matrixFunction()" with StdStemFunctions::sinh().
+
+Example: \include MatrixSinh.cpp
+Output: \verbinclude MatrixSinh.out
+
+
+\subsection matrixbase_sqrt MatrixBase::sqrt()
+
+Compute the matrix square root.
+
+\code
+const MatrixSquareRootReturnValue<Derived> MatrixBase<Derived>::sqrt() const
+\endcode
+
+\param[in]  M  invertible matrix whose square root is to be computed.
+\returns    expression representing the matrix square root of \p M.
+
+The matrix square root of \f$ M \f$ is the matrix \f$ M^{1/2} \f$
+whose square is the original matrix; so if \f$ S = M^{1/2} \f$ then
+\f$ S^2 = M \f$. 
+
+In the <b>real case</b>, the matrix \f$ M \f$ should be invertible and
+it should have no eigenvalues which are real and negative (pairs of
+complex conjugate eigenvalues are allowed). In that case, the matrix
+has a square root which is also real, and this is the square root
+computed by this function. 
+
+The matrix square root is computed by first reducing the matrix to
+quasi-triangular form with the real Schur decomposition. The square
+root of the quasi-triangular matrix can then be computed directly. The
+cost is approximately \f$ 25 n^3 \f$ real flops for the real Schur
+decomposition and \f$ 3\frac13 n^3 \f$ real flops for the remainder
+(though the computation time in practice is likely more than this
+indicates).
+
+Details of the algorithm can be found in: Nicholas J. Highan,
+"Computing real square roots of a real matrix", <em>Linear Algebra
+Appl.</em>, 88/89:405&ndash;430, 1987.
+
+If the matrix is <b>positive-definite symmetric</b>, then the square
+root is also positive-definite symmetric. In this case, it is best to
+use SelfAdjointEigenSolver::operatorSqrt() to compute it.
+
+In the <b>complex case</b>, the matrix \f$ M \f$ should be invertible;
+this is a restriction of the algorithm. The square root computed by
+this algorithm is the one whose eigenvalues have an argument in the
+interval \f$ (-\frac12\pi, \frac12\pi] \f$. This is the usual branch
+cut.
+
+The computation is the same as in the real case, except that the
+complex Schur decomposition is used to reduce the matrix to a
+triangular matrix. The theoretical cost is the same. Details are in:
+&Aring;ke Bj&ouml;rck and Sven Hammarling, "A Schur method for the
+square root of a matrix", <em>Linear Algebra Appl.</em>,
+52/53:127&ndash;140, 1983.
+
+Example: The following program checks that the square root of
+\f[ \left[ \begin{array}{cc} 
+              \cos(\frac13\pi) & -\sin(\frac13\pi) \\
+              \sin(\frac13\pi) & \cos(\frac13\pi)
+    \end{array} \right], \f]
+corresponding to a rotation over 60 degrees, is a rotation over 30 degrees:
+\f[ \left[ \begin{array}{cc} 
+              \cos(\frac16\pi) & -\sin(\frac16\pi) \\
+              \sin(\frac16\pi) & \cos(\frac16\pi)
+    \end{array} \right]. \f]
+
+\include MatrixSquareRoot.cpp
+Output: \verbinclude MatrixSquareRoot.out
+
+\sa class RealSchur, class ComplexSchur, class MatrixSquareRoot,
+    SelfAdjointEigenSolver::operatorSqrt().
+
+*/
+
+#endif // EIGEN_MATRIX_FUNCTIONS
+

extern/Eigen3/unsupported/Eigen/MoreVectorization

@@ -0,0 +1,24 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_MOREVECTORIZATION_MODULE_H
+#define EIGEN_MOREVECTORIZATION_MODULE_H
+
+#include <Eigen/Core>
+
+namespace Eigen {
+
+/**
+  * \defgroup MoreVectorization More vectorization module
+  */
+
+}
+
+#include "src/MoreVectorization/MathFunctions.h"
+
+#endif // EIGEN_MOREVECTORIZATION_MODULE_H

extern/Eigen3/unsupported/Eigen/NonLinearOptimization

@@ -0,0 +1,134 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Thomas Capricelli <orzel@freehackers.org>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_NONLINEAROPTIMIZATION_MODULE
+#define EIGEN_NONLINEAROPTIMIZATION_MODULE
+
+#include <vector>
+
+#include <Eigen/Core>
+#include <Eigen/Jacobi>
+#include <Eigen/QR>
+#include <unsupported/Eigen/NumericalDiff>
+
+/**
+  * \defgroup NonLinearOptimization_Module Non linear optimization module
+  *
+  * \code
+  * #include <unsupported/Eigen/NonLinearOptimization>
+  * \endcode
+  *
+  * This module provides implementation of two important algorithms in non linear
+  * optimization. In both cases, we consider a system of non linear functions. Of
+  * course, this should work, and even work very well if those functions are
+  * actually linear. But if this is so, you should probably better use other
+  * methods more fitted to this special case.
+  *
+  * One algorithm allows to find an extremum of such a system (Levenberg
+  * Marquardt algorithm) and the second one is used to find 
+  * a zero for the system (Powell hybrid "dogleg" method).
+  *
+  * This code is a port of minpack (http://en.wikipedia.org/wiki/MINPACK).
+  * Minpack is a very famous, old, robust and well-reknown package, written in 
+  * fortran. Those implementations have been carefully tuned, tested, and used
+  * for several decades.
+  *
+  * The original fortran code was automatically translated using f2c (http://en.wikipedia.org/wiki/F2c) in C,
+  * then c++, and then cleaned by several different authors.
+  * The last one of those cleanings being our starting point : 
+  * http://devernay.free.fr/hacks/cminpack.html
+  * 
+  * Finally, we ported this code to Eigen, creating classes and API
+  * coherent with Eigen. When possible, we switched to Eigen
+  * implementation, such as most linear algebra (vectors, matrices, stable norms).
+  *
+  * Doing so, we were very careful to check the tests we setup at the very
+  * beginning, which ensure that the same results are found.
+  *
+  * \section Tests Tests
+  * 
+  * The tests are placed in the file unsupported/test/NonLinear.cpp.
+  * 
+  * There are two kinds of tests : those that come from examples bundled with cminpack.
+  * They guaranty we get the same results as the original algorithms (value for 'x',
+  * for the number of evaluations of the function, and for the number of evaluations
+  * of the jacobian if ever).
+  * 
+  * Other tests were added by myself at the very beginning of the 
+  * process and check the results for levenberg-marquardt using the reference data 
+  * on http://www.itl.nist.gov/div898/strd/nls/nls_main.shtml. Since then i've 
+  * carefully checked that the same results were obtained when modifiying the 
+  * code. Please note that we do not always get the exact same decimals as they do,
+  * but this is ok : they use 128bits float, and we do the tests using the C type 'double',
+  * which is 64 bits on most platforms (x86 and amd64, at least).
+  * I've performed those tests on several other implementations of levenberg-marquardt, and
+  * (c)minpack performs VERY well compared to those, both in accuracy and speed.
+  * 
+  * The documentation for running the tests is on the wiki
+  * http://eigen.tuxfamily.org/index.php?title=Tests
+  * 
+  * \section API API : overview of methods
+  * 
+  * Both algorithms can use either the jacobian (provided by the user) or compute 
+  * an approximation by themselves (actually using Eigen \ref NumericalDiff_Module).
+  * The part of API referring to the latter use 'NumericalDiff' in the method names
+  * (exemple: LevenbergMarquardt.minimizeNumericalDiff() ) 
+  * 
+  * The methods LevenbergMarquardt.lmder1()/lmdif1()/lmstr1() and 
+  * HybridNonLinearSolver.hybrj1()/hybrd1() are specific methods from the original 
+  * minpack package that you probably should NOT use until you are porting a code that
+  *  was previously using minpack. They just define a 'simple' API with default values 
+  * for some parameters.
+  * 
+  * All algorithms are provided using Two APIs :
+  *     - one where the user inits the algorithm, and uses '*OneStep()' as much as he wants : 
+  * this way the caller have control over the steps
+  *     - one where the user just calls a method (optimize() or solve()) which will 
+  * handle the loop: init + loop until a stop condition is met. Those are provided for
+  *  convenience.
+  * 
+  * As an example, the method LevenbergMarquardt::minimize() is 
+  * implemented as follow : 
+  * \code
+  * Status LevenbergMarquardt<FunctorType,Scalar>::minimize(FVectorType  &x, const int mode)
+  * {
+  *     Status status = minimizeInit(x, mode);
+  *     do {
+  *         status = minimizeOneStep(x, mode);
+  *     } while (status==Running);
+  *     return status;
+  * }
+  * \endcode
+  * 
+  * \section examples Examples
+  * 
+  * The easiest way to understand how to use this module is by looking at the many examples in the file
+  * unsupported/test/NonLinearOptimization.cpp.
+  */
+
+#ifndef EIGEN_PARSED_BY_DOXYGEN
+
+#include "src/NonLinearOptimization/qrsolv.h"
+#include "src/NonLinearOptimization/r1updt.h"
+#include "src/NonLinearOptimization/r1mpyq.h"
+#include "src/NonLinearOptimization/rwupdt.h"
+#include "src/NonLinearOptimization/fdjac1.h"
+#include "src/NonLinearOptimization/lmpar.h"
+#include "src/NonLinearOptimization/dogleg.h"
+#include "src/NonLinearOptimization/covar.h"
+
+#include "src/NonLinearOptimization/chkder.h"
+
+#endif
+
+#include "src/NonLinearOptimization/HybridNonLinearSolver.h"
+#include "src/NonLinearOptimization/LevenbergMarquardt.h"
+
+
+#endif // EIGEN_NONLINEAROPTIMIZATION_MODULE

extern/Eigen3/unsupported/Eigen/NumericalDiff

@@ -0,0 +1,56 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Thomas Capricelli <orzel@freehackers.org>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_NUMERICALDIFF_MODULE
+#define EIGEN_NUMERICALDIFF_MODULE
+
+#include <Eigen/Core>
+
+namespace Eigen {
+
+/**
+  * \defgroup NumericalDiff_Module Numerical differentiation module
+  *
+  * \code
+  * #include <unsupported/Eigen/NumericalDiff>
+  * \endcode
+  *
+  * See http://en.wikipedia.org/wiki/Numerical_differentiation
+  *
+  * Warning : this should NOT be confused with automatic differentiation, which
+  * is a different method and has its own module in Eigen : \ref
+  * AutoDiff_Module.
+  *
+  * Currently only "Forward" and "Central" schemes are implemented. Those
+  * are basic methods, and there exist some more elaborated way of
+  * computing such approximates. They are implemented using both
+  * proprietary and free software, and usually requires linking to an
+  * external library. It is very easy for you to write a functor
+  * using such software, and the purpose is quite orthogonal to what we
+  * want to achieve with Eigen.
+  *
+  * This is why we will not provide wrappers for every great numerical
+  * differentiation software that exist, but should rather stick with those
+  * basic ones, that still are useful for testing.
+  *
+  * Also, the \ref NonLinearOptimization_Module needs this in order to
+  * provide full features compatibility with the original (c)minpack
+  * package.
+  *
+  */
+}
+
+//@{
+
+#include "src/NumericalDiff/NumericalDiff.h"
+
+//@}
+
+
+#endif // EIGEN_NUMERICALDIFF_MODULE

extern/Eigen3/unsupported/Eigen/OpenGLSupport

@@ -0,0 +1,322 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2010 Gael Guennebaud <gael.guennebaud@inria.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_OPENGL_MODULE
+#define EIGEN_OPENGL_MODULE
+
+#include <Eigen/Geometry>
+
+#if defined(__APPLE_CC__)
+  #include <OpenGL/gl.h>
+#else
+  #include <GL/gl.h>
+#endif
+
+namespace Eigen {
+
+/**
+  * \defgroup OpenGLSUpport_Module OpenGL Support module
+  *
+  * This module provides wrapper functions for a couple of OpenGL functions
+  * which simplify the way to pass Eigen's object to openGL.
+  * Here is an exmaple:
+  * 
+  * \code
+  * // You need to add path_to_eigen/unsupported to your include path.
+  * #include <Eigen/OpenGLSupport>
+  * // ...
+  * Vector3f x, y;
+  * Matrix3f rot;
+  * 
+  * glVertex(y + x * rot);
+  * 
+  * Quaternion q;
+  * glRotate(q);
+  * 
+  * // ...
+  * \endcode
+  *
+  */
+//@{
+
+#define EIGEN_GL_FUNC_DECLARATION(FUNC)                                                                             \
+namespace internal {                                                                                                \
+  template< typename XprType,                                                                                       \
+            typename Scalar = typename XprType::Scalar,                                                             \
+            int Rows = XprType::RowsAtCompileTime,                                                                  \
+            int Cols = XprType::ColsAtCompileTime,                                                                  \
+            bool IsGLCompatible = bool(XprType::Flags&LinearAccessBit)                                              \
+                              && bool(XprType::Flags&DirectAccessBit)                                               \
+                              && (XprType::IsVectorAtCompileTime || (XprType::Flags&RowMajorBit)==0)>               \
+  struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl);                                                                      \
+                                                                                                                    \
+  template<typename XprType, typename Scalar, int Rows, int Cols>                                                   \
+  struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType,Scalar,Rows,Cols,false> {                                     \
+    inline static void run(const XprType& p) {                                                                      \
+      EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<typename plain_matrix_type_column_major<XprType>::type>::run(p); }       \
+  };                                                                                                                \
+}                                                                                                                   \
+                                                                                                                    \
+template<typename Derived> inline void FUNC(const Eigen::DenseBase<Derived>& p) {                                   \
+  EIGEN_CAT(EIGEN_CAT(internal::gl_,FUNC),_impl)<Derived>::run(p.derived());                                        \
+}
+
+
+#define EIGEN_GL_FUNC_SPECIALIZATION_MAT(FUNC,SCALAR,ROWS,COLS,SUFFIX)                                              \
+namespace internal {                                                                                                \
+  template< typename XprType> struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType, SCALAR, ROWS, COLS, true> {      \
+    inline static void run(const XprType& p) { FUNC##SUFFIX(p.data()); }                                            \
+  };                                                                                                                \
+}
+
+  
+#define EIGEN_GL_FUNC_SPECIALIZATION_VEC(FUNC,SCALAR,SIZE,SUFFIX)                                                   \
+namespace internal {                                                                                                \
+  template< typename XprType> struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType, SCALAR, SIZE, 1, true> {         \
+    inline static void run(const XprType& p) { FUNC##SUFFIX(p.data()); }                                            \
+  };                                                                                                                \
+  template< typename XprType> struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType, SCALAR, 1, SIZE, true> {         \
+    inline static void run(const XprType& p) { FUNC##SUFFIX(p.data()); }                                            \
+  };                                                                                                                \
+}
+
+  
+EIGEN_GL_FUNC_DECLARATION       (glVertex)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,int,    2,2iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,short,  2,2sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,float,  2,2fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,double, 2,2dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,int,    3,3iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,short,  3,3sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,float,  3,3fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,double, 3,3dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,int,    4,4iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,short,  4,4sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,float,  4,4fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glVertex,double, 4,4dv)
+
+EIGEN_GL_FUNC_DECLARATION       (glTexCoord)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,int,    2,2iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,short,  2,2sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,float,  2,2fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,double, 2,2dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,int,    3,3iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,short,  3,3sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,float,  3,3fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,double, 3,3dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,int,    4,4iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,short,  4,4sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,float,  4,4fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTexCoord,double, 4,4dv)
+
+EIGEN_GL_FUNC_DECLARATION       (glColor)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,int,    2,2iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,short,  2,2sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,float,  2,2fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,double, 2,2dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,int,    3,3iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,short,  3,3sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,float,  3,3fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,double, 3,3dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,int,    4,4iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,short,  4,4sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,float,  4,4fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glColor,double, 4,4dv)
+
+EIGEN_GL_FUNC_DECLARATION       (glNormal)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glNormal,int,    3,3iv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glNormal,short,  3,3sv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glNormal,float,  3,3fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glNormal,double, 3,3dv)
+
+inline void glScale2fv(const float*  v) { glScalef(v[0], v[1], 1.f);  }
+inline void glScale2dv(const double* v) { glScaled(v[0], v[1], 1.0);  }
+inline void glScale3fv(const float*  v) { glScalef(v[0], v[1], v[2]); }
+inline void glScale3dv(const double* v) { glScaled(v[0], v[1], v[2]); }
+
+EIGEN_GL_FUNC_DECLARATION       (glScale)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glScale,float,  2,2fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glScale,double, 2,2dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glScale,float,  3,3fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glScale,double, 3,3dv)
+
+template<typename Scalar> void glScale(const UniformScaling<Scalar>& s)  { glScale(Matrix<Scalar,3,1>::Constant(s.factor())); }
+
+inline void glTranslate2fv(const float*  v) { glTranslatef(v[0], v[1], 0.f);  }
+inline void glTranslate2dv(const double* v) { glTranslated(v[0], v[1], 0.0);  }
+inline void glTranslate3fv(const float*  v) { glTranslatef(v[0], v[1], v[2]); }
+inline void glTranslate3dv(const double* v) { glTranslated(v[0], v[1], v[2]); }
+
+EIGEN_GL_FUNC_DECLARATION       (glTranslate)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTranslate,float,  2,2fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTranslate,double, 2,2dv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTranslate,float,  3,3fv)
+EIGEN_GL_FUNC_SPECIALIZATION_VEC(glTranslate,double, 3,3dv)
+
+template<typename Scalar> void glTranslate(const Translation<Scalar,2>& t)  { glTranslate(t.vector()); }
+template<typename Scalar> void glTranslate(const Translation<Scalar,3>& t)  { glTranslate(t.vector()); }
+
+EIGEN_GL_FUNC_DECLARATION       (glMultMatrix)
+EIGEN_GL_FUNC_SPECIALIZATION_MAT(glMultMatrix,float,  4,4,f)
+EIGEN_GL_FUNC_SPECIALIZATION_MAT(glMultMatrix,double, 4,4,d)
+
+template<typename Scalar> void glMultMatrix(const Transform<Scalar,3,Affine>& t)        { glMultMatrix(t.matrix()); }
+template<typename Scalar> void glMultMatrix(const Transform<Scalar,3,Projective>& t)    { glMultMatrix(t.matrix()); }
+template<typename Scalar> void glMultMatrix(const Transform<Scalar,3,AffineCompact>& t) { glMultMatrix(Transform<Scalar,3,Affine>(t).matrix()); }
+
+EIGEN_GL_FUNC_DECLARATION       (glLoadMatrix)
+EIGEN_GL_FUNC_SPECIALIZATION_MAT(glLoadMatrix,float,  4,4,f)
+EIGEN_GL_FUNC_SPECIALIZATION_MAT(glLoadMatrix,double, 4,4,d)
+
+template<typename Scalar> void glLoadMatrix(const Transform<Scalar,3,Affine>& t)        { glLoadMatrix(t.matrix()); }
+template<typename Scalar> void glLoadMatrix(const Transform<Scalar,3,Projective>& t)    { glLoadMatrix(t.matrix()); }
+template<typename Scalar> void glLoadMatrix(const Transform<Scalar,3,AffineCompact>& t) { glLoadMatrix(Transform<Scalar,3,Affine>(t).matrix()); }
+
+inline void glRotate(const Rotation2D<float>& rot)
+{
+  glRotatef(rot.angle()*180.f/float(M_PI), 0.f, 0.f, 1.f);
+}
+inline void glRotate(const Rotation2D<double>& rot)
+{
+  glRotated(rot.angle()*180.0/M_PI, 0.0, 0.0, 1.0);
+}
+
+template<typename Derived> void glRotate(const RotationBase<Derived,3>& rot)
+{  
+  Transform<typename Derived::Scalar,3,Projective> tr(rot);
+  glMultMatrix(tr.matrix());
+}
+
+#define EIGEN_GL_MAKE_CONST_const const
+#define EIGEN_GL_MAKE_CONST__ 
+#define EIGEN_GL_EVAL(X) X
+
+#define EIGEN_GL_FUNC1_DECLARATION(FUNC,ARG1,CONST)                                                                             \
+namespace internal {                                                                                                            \
+  template< typename XprType,                                                                                                   \
+            typename Scalar = typename XprType::Scalar,                                                                         \
+            int Rows = XprType::RowsAtCompileTime,                                                                              \
+            int Cols = XprType::ColsAtCompileTime,                                                                              \
+            bool IsGLCompatible = bool(XprType::Flags&LinearAccessBit)                                                          \
+                              && bool(XprType::Flags&DirectAccessBit)                                                           \
+                              && (XprType::IsVectorAtCompileTime || (XprType::Flags&RowMajorBit)==0)>                           \
+  struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl);                                                                                  \
+                                                                                                                                \
+  template<typename XprType, typename Scalar, int Rows, int Cols>                                                               \
+  struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType,Scalar,Rows,Cols,false> {                                                 \
+    inline static void run(ARG1 a,EIGEN_GL_EVAL(EIGEN_GL_MAKE_CONST_##CONST) XprType& p) {                                      \
+      EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<typename plain_matrix_type_column_major<XprType>::type>::run(a,p); }                 \
+  };                                                                                                                            \
+}                                                                                                                               \
+                                                                                                                                \
+template<typename Derived> inline void FUNC(ARG1 a,EIGEN_GL_EVAL(EIGEN_GL_MAKE_CONST_##CONST) Eigen::DenseBase<Derived>& p) {   \
+  EIGEN_CAT(EIGEN_CAT(internal::gl_,FUNC),_impl)<Derived>::run(a,p.derived());                                                  \
+}
+
+
+#define EIGEN_GL_FUNC1_SPECIALIZATION_MAT(FUNC,ARG1,CONST,SCALAR,ROWS,COLS,SUFFIX)                                              \
+namespace internal {                                                                                                            \
+  template< typename XprType> struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType, SCALAR, ROWS, COLS, true> {                  \
+    inline static void run(ARG1 a, EIGEN_GL_EVAL(EIGEN_GL_MAKE_CONST_##CONST) XprType& p) { FUNC##SUFFIX(a,p.data()); }         \
+  }; \
+}
+
+  
+#define EIGEN_GL_FUNC1_SPECIALIZATION_VEC(FUNC,ARG1,CONST,SCALAR,SIZE,SUFFIX)                                                   \
+namespace internal {                                                                                                            \
+  template< typename XprType> struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType, SCALAR, SIZE, 1, true> {                     \
+    inline static void run(ARG1 a, EIGEN_GL_EVAL(EIGEN_GL_MAKE_CONST_##CONST) XprType& p) { FUNC##SUFFIX(a,p.data()); }         \
+  };                                                                                                                            \
+  template< typename XprType> struct EIGEN_CAT(EIGEN_CAT(gl_,FUNC),_impl)<XprType, SCALAR, 1, SIZE, true> {                     \
+    inline static void run(ARG1 a, EIGEN_GL_EVAL(EIGEN_GL_MAKE_CONST_##CONST) XprType& p) { FUNC##SUFFIX(a,p.data()); }         \
+  };                                                                                                                            \
+}
+
+EIGEN_GL_FUNC1_DECLARATION       (glGet,GLenum,_)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glGet,GLenum,_,float,  4,4,Floatv)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glGet,GLenum,_,double, 4,4,Doublev)
+
+// glUniform API
+
+#ifdef GL_VERSION_2_0
+
+inline void glUniform2fv_ei  (GLint loc, const float* v)         { glUniform2fv(loc,1,v); }
+inline void glUniform2iv_ei  (GLint loc, const int* v)           { glUniform2iv(loc,1,v); }
+
+inline void glUniform3fv_ei  (GLint loc, const float* v)         { glUniform3fv(loc,1,v); }
+inline void glUniform3iv_ei  (GLint loc, const int* v)           { glUniform3iv(loc,1,v); }
+
+inline void glUniform4fv_ei  (GLint loc, const float* v)         { glUniform4fv(loc,1,v); }
+inline void glUniform4iv_ei  (GLint loc, const int* v)           { glUniform4iv(loc,1,v); }
+
+inline void glUniformMatrix2fv_ei  (GLint loc, const float* v)         { glUniformMatrix2fv(loc,1,false,v); }
+inline void glUniformMatrix3fv_ei  (GLint loc, const float* v)         { glUniformMatrix3fv(loc,1,false,v); }
+inline void glUniformMatrix4fv_ei  (GLint loc, const float* v)         { glUniformMatrix4fv(loc,1,false,v); }
+
+
+EIGEN_GL_FUNC1_DECLARATION       (glUniform,GLint,const)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,float,        2,2fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,int,          2,2iv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,float,        3,3fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,int,          3,3iv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,float,        4,4fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,int,          4,4iv_ei)
+
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        2,2,Matrix2fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        3,3,Matrix3fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        4,4,Matrix4fv_ei)
+
+#endif
+
+#ifdef GL_VERSION_2_1
+
+static void glUniformMatrix2x3fv_ei(GLint loc, const float* v)         { glUniformMatrix2x3fv(loc,1,false,v); }
+static void glUniformMatrix3x2fv_ei(GLint loc, const float* v)         { glUniformMatrix3x2fv(loc,1,false,v); }
+static void glUniformMatrix2x4fv_ei(GLint loc, const float* v)         { glUniformMatrix2x4fv(loc,1,false,v); }
+static void glUniformMatrix4x2fv_ei(GLint loc, const float* v)         { glUniformMatrix4x2fv(loc,1,false,v); }
+static void glUniformMatrix3x4fv_ei(GLint loc, const float* v)         { glUniformMatrix3x4fv(loc,1,false,v); }
+static void glUniformMatrix4x3fv_ei(GLint loc, const float* v)         { glUniformMatrix4x3fv(loc,1,false,v); }
+
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        2,3,Matrix2x3fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        3,2,Matrix3x2fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        2,4,Matrix2x4fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        4,2,Matrix4x2fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        3,4,Matrix3x4fv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_MAT(glUniform,GLint,const,float,        4,3,Matrix4x3fv_ei)
+
+#endif
+
+#ifdef GL_VERSION_3_0
+
+inline void glUniform2uiv_ei (GLint loc, const unsigned int* v)  { glUniform2uiv(loc,1,v); }
+inline void glUniform3uiv_ei (GLint loc, const unsigned int* v)  { glUniform3uiv(loc,1,v); }
+inline void glUniform4uiv_ei (GLint loc, const unsigned int* v)  { glUniform4uiv(loc,1,v); }
+
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,unsigned int, 2,2uiv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,unsigned int, 3,3uiv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,unsigned int, 4,4uiv_ei)
+
+#endif
+
+#ifdef GL_ARB_gpu_shader_fp64
+inline void glUniform2dv_ei  (GLint loc, const double* v)        { glUniform2dv(loc,1,v); }
+inline void glUniform3dv_ei  (GLint loc, const double* v)        { glUniform3dv(loc,1,v); }
+inline void glUniform4dv_ei  (GLint loc, const double* v)        { glUniform4dv(loc,1,v); }
+
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,double,       2,2dv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,double,       3,3dv_ei)
+EIGEN_GL_FUNC1_SPECIALIZATION_VEC(glUniform,GLint,const,double,       4,4dv_ei)
+#endif
+
+
+//@}
+
+}
+
+#endif // EIGEN_OPENGL_MODULE

extern/Eigen3/unsupported/Eigen/Polynomials

@@ -0,0 +1,138 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_POLYNOMIALS_MODULE_H
+#define EIGEN_POLYNOMIALS_MODULE_H
+
+#include <Eigen/Core>
+
+#include <Eigen/src/Core/util/DisableStupidWarnings.h>
+
+#include <Eigen/Eigenvalues>
+
+// Note that EIGEN_HIDE_HEAVY_CODE has to be defined per module
+#if (defined EIGEN_EXTERN_INSTANTIATIONS) && (EIGEN_EXTERN_INSTANTIATIONS>=2)
+  #ifndef EIGEN_HIDE_HEAVY_CODE
+  #define EIGEN_HIDE_HEAVY_CODE
+  #endif
+#elif defined EIGEN_HIDE_HEAVY_CODE
+  #undef EIGEN_HIDE_HEAVY_CODE
+#endif
+
+/**
+  * \defgroup Polynomials_Module Polynomials module
+  * \brief This module provides a QR based polynomial solver.
+	*
+  * To use this module, add
+  * \code
+  * #include <unsupported/Eigen/Polynomials>
+  * \endcode
+	* at the start of your source file.
+  */
+
+#include "src/Polynomials/PolynomialUtils.h"
+#include "src/Polynomials/Companion.h"
+#include "src/Polynomials/PolynomialSolver.h"
+
+/**
+	\page polynomials Polynomials defines functions for dealing with polynomials
+	and a QR based polynomial solver.
+	\ingroup Polynomials_Module
+
+	The remainder of the page documents first the functions for evaluating, computing
+	polynomials, computing estimates about polynomials and next the QR based polynomial
+	solver.
+
+	\section polynomialUtils convenient functions to deal with polynomials
+	\subsection roots_to_monicPolynomial
+	The function
+	\code
+	void roots_to_monicPolynomial( const RootVector& rv, Polynomial& poly )
+	\endcode
+	computes the coefficients \f$ a_i \f$ of
+
+	\f$ p(x) = a_0 + a_{1}x + ... + a_{n-1}x^{n-1} + x^n \f$
+
+	where \f$ p \f$ is known through its roots i.e. \f$ p(x) = (x-r_1)(x-r_2)...(x-r_n) \f$.
+
+	\subsection poly_eval
+	The function
+	\code
+	T poly_eval( const Polynomials& poly, const T& x )
+	\endcode
+	evaluates a polynomial at a given point using stabilized H&ouml;rner method.
+
+	The following code: first computes the coefficients in the monomial basis of the monic polynomial that has the provided roots;
+	then, it evaluates the computed polynomial, using a stabilized H&ouml;rner method.
+
+	\include PolynomialUtils1.cpp
+  Output: \verbinclude PolynomialUtils1.out
+
+	\subsection Cauchy bounds
+	The function
+	\code
+	Real cauchy_max_bound( const Polynomial& poly )
+	\endcode
+	provides a maximum bound (the Cauchy one: \f$C(p)\f$) for the absolute value of a root of the given polynomial i.e.
+	\f$ \forall r_i \f$ root of \f$ p(x) = \sum_{k=0}^d a_k x^k \f$,
+	\f$ |r_i| \le C(p) = \sum_{k=0}^{d} \left | \frac{a_k}{a_d} \right | \f$
+	The leading coefficient \f$ p \f$: should be non zero \f$a_d \neq 0\f$.
+
+
+	The function
+	\code
+	Real cauchy_min_bound( const Polynomial& poly )
+	\endcode
+	provides a minimum bound (the Cauchy one: \f$c(p)\f$) for the absolute value of a non zero root of the given polynomial i.e.
+	\f$ \forall r_i \neq 0 \f$ root of \f$ p(x) = \sum_{k=0}^d a_k x^k \f$,
+	\f$ |r_i| \ge c(p) = \left( \sum_{k=0}^{d} \left | \frac{a_k}{a_0} \right | \right)^{-1} \f$
+
+
+
+
+	\section QR polynomial solver class
+	Computes the complex roots of a polynomial by computing the eigenvalues of the associated companion matrix with the QR algorithm.
+	
+	The roots of \f$ p(x) = a_0 + a_1 x + a_2 x^2 + a_{3} x^3 + x^4 \f$ are the eigenvalues of
+	\f$
+	\left [
+	\begin{array}{cccc}
+	0 & 0 &  0 & a_0 \\
+	1 & 0 &  0 & a_1 \\
+	0 & 1 &  0 & a_2 \\
+	0 & 0 &  1 & a_3
+	\end{array} \right ]
+	\f$
+
+	However, the QR algorithm is not guaranteed to converge when there are several eigenvalues with same modulus.
+
+	Therefore the current polynomial solver is guaranteed to provide a correct result only when the complex roots \f$r_1,r_2,...,r_d\f$ have distinct moduli i.e.
+	
+	\f$ \forall i,j \in [1;d],~ \| r_i \| \neq \| r_j \| \f$.
+
+	With 32bit (float) floating types this problem shows up frequently.
+  However, almost always, correct accuracy is reached even in these cases for 64bit
+  (double) floating types and small polynomial degree (<20).
+
+	\include PolynomialSolver1.cpp
+	
+	In the above example:
+	
+	-# a simple use of the polynomial solver is shown;
+	-# the accuracy problem with the QR algorithm is presented: a polynomial with almost conjugate roots is provided to the solver.
+	Those roots have almost same module therefore the QR algorithm failed to converge: the accuracy
+	of the last root is bad;
+	-# a simple way to circumvent the problem is shown: use doubles instead of floats.
+
+  Output: \verbinclude PolynomialSolver1.out
+*/
+
+#include <Eigen/src/Core/util/ReenableStupidWarnings.h>
+
+#endif // EIGEN_POLYNOMIALS_MODULE_H
+/* vim: set filetype=cpp et sw=2 ts=2 ai: */

extern/Eigen3/unsupported/Eigen/SVD

@@ -0,0 +1,39 @@
+#ifndef EIGEN_SVD_MODULE_H
+#define EIGEN_SVD_MODULE_H
+
+#include <Eigen/QR>
+#include <Eigen/Householder>
+#include <Eigen/Jacobi>
+
+#include "../../Eigen/src/Core/util/DisableStupidWarnings.h"
+
+/** \defgroup SVD_Module SVD module
+  *
+  *
+  *
+  * This module provides SVD decomposition for matrices (both real and complex).
+  * This decomposition is accessible via the following MatrixBase method:
+  *  - MatrixBase::jacobiSvd()
+  *
+  * \code
+  * #include <Eigen/SVD>
+  * \endcode
+  */
+
+#include "../../Eigen/src/misc/Solve.h"
+#include "../../Eigen/src/SVD/UpperBidiagonalization.h"
+#include "src/SVD/SVDBase.h"
+#include "src/SVD/JacobiSVD.h"
+#include "src/SVD/BDCSVD.h"
+#if defined(EIGEN_USE_LAPACKE) && !defined(EIGEN_USE_LAPACKE_STRICT)
+#include "../../Eigen/src/SVD/JacobiSVD_MKL.h"
+#endif
+
+#ifdef EIGEN2_SUPPORT
+#include "../../Eigen/src/Eigen2Support/SVD.h"
+#endif
+
+#include "../../Eigen/src/Core/util/ReenableStupidWarnings.h"
+
+#endif // EIGEN_SVD_MODULE_H
+/* vim: set filetype=cpp et sw=2 ts=2 ai: */

extern/Eigen3/unsupported/Eigen/Skyline

@@ -0,0 +1,39 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_SKYLINE_MODULE_H
+#define EIGEN_SKYLINE_MODULE_H
+
+
+#include "Eigen/Core"
+
+#include "Eigen/src/Core/util/DisableStupidWarnings.h"
+
+#include <map>
+#include <cstdlib>
+#include <cstring>
+#include <algorithm>
+
+/**
+ *  \defgroup Skyline_Module Skyline module
+ *
+ *
+ *
+ *
+ */
+
+#include "src/Skyline/SkylineUtil.h"
+#include "src/Skyline/SkylineMatrixBase.h"
+#include "src/Skyline/SkylineStorage.h"
+#include "src/Skyline/SkylineMatrix.h"
+#include "src/Skyline/SkylineInplaceLU.h"
+#include "src/Skyline/SkylineProduct.h"
+
+#include "Eigen/src/Core/util/ReenableStupidWarnings.h"
+
+#endif // EIGEN_SKYLINE_MODULE_H

extern/Eigen3/unsupported/Eigen/SparseExtra

@@ -0,0 +1,56 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2008-2009 Gael Guennebaud <g.gael@free.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_SPARSE_EXTRA_MODULE_H
+#define EIGEN_SPARSE_EXTRA_MODULE_H
+
+#include "../../Eigen/Sparse"
+
+#include "../../Eigen/src/Core/util/DisableStupidWarnings.h"
+
+#include <vector>
+#include <map>
+#include <cstdlib>
+#include <cstring>
+#include <algorithm>
+#include <fstream>
+#include <sstream>
+
+#ifdef EIGEN_GOOGLEHASH_SUPPORT
+  #include <google/dense_hash_map>
+#endif
+
+/**
+  * \defgroup SparseExtra_Module SparseExtra module
+  *
+  * This module contains some experimental features extending the sparse module.
+  *
+  * \code
+  * #include <Eigen/SparseExtra>
+  * \endcode
+  */
+
+
+#include "../../Eigen/src/misc/Solve.h"
+#include "../../Eigen/src/misc/SparseSolve.h"
+
+#include "src/SparseExtra/DynamicSparseMatrix.h"
+#include "src/SparseExtra/BlockOfDynamicSparseMatrix.h"
+#include "src/SparseExtra/RandomSetter.h"
+
+#include "src/SparseExtra/MarketIO.h"
+
+#if !defined(_WIN32)
+#include <dirent.h>
+#include "src/SparseExtra/MatrixMarketIterator.h"
+#endif
+
+#include "../../Eigen/src/Core/util/ReenableStupidWarnings.h"
+
+#endif // EIGEN_SPARSE_EXTRA_MODULE_H

extern/Eigen3/unsupported/Eigen/Splines

@@ -0,0 +1,31 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 20010-2011 Hauke Heibel <hauke.heibel@gmail.com>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_SPLINES_MODULE_H
+#define EIGEN_SPLINES_MODULE_H
+
+namespace Eigen 
+{
+/**
+  * \defgroup Splines_Module Spline and spline fitting module
+  *
+  * This module provides a simple multi-dimensional spline class while
+  * offering most basic functionality to fit a spline to point sets.
+  *
+  * \code
+  * #include <unsupported/Eigen/Splines>
+  * \endcode
+  */
+}
+
+#include "src/Splines/SplineFwd.h"
+#include "src/Splines/Spline.h"
+#include "src/Splines/SplineFitting.h"
+
+#endif // EIGEN_SPLINES_MODULE_H

extern/Eigen3/unsupported/Eigen/src/AutoDiff/AutoDiffJacobian.h

@@ -0,0 +1,83 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Gael Guennebaud <gael.guennebaud@inria.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_AUTODIFF_JACOBIAN_H
+#define EIGEN_AUTODIFF_JACOBIAN_H
+
+namespace Eigen
+{
+
+template<typename Functor> class AutoDiffJacobian : public Functor
+{
+public:
+  AutoDiffJacobian() : Functor() {}
+  AutoDiffJacobian(const Functor& f) : Functor(f) {}
+
+  // forward constructors
+  template<typename T0>
+  AutoDiffJacobian(const T0& a0) : Functor(a0) {}
+  template<typename T0, typename T1>
+  AutoDiffJacobian(const T0& a0, const T1& a1) : Functor(a0, a1) {}
+  template<typename T0, typename T1, typename T2>
+  AutoDiffJacobian(const T0& a0, const T1& a1, const T2& a2) : Functor(a0, a1, a2) {}
+
+  enum {
+    InputsAtCompileTime = Functor::InputsAtCompileTime,
+    ValuesAtCompileTime = Functor::ValuesAtCompileTime
+  };
+
+  typedef typename Functor::InputType InputType;
+  typedef typename Functor::ValueType ValueType;
+  typedef typename Functor::JacobianType JacobianType;
+  typedef typename JacobianType::Scalar Scalar;
+  typedef typename JacobianType::Index Index;
+
+  typedef Matrix<Scalar,InputsAtCompileTime,1> DerivativeType;
+  typedef AutoDiffScalar<DerivativeType> ActiveScalar;
+
+
+  typedef Matrix<ActiveScalar, InputsAtCompileTime, 1> ActiveInput;
+  typedef Matrix<ActiveScalar, ValuesAtCompileTime, 1> ActiveValue;
+
+  void operator() (const InputType& x, ValueType* v, JacobianType* _jac=0) const
+  {
+    eigen_assert(v!=0);
+    if (!_jac)
+    {
+      Functor::operator()(x, v);
+      return;
+    }
+
+    JacobianType& jac = *_jac;
+
+    ActiveInput ax = x.template cast<ActiveScalar>();
+    ActiveValue av(jac.rows());
+
+    if(InputsAtCompileTime==Dynamic)
+      for (Index j=0; j<jac.rows(); j++)
+        av[j].derivatives().resize(this->inputs());
+
+    for (Index i=0; i<jac.cols(); i++)
+      ax[i].derivatives() = DerivativeType::Unit(this->inputs(),i);
+
+    Functor::operator()(ax, &av);
+
+    for (Index i=0; i<jac.rows(); i++)
+    {
+      (*v)[i] = av[i].value();
+      jac.row(i) = av[i].derivatives();
+    }
+  }
+protected:
+
+};
+
+}
+
+#endif // EIGEN_AUTODIFF_JACOBIAN_H

extern/Eigen3/unsupported/Eigen/src/AutoDiff/AutoDiffScalar.h

@@ -0,0 +1,642 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Gael Guennebaud <gael.guennebaud@inria.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_AUTODIFF_SCALAR_H
+#define EIGEN_AUTODIFF_SCALAR_H
+
+namespace Eigen {
+
+namespace internal {
+
+template<typename A, typename B>
+struct make_coherent_impl {
+  static void run(A&, B&) {}
+};
+
+// resize a to match b is a.size()==0, and conversely.
+template<typename A, typename B>
+void make_coherent(const A& a, const B&b)
+{
+  make_coherent_impl<A,B>::run(a.const_cast_derived(), b.const_cast_derived());
+}
+
+template<typename _DerType, bool Enable> struct auto_diff_special_op;
+
+} // end namespace internal
+
+/** \class AutoDiffScalar
+  * \brief A scalar type replacement with automatic differentation capability
+  *
+  * \param _DerType the vector type used to store/represent the derivatives. The base scalar type
+  *                 as well as the number of derivatives to compute are determined from this type.
+  *                 Typical choices include, e.g., \c Vector4f for 4 derivatives, or \c VectorXf
+  *                 if the number of derivatives is not known at compile time, and/or, the number
+  *                 of derivatives is large.
+  *                 Note that _DerType can also be a reference (e.g., \c VectorXf&) to wrap a
+  *                 existing vector into an AutoDiffScalar.
+  *                 Finally, _DerType can also be any Eigen compatible expression.
+  *
+  * This class represents a scalar value while tracking its respective derivatives using Eigen's expression
+  * template mechanism.
+  *
+  * It supports the following list of global math function:
+  *  - std::abs, std::sqrt, std::pow, std::exp, std::log, std::sin, std::cos,
+  *  - internal::abs, internal::sqrt, numext::pow, internal::exp, internal::log, internal::sin, internal::cos,
+  *  - internal::conj, internal::real, internal::imag, numext::abs2.
+  *
+  * AutoDiffScalar can be used as the scalar type of an Eigen::Matrix object. However,
+  * in that case, the expression template mechanism only occurs at the top Matrix level,
+  * while derivatives are computed right away.
+  *
+  */
+
+template<typename _DerType>
+class AutoDiffScalar
+  : public internal::auto_diff_special_op
+            <_DerType, !internal::is_same<typename internal::traits<typename internal::remove_all<_DerType>::type>::Scalar,
+                                        typename NumTraits<typename internal::traits<typename internal::remove_all<_DerType>::type>::Scalar>::Real>::value>
+{
+  public:
+    typedef internal::auto_diff_special_op
+            <_DerType, !internal::is_same<typename internal::traits<typename internal::remove_all<_DerType>::type>::Scalar,
+                       typename NumTraits<typename internal::traits<typename internal::remove_all<_DerType>::type>::Scalar>::Real>::value> Base;
+    typedef typename internal::remove_all<_DerType>::type DerType;
+    typedef typename internal::traits<DerType>::Scalar Scalar;
+    typedef typename NumTraits<Scalar>::Real Real;
+
+    using Base::operator+;
+    using Base::operator*;
+
+    /** Default constructor without any initialization. */
+    AutoDiffScalar() {}
+
+    /** Constructs an active scalar from its \a value,
+        and initializes the \a nbDer derivatives such that it corresponds to the \a derNumber -th variable */
+    AutoDiffScalar(const Scalar& value, int nbDer, int derNumber)
+      : m_value(value), m_derivatives(DerType::Zero(nbDer))
+    {
+      m_derivatives.coeffRef(derNumber) = Scalar(1);
+    }
+
+    /** Conversion from a scalar constant to an active scalar.
+      * The derivatives are set to zero. */
+    /*explicit*/ AutoDiffScalar(const Real& value)
+      : m_value(value)
+    {
+      if(m_derivatives.size()>0)
+        m_derivatives.setZero();
+    }
+
+    /** Constructs an active scalar from its \a value and derivatives \a der */
+    AutoDiffScalar(const Scalar& value, const DerType& der)
+      : m_value(value), m_derivatives(der)
+    {}
+
+    template<typename OtherDerType>
+    AutoDiffScalar(const AutoDiffScalar<OtherDerType>& other)
+      : m_value(other.value()), m_derivatives(other.derivatives())
+    {}
+
+    friend  std::ostream & operator << (std::ostream & s, const AutoDiffScalar& a)
+    {
+      return s << a.value();
+    }
+
+    AutoDiffScalar(const AutoDiffScalar& other)
+      : m_value(other.value()), m_derivatives(other.derivatives())
+    {}
+
+    template<typename OtherDerType>
+    inline AutoDiffScalar& operator=(const AutoDiffScalar<OtherDerType>& other)
+    {
+      m_value = other.value();
+      m_derivatives = other.derivatives();
+      return *this;
+    }
+
+    inline AutoDiffScalar& operator=(const AutoDiffScalar& other)
+    {
+      m_value = other.value();
+      m_derivatives = other.derivatives();
+      return *this;
+    }
+
+//     inline operator const Scalar& () const { return m_value; }
+//     inline operator Scalar& () { return m_value; }
+
+    inline const Scalar& value() const { return m_value; }
+    inline Scalar& value() { return m_value; }
+
+    inline const DerType& derivatives() const { return m_derivatives; }
+    inline DerType& derivatives() { return m_derivatives; }
+
+    inline bool operator< (const Scalar& other) const  { return m_value <  other; }
+    inline bool operator<=(const Scalar& other) const  { return m_value <= other; }
+    inline bool operator> (const Scalar& other) const  { return m_value >  other; }
+    inline bool operator>=(const Scalar& other) const  { return m_value >= other; }
+    inline bool operator==(const Scalar& other) const  { return m_value == other; }
+    inline bool operator!=(const Scalar& other) const  { return m_value != other; }
+
+    friend inline bool operator< (const Scalar& a, const AutoDiffScalar& b) { return a <  b.value(); }
+    friend inline bool operator<=(const Scalar& a, const AutoDiffScalar& b) { return a <= b.value(); }
+    friend inline bool operator> (const Scalar& a, const AutoDiffScalar& b) { return a >  b.value(); }
+    friend inline bool operator>=(const Scalar& a, const AutoDiffScalar& b) { return a >= b.value(); }
+    friend inline bool operator==(const Scalar& a, const AutoDiffScalar& b) { return a == b.value(); }
+    friend inline bool operator!=(const Scalar& a, const AutoDiffScalar& b) { return a != b.value(); }
+
+    template<typename OtherDerType> inline bool operator< (const AutoDiffScalar<OtherDerType>& b) const  { return m_value <  b.value(); }
+    template<typename OtherDerType> inline bool operator<=(const AutoDiffScalar<OtherDerType>& b) const  { return m_value <= b.value(); }
+    template<typename OtherDerType> inline bool operator> (const AutoDiffScalar<OtherDerType>& b) const  { return m_value >  b.value(); }
+    template<typename OtherDerType> inline bool operator>=(const AutoDiffScalar<OtherDerType>& b) const  { return m_value >= b.value(); }
+    template<typename OtherDerType> inline bool operator==(const AutoDiffScalar<OtherDerType>& b) const  { return m_value == b.value(); }
+    template<typename OtherDerType> inline bool operator!=(const AutoDiffScalar<OtherDerType>& b) const  { return m_value != b.value(); }
+
+    inline const AutoDiffScalar<DerType&> operator+(const Scalar& other) const
+    {
+      return AutoDiffScalar<DerType&>(m_value + other, m_derivatives);
+    }
+
+    friend inline const AutoDiffScalar<DerType&> operator+(const Scalar& a, const AutoDiffScalar& b)
+    {
+      return AutoDiffScalar<DerType&>(a + b.value(), b.derivatives());
+    }
+
+//     inline const AutoDiffScalar<DerType&> operator+(const Real& other) const
+//     {
+//       return AutoDiffScalar<DerType&>(m_value + other, m_derivatives);
+//     }
+
+//     friend inline const AutoDiffScalar<DerType&> operator+(const Real& a, const AutoDiffScalar& b)
+//     {
+//       return AutoDiffScalar<DerType&>(a + b.value(), b.derivatives());
+//     }
+
+    inline AutoDiffScalar& operator+=(const Scalar& other)
+    {
+      value() += other;
+      return *this;
+    }
+
+    template<typename OtherDerType>
+    inline const AutoDiffScalar<CwiseBinaryOp<internal::scalar_sum_op<Scalar>,const DerType,const typename internal::remove_all<OtherDerType>::type> >
+    operator+(const AutoDiffScalar<OtherDerType>& other) const
+    {
+      internal::make_coherent(m_derivatives, other.derivatives());
+      return AutoDiffScalar<CwiseBinaryOp<internal::scalar_sum_op<Scalar>,const DerType,const typename internal::remove_all<OtherDerType>::type> >(
+        m_value + other.value(),
+        m_derivatives + other.derivatives());
+    }
+
+    template<typename OtherDerType>
+    inline AutoDiffScalar&
+    operator+=(const AutoDiffScalar<OtherDerType>& other)
+    {
+      (*this) = (*this) + other;
+      return *this;
+    }
+
+    inline const AutoDiffScalar<DerType&> operator-(const Scalar& b) const
+    {
+      return AutoDiffScalar<DerType&>(m_value - b, m_derivatives);
+    }
+
+    friend inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_opposite_op<Scalar>, const DerType> >
+    operator-(const Scalar& a, const AutoDiffScalar& b)
+    {
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_opposite_op<Scalar>, const DerType> >
+            (a - b.value(), -b.derivatives());
+    }
+
+    inline AutoDiffScalar& operator-=(const Scalar& other)
+    {
+      value() -= other;
+      return *this;
+    }
+
+    template<typename OtherDerType>
+    inline const AutoDiffScalar<CwiseBinaryOp<internal::scalar_difference_op<Scalar>, const DerType,const typename internal::remove_all<OtherDerType>::type> >
+    operator-(const AutoDiffScalar<OtherDerType>& other) const
+    {
+      internal::make_coherent(m_derivatives, other.derivatives());
+      return AutoDiffScalar<CwiseBinaryOp<internal::scalar_difference_op<Scalar>, const DerType,const typename internal::remove_all<OtherDerType>::type> >(
+        m_value - other.value(),
+        m_derivatives - other.derivatives());
+    }
+
+    template<typename OtherDerType>
+    inline AutoDiffScalar&
+    operator-=(const AutoDiffScalar<OtherDerType>& other)
+    {
+      *this = *this - other;
+      return *this;
+    }
+
+    inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_opposite_op<Scalar>, const DerType> >
+    operator-() const
+    {
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_opposite_op<Scalar>, const DerType> >(
+        -m_value,
+        -m_derivatives);
+    }
+
+    inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >
+    operator*(const Scalar& other) const
+    {
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >(
+        m_value * other,
+        (m_derivatives * other));
+    }
+
+    friend inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >
+    operator*(const Scalar& other, const AutoDiffScalar& a)
+    {
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >(
+        a.value() * other,
+        a.derivatives() * other);
+    }
+
+//     inline const AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >
+//     operator*(const Real& other) const
+//     {
+//       return AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >(
+//         m_value * other,
+//         (m_derivatives * other));
+//     }
+//
+//     friend inline const AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >
+//     operator*(const Real& other, const AutoDiffScalar& a)
+//     {
+//       return AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >(
+//         a.value() * other,
+//         a.derivatives() * other);
+//     }
+
+    inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >
+    operator/(const Scalar& other) const
+    {
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >(
+        m_value / other,
+        (m_derivatives * (Scalar(1)/other)));
+    }
+
+    friend inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >
+    operator/(const Scalar& other, const AutoDiffScalar& a)
+    {
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType> >(
+        other / a.value(),
+        a.derivatives() * (Scalar(-other) / (a.value()*a.value())));
+    }
+
+//     inline const AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >
+//     operator/(const Real& other) const
+//     {
+//       return AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >(
+//         m_value / other,
+//         (m_derivatives * (Real(1)/other)));
+//     }
+//
+//     friend inline const AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >
+//     operator/(const Real& other, const AutoDiffScalar& a)
+//     {
+//       return AutoDiffScalar<typename CwiseUnaryOp<internal::scalar_multiple_op<Real>, DerType>::Type >(
+//         other / a.value(),
+//         a.derivatives() * (-Real(1)/other));
+//     }
+
+    template<typename OtherDerType>
+    inline const AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>,
+        const CwiseBinaryOp<internal::scalar_difference_op<Scalar>,
+          const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType>,
+          const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const typename internal::remove_all<OtherDerType>::type > > > >
+    operator/(const AutoDiffScalar<OtherDerType>& other) const
+    {
+      internal::make_coherent(m_derivatives, other.derivatives());
+      return AutoDiffScalar<CwiseUnaryOp<internal::scalar_multiple_op<Scalar>,
+        const CwiseBinaryOp<internal::scalar_difference_op<Scalar>,
+          const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType>,
+          const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const typename internal::remove_all<OtherDerType>::type > > > >(
+        m_value / other.value(),
+          ((m_derivatives * other.value()) - (m_value * other.derivatives()))
+        * (Scalar(1)/(other.value()*other.value())));
+    }
+
+    template<typename OtherDerType>
+    inline const AutoDiffScalar<CwiseBinaryOp<internal::scalar_sum_op<Scalar>,
+        const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType>,
+        const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const typename internal::remove_all<OtherDerType>::type> > >
+    operator*(const AutoDiffScalar<OtherDerType>& other) const
+    {
+      internal::make_coherent(m_derivatives, other.derivatives());
+      return AutoDiffScalar<const CwiseBinaryOp<internal::scalar_sum_op<Scalar>,
+        const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const DerType>,
+        const CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, const typename internal::remove_all<OtherDerType>::type > > >(
+        m_value * other.value(),
+        (m_derivatives * other.value()) + (m_value * other.derivatives()));
+    }
+
+    inline AutoDiffScalar& operator*=(const Scalar& other)
+    {
+      *this = *this * other;
+      return *this;
+    }
+
+    template<typename OtherDerType>
+    inline AutoDiffScalar& operator*=(const AutoDiffScalar<OtherDerType>& other)
+    {
+      *this = *this * other;
+      return *this;
+    }
+
+    inline AutoDiffScalar& operator/=(const Scalar& other)
+    {
+      *this = *this / other;
+      return *this;
+    }
+
+    template<typename OtherDerType>
+    inline AutoDiffScalar& operator/=(const AutoDiffScalar<OtherDerType>& other)
+    {
+      *this = *this / other;
+      return *this;
+    }
+
+  protected:
+    Scalar m_value;
+    DerType m_derivatives;
+
+};
+
+namespace internal {
+
+template<typename _DerType>
+struct auto_diff_special_op<_DerType, true>
+//   : auto_diff_scalar_op<_DerType, typename NumTraits<Scalar>::Real,
+//                            is_same<Scalar,typename NumTraits<Scalar>::Real>::value>
+{
+  typedef typename remove_all<_DerType>::type DerType;
+  typedef typename traits<DerType>::Scalar Scalar;
+  typedef typename NumTraits<Scalar>::Real Real;
+
+//   typedef auto_diff_scalar_op<_DerType, typename NumTraits<Scalar>::Real,
+//                            is_same<Scalar,typename NumTraits<Scalar>::Real>::value> Base;
+
+//   using Base::operator+;
+//   using Base::operator+=;
+//   using Base::operator-;
+//   using Base::operator-=;
+//   using Base::operator*;
+//   using Base::operator*=;
+
+  const AutoDiffScalar<_DerType>& derived() const { return *static_cast<const AutoDiffScalar<_DerType>*>(this); }
+  AutoDiffScalar<_DerType>& derived() { return *static_cast<AutoDiffScalar<_DerType>*>(this); }
+
+
+  inline const AutoDiffScalar<DerType&> operator+(const Real& other) const
+  {
+    return AutoDiffScalar<DerType&>(derived().value() + other, derived().derivatives());
+  }
+
+  friend inline const AutoDiffScalar<DerType&> operator+(const Real& a, const AutoDiffScalar<_DerType>& b)
+  {
+    return AutoDiffScalar<DerType&>(a + b.value(), b.derivatives());
+  }
+
+  inline AutoDiffScalar<_DerType>& operator+=(const Real& other)
+  {
+    derived().value() += other;
+    return derived();
+  }
+
+
+  inline const AutoDiffScalar<typename CwiseUnaryOp<scalar_multiple2_op<Scalar,Real>, DerType>::Type >
+  operator*(const Real& other) const
+  {
+    return AutoDiffScalar<typename CwiseUnaryOp<scalar_multiple2_op<Scalar,Real>, DerType>::Type >(
+      derived().value() * other,
+      derived().derivatives() * other);
+  }
+
+  friend inline const AutoDiffScalar<typename CwiseUnaryOp<scalar_multiple2_op<Scalar,Real>, DerType>::Type >
+  operator*(const Real& other, const AutoDiffScalar<_DerType>& a)
+  {
+    return AutoDiffScalar<typename CwiseUnaryOp<scalar_multiple2_op<Scalar,Real>, DerType>::Type >(
+      a.value() * other,
+      a.derivatives() * other);
+  }
+
+  inline AutoDiffScalar<_DerType>& operator*=(const Scalar& other)
+  {
+    *this = *this * other;
+    return derived();
+  }
+};
+
+template<typename _DerType>
+struct auto_diff_special_op<_DerType, false>
+{
+  void operator*() const;
+  void operator-() const;
+  void operator+() const;
+};
+
+template<typename A_Scalar, int A_Rows, int A_Cols, int A_Options, int A_MaxRows, int A_MaxCols, typename B>
+struct make_coherent_impl<Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols>, B> {
+  typedef Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols> A;
+  static void run(A& a, B& b) {
+    if((A_Rows==Dynamic || A_Cols==Dynamic) && (a.size()==0))
+    {
+      a.resize(b.size());
+      a.setZero();
+    }
+  }
+};
+
+template<typename A, typename B_Scalar, int B_Rows, int B_Cols, int B_Options, int B_MaxRows, int B_MaxCols>
+struct make_coherent_impl<A, Matrix<B_Scalar, B_Rows, B_Cols, B_Options, B_MaxRows, B_MaxCols> > {
+  typedef Matrix<B_Scalar, B_Rows, B_Cols, B_Options, B_MaxRows, B_MaxCols> B;
+  static void run(A& a, B& b) {
+    if((B_Rows==Dynamic || B_Cols==Dynamic) && (b.size()==0))
+    {
+      b.resize(a.size());
+      b.setZero();
+    }
+  }
+};
+
+template<typename A_Scalar, int A_Rows, int A_Cols, int A_Options, int A_MaxRows, int A_MaxCols,
+         typename B_Scalar, int B_Rows, int B_Cols, int B_Options, int B_MaxRows, int B_MaxCols>
+struct make_coherent_impl<Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols>,
+                             Matrix<B_Scalar, B_Rows, B_Cols, B_Options, B_MaxRows, B_MaxCols> > {
+  typedef Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols> A;
+  typedef Matrix<B_Scalar, B_Rows, B_Cols, B_Options, B_MaxRows, B_MaxCols> B;
+  static void run(A& a, B& b) {
+    if((A_Rows==Dynamic || A_Cols==Dynamic) && (a.size()==0))
+    {
+      a.resize(b.size());
+      a.setZero();
+    }
+    else if((B_Rows==Dynamic || B_Cols==Dynamic) && (b.size()==0))
+    {
+      b.resize(a.size());
+      b.setZero();
+    }
+  }
+};
+
+template<typename A_Scalar, int A_Rows, int A_Cols, int A_Options, int A_MaxRows, int A_MaxCols>
+struct scalar_product_traits<Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols>,A_Scalar>
+{
+  enum { Defined = 1 };
+  typedef Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols> ReturnType;
+};
+
+template<typename A_Scalar, int A_Rows, int A_Cols, int A_Options, int A_MaxRows, int A_MaxCols>
+struct scalar_product_traits<A_Scalar, Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols> >
+{
+  enum { Defined = 1 };
+  typedef Matrix<A_Scalar, A_Rows, A_Cols, A_Options, A_MaxRows, A_MaxCols> ReturnType;
+};
+
+template<typename DerType>
+struct scalar_product_traits<AutoDiffScalar<DerType>,typename DerType::Scalar>
+{
+  enum { Defined = 1 };
+  typedef AutoDiffScalar<DerType> ReturnType;
+};
+
+template<typename DerType>
+struct scalar_product_traits<typename DerType::Scalar,AutoDiffScalar<DerType> >
+{
+  enum { Defined = 1 };
+  typedef AutoDiffScalar<DerType> ReturnType;
+};
+
+} // end namespace internal
+
+#define EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(FUNC,CODE) \
+  template<typename DerType> \
+  inline const Eigen::AutoDiffScalar<Eigen::CwiseUnaryOp<Eigen::internal::scalar_multiple_op<typename Eigen::internal::traits<typename Eigen::internal::remove_all<DerType>::type>::Scalar>, const typename Eigen::internal::remove_all<DerType>::type> > \
+  FUNC(const Eigen::AutoDiffScalar<DerType>& x) { \
+    using namespace Eigen; \
+    typedef typename Eigen::internal::traits<typename Eigen::internal::remove_all<DerType>::type>::Scalar Scalar; \
+    typedef AutoDiffScalar<CwiseUnaryOp<Eigen::internal::scalar_multiple_op<Scalar>, const typename Eigen::internal::remove_all<DerType>::type> > ReturnType; \
+    CODE; \
+  }
+
+template<typename DerType>
+inline const AutoDiffScalar<DerType>& conj(const AutoDiffScalar<DerType>& x)  { return x; }
+template<typename DerType>
+inline const AutoDiffScalar<DerType>& real(const AutoDiffScalar<DerType>& x)  { return x; }
+template<typename DerType>
+inline typename DerType::Scalar imag(const AutoDiffScalar<DerType>&)    { return 0.; }
+template<typename DerType, typename T>
+inline AutoDiffScalar<DerType> (min)(const AutoDiffScalar<DerType>& x, const T& y)    { return (x <= y ? x : y); }
+template<typename DerType, typename T>
+inline AutoDiffScalar<DerType> (max)(const AutoDiffScalar<DerType>& x, const T& y)    { return (x >= y ? x : y); }
+template<typename DerType, typename T>
+inline AutoDiffScalar<DerType> (min)(const T& x, const AutoDiffScalar<DerType>& y)    { return (x < y ? x : y); }
+template<typename DerType, typename T>
+inline AutoDiffScalar<DerType> (max)(const T& x, const AutoDiffScalar<DerType>& y)    { return (x > y ? x : y); }
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(abs,
+  using std::abs;
+  return ReturnType(abs(x.value()), x.derivatives() * (x.value()<0 ? -1 : 1) );)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(abs2,
+  using numext::abs2;
+  return ReturnType(abs2(x.value()), x.derivatives() * (Scalar(2)*x.value()));)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(sqrt,
+  using std::sqrt;
+  Scalar sqrtx = sqrt(x.value());
+  return ReturnType(sqrtx,x.derivatives() * (Scalar(0.5) / sqrtx));)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(cos,
+  using std::cos;
+  using std::sin;
+  return ReturnType(cos(x.value()), x.derivatives() * (-sin(x.value())));)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(sin,
+  using std::sin;
+  using std::cos;
+  return ReturnType(sin(x.value()),x.derivatives() * cos(x.value()));)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(exp,
+  using std::exp;
+  Scalar expx = exp(x.value());
+  return ReturnType(expx,x.derivatives() * expx);)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(log,
+  using std::log;
+  return ReturnType(log(x.value()),x.derivatives() * (Scalar(1)/x.value()));)
+
+template<typename DerType>
+inline const Eigen::AutoDiffScalar<Eigen::CwiseUnaryOp<Eigen::internal::scalar_multiple_op<typename Eigen::internal::traits<DerType>::Scalar>, const DerType> >
+pow(const Eigen::AutoDiffScalar<DerType>& x, typename Eigen::internal::traits<DerType>::Scalar y)
+{
+  using namespace Eigen;
+  typedef typename Eigen::internal::traits<DerType>::Scalar Scalar;
+  return AutoDiffScalar<CwiseUnaryOp<Eigen::internal::scalar_multiple_op<Scalar>, const DerType> >(
+    std::pow(x.value(),y),
+    x.derivatives() * (y * std::pow(x.value(),y-1)));
+}
+
+
+template<typename DerTypeA,typename DerTypeB>
+inline const AutoDiffScalar<Matrix<typename internal::traits<DerTypeA>::Scalar,Dynamic,1> >
+atan2(const AutoDiffScalar<DerTypeA>& a, const AutoDiffScalar<DerTypeB>& b)
+{
+  using std::atan2;
+  using std::max;
+  typedef typename internal::traits<DerTypeA>::Scalar Scalar;
+  typedef AutoDiffScalar<Matrix<Scalar,Dynamic,1> > PlainADS;
+  PlainADS ret;
+  ret.value() = atan2(a.value(), b.value());
+  
+  Scalar tmp2 = a.value() * a.value();
+  Scalar tmp3 = b.value() * b.value();
+  Scalar tmp4 = tmp3/(tmp2+tmp3);
+  
+  if (tmp4!=0)
+    ret.derivatives() = (a.derivatives() * b.value() - a.value() * b.derivatives()) * (tmp2+tmp3);
+
+  return ret;
+}
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(tan,
+  using std::tan;
+  using std::cos;
+  return ReturnType(tan(x.value()),x.derivatives() * (Scalar(1)/numext::abs2(cos(x.value()))));)
+
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(asin,
+  using std::sqrt;
+  using std::asin;
+  return ReturnType(asin(x.value()),x.derivatives() * (Scalar(1)/sqrt(1-numext::abs2(x.value()))));)
+  
+EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY(acos,
+  using std::sqrt;
+  using std::acos;
+  return ReturnType(acos(x.value()),x.derivatives() * (Scalar(-1)/sqrt(1-numext::abs2(x.value()))));)
+
+#undef EIGEN_AUTODIFF_DECLARE_GLOBAL_UNARY
+
+template<typename DerType> struct NumTraits<AutoDiffScalar<DerType> >
+  : NumTraits< typename NumTraits<typename DerType::Scalar>::Real >
+{
+  typedef AutoDiffScalar<Matrix<typename NumTraits<typename DerType::Scalar>::Real,DerType::RowsAtCompileTime,DerType::ColsAtCompileTime> > Real;
+  typedef AutoDiffScalar<DerType> NonInteger;
+  typedef AutoDiffScalar<DerType> Nested;
+  enum{
+    RequireInitialization = 1
+  };
+};
+
+}
+
+#endif // EIGEN_AUTODIFF_SCALAR_H

extern/Eigen3/unsupported/Eigen/src/AutoDiff/AutoDiffVector.h

@@ -0,0 +1,220 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Gael Guennebaud <gael.guennebaud@inria.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_AUTODIFF_VECTOR_H
+#define EIGEN_AUTODIFF_VECTOR_H
+
+namespace Eigen {
+
+/* \class AutoDiffScalar
+  * \brief A scalar type replacement with automatic differentation capability
+  *
+  * \param DerType the vector type used to store/represent the derivatives (e.g. Vector3f)
+  *
+  * This class represents a scalar value while tracking its respective derivatives.
+  *
+  * It supports the following list of global math function:
+  *  - std::abs, std::sqrt, std::pow, std::exp, std::log, std::sin, std::cos,
+  *  - internal::abs, internal::sqrt, numext::pow, internal::exp, internal::log, internal::sin, internal::cos,
+  *  - internal::conj, internal::real, internal::imag, numext::abs2.
+  *
+  * AutoDiffScalar can be used as the scalar type of an Eigen::Matrix object. However,
+  * in that case, the expression template mechanism only occurs at the top Matrix level,
+  * while derivatives are computed right away.
+  *
+  */
+template<typename ValueType, typename JacobianType>
+class AutoDiffVector
+{
+  public:
+    //typedef typename internal::traits<ValueType>::Scalar Scalar;
+    typedef typename internal::traits<ValueType>::Scalar BaseScalar;
+    typedef AutoDiffScalar<Matrix<BaseScalar,JacobianType::RowsAtCompileTime,1> > ActiveScalar;
+    typedef ActiveScalar Scalar;
+    typedef AutoDiffScalar<typename JacobianType::ColXpr> CoeffType;
+    typedef typename JacobianType::Index Index;
+
+    inline AutoDiffVector() {}
+
+    inline AutoDiffVector(const ValueType& values)
+      : m_values(values)
+    {
+      m_jacobian.setZero();
+    }
+
+
+    CoeffType operator[] (Index i) { return CoeffType(m_values[i], m_jacobian.col(i)); }
+    const CoeffType operator[] (Index i) const { return CoeffType(m_values[i], m_jacobian.col(i)); }
+
+    CoeffType operator() (Index i) { return CoeffType(m_values[i], m_jacobian.col(i)); }
+    const CoeffType operator() (Index i) const { return CoeffType(m_values[i], m_jacobian.col(i)); }
+
+    CoeffType coeffRef(Index i) { return CoeffType(m_values[i], m_jacobian.col(i)); }
+    const CoeffType coeffRef(Index i) const { return CoeffType(m_values[i], m_jacobian.col(i)); }
+
+    Index size() const { return m_values.size(); }
+
+    // FIXME here we could return an expression of the sum
+    Scalar sum() const { /*std::cerr << "sum \n\n";*/ /*std::cerr << m_jacobian.rowwise().sum() << "\n\n";*/ return Scalar(m_values.sum(), m_jacobian.rowwise().sum()); }
+
+
+    inline AutoDiffVector(const ValueType& values, const JacobianType& jac)
+      : m_values(values), m_jacobian(jac)
+    {}
+
+    template<typename OtherValueType, typename OtherJacobianType>
+    inline AutoDiffVector(const AutoDiffVector<OtherValueType, OtherJacobianType>& other)
+      : m_values(other.values()), m_jacobian(other.jacobian())
+    {}
+
+    inline AutoDiffVector(const AutoDiffVector& other)
+      : m_values(other.values()), m_jacobian(other.jacobian())
+    {}
+
+    template<typename OtherValueType, typename OtherJacobianType>
+    inline AutoDiffVector& operator=(const AutoDiffVector<OtherValueType, OtherJacobianType>& other)
+    {
+      m_values = other.values();
+      m_jacobian = other.jacobian();
+      return *this;
+    }
+
+    inline AutoDiffVector& operator=(const AutoDiffVector& other)
+    {
+      m_values = other.values();
+      m_jacobian = other.jacobian();
+      return *this;
+    }
+
+    inline const ValueType& values() const { return m_values; }
+    inline ValueType& values() { return m_values; }
+
+    inline const JacobianType& jacobian() const { return m_jacobian; }
+    inline JacobianType& jacobian() { return m_jacobian; }
+
+    template<typename OtherValueType,typename OtherJacobianType>
+    inline const AutoDiffVector<
+      typename MakeCwiseBinaryOp<internal::scalar_sum_op<BaseScalar>,ValueType,OtherValueType>::Type,
+      typename MakeCwiseBinaryOp<internal::scalar_sum_op<BaseScalar>,JacobianType,OtherJacobianType>::Type >
+    operator+(const AutoDiffVector<OtherValueType,OtherJacobianType>& other) const
+    {
+      return AutoDiffVector<
+      typename MakeCwiseBinaryOp<internal::scalar_sum_op<BaseScalar>,ValueType,OtherValueType>::Type,
+      typename MakeCwiseBinaryOp<internal::scalar_sum_op<BaseScalar>,JacobianType,OtherJacobianType>::Type >(
+        m_values + other.values(),
+        m_jacobian + other.jacobian());
+    }
+
+    template<typename OtherValueType, typename OtherJacobianType>
+    inline AutoDiffVector&
+    operator+=(const AutoDiffVector<OtherValueType,OtherJacobianType>& other)
+    {
+      m_values += other.values();
+      m_jacobian += other.jacobian();
+      return *this;
+    }
+
+    template<typename OtherValueType,typename OtherJacobianType>
+    inline const AutoDiffVector<
+      typename MakeCwiseBinaryOp<internal::scalar_difference_op<Scalar>,ValueType,OtherValueType>::Type,
+      typename MakeCwiseBinaryOp<internal::scalar_difference_op<Scalar>,JacobianType,OtherJacobianType>::Type >
+    operator-(const AutoDiffVector<OtherValueType,OtherJacobianType>& other) const
+    {
+      return AutoDiffVector<
+        typename MakeCwiseBinaryOp<internal::scalar_difference_op<Scalar>,ValueType,OtherValueType>::Type,
+        typename MakeCwiseBinaryOp<internal::scalar_difference_op<Scalar>,JacobianType,OtherJacobianType>::Type >(
+          m_values - other.values(),
+          m_jacobian - other.jacobian());
+    }
+
+    template<typename OtherValueType, typename OtherJacobianType>
+    inline AutoDiffVector&
+    operator-=(const AutoDiffVector<OtherValueType,OtherJacobianType>& other)
+    {
+      m_values -= other.values();
+      m_jacobian -= other.jacobian();
+      return *this;
+    }
+
+    inline const AutoDiffVector<
+      typename MakeCwiseUnaryOp<internal::scalar_opposite_op<Scalar>, ValueType>::Type,
+      typename MakeCwiseUnaryOp<internal::scalar_opposite_op<Scalar>, JacobianType>::Type >
+    operator-() const
+    {
+      return AutoDiffVector<
+        typename MakeCwiseUnaryOp<internal::scalar_opposite_op<Scalar>, ValueType>::Type,
+        typename MakeCwiseUnaryOp<internal::scalar_opposite_op<Scalar>, JacobianType>::Type >(
+          -m_values,
+          -m_jacobian);
+    }
+
+    inline const AutoDiffVector<
+      typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, ValueType>::Type,
+      typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, JacobianType>::Type>
+    operator*(const BaseScalar& other) const
+    {
+      return AutoDiffVector<
+        typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, ValueType>::Type,
+        typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, JacobianType>::Type >(
+          m_values * other,
+          m_jacobian * other);
+    }
+
+    friend inline const AutoDiffVector<
+      typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, ValueType>::Type,
+      typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, JacobianType>::Type >
+    operator*(const Scalar& other, const AutoDiffVector& v)
+    {
+      return AutoDiffVector<
+        typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, ValueType>::Type,
+        typename MakeCwiseUnaryOp<internal::scalar_multiple_op<Scalar>, JacobianType>::Type >(
+          v.values() * other,
+          v.jacobian() * other);
+    }
+
+//     template<typename OtherValueType,typename OtherJacobianType>
+//     inline const AutoDiffVector<
+//       CwiseBinaryOp<internal::scalar_multiple_op<Scalar>, ValueType, OtherValueType>
+//       CwiseBinaryOp<internal::scalar_sum_op<Scalar>,
+//         CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, JacobianType>,
+//         CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, OtherJacobianType> > >
+//     operator*(const AutoDiffVector<OtherValueType,OtherJacobianType>& other) const
+//     {
+//       return AutoDiffVector<
+//         CwiseBinaryOp<internal::scalar_multiple_op<Scalar>, ValueType, OtherValueType>
+//         CwiseBinaryOp<internal::scalar_sum_op<Scalar>,
+//           CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, JacobianType>,
+//           CwiseUnaryOp<internal::scalar_multiple_op<Scalar>, OtherJacobianType> > >(
+//             m_values.cwise() * other.values(),
+//             (m_jacobian * other.values()) + (m_values * other.jacobian()));
+//     }
+
+    inline AutoDiffVector& operator*=(const Scalar& other)
+    {
+      m_values *= other;
+      m_jacobian *= other;
+      return *this;
+    }
+
+    template<typename OtherValueType,typename OtherJacobianType>
+    inline AutoDiffVector& operator*=(const AutoDiffVector<OtherValueType,OtherJacobianType>& other)
+    {
+      *this = *this * other;
+      return *this;
+    }
+
+  protected:
+    ValueType m_values;
+    JacobianType m_jacobian;
+
+};
+
+}
+
+#endif // EIGEN_AUTODIFF_VECTOR_H

extern/Eigen3/unsupported/Eigen/src/AutoDiff/CMakeLists.txt

@@ -0,0 +1,6 @@
+FILE(GLOB Eigen_AutoDiff_SRCS "*.h")
+
+INSTALL(FILES
+  ${Eigen_AutoDiff_SRCS}
+  DESTINATION ${INCLUDE_INSTALL_DIR}/unsupported/Eigen/src/AutoDiff COMPONENT Devel
+  )

extern/Eigen3/unsupported/Eigen/src/BVH/BVAlgorithms.h

@@ -0,0 +1,293 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Ilya Baran <ibaran@mit.edu>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_BVALGORITHMS_H
+#define EIGEN_BVALGORITHMS_H
+
+namespace Eigen { 
+
+namespace internal {
+
+#ifndef EIGEN_PARSED_BY_DOXYGEN
+template<typename BVH, typename Intersector>
+bool intersect_helper(const BVH &tree, Intersector &intersector, typename BVH::Index root)
+{
+  typedef typename BVH::Index Index;
+  typedef typename BVH::VolumeIterator VolIter;
+  typedef typename BVH::ObjectIterator ObjIter;
+
+  VolIter vBegin = VolIter(), vEnd = VolIter();
+  ObjIter oBegin = ObjIter(), oEnd = ObjIter();
+
+  std::vector<Index> todo(1, root);
+
+  while(!todo.empty()) {
+    tree.getChildren(todo.back(), vBegin, vEnd, oBegin, oEnd);
+    todo.pop_back();
+
+    for(; vBegin != vEnd; ++vBegin) //go through child volumes
+      if(intersector.intersectVolume(tree.getVolume(*vBegin)))
+        todo.push_back(*vBegin);
+
+    for(; oBegin != oEnd; ++oBegin) //go through child objects
+      if(intersector.intersectObject(*oBegin))
+        return true; //intersector said to stop query
+  }
+  return false;
+}
+#endif //not EIGEN_PARSED_BY_DOXYGEN
+
+template<typename Volume1, typename Object1, typename Object2, typename Intersector>
+struct intersector_helper1
+{
+  intersector_helper1(const Object2 &inStored, Intersector &in) : stored(inStored), intersector(in) {}
+  bool intersectVolume(const Volume1 &vol) { return intersector.intersectVolumeObject(vol, stored); }
+  bool intersectObject(const Object1 &obj) { return intersector.intersectObjectObject(obj, stored); }
+  Object2 stored;
+  Intersector &intersector;
+private:
+  intersector_helper1& operator=(const intersector_helper1&);
+};
+
+template<typename Volume2, typename Object2, typename Object1, typename Intersector>
+struct intersector_helper2
+{
+  intersector_helper2(const Object1 &inStored, Intersector &in) : stored(inStored), intersector(in) {}
+  bool intersectVolume(const Volume2 &vol) { return intersector.intersectObjectVolume(stored, vol); }
+  bool intersectObject(const Object2 &obj) { return intersector.intersectObjectObject(stored, obj); }
+  Object1 stored;
+  Intersector &intersector;
+private:
+  intersector_helper2& operator=(const intersector_helper2&);
+};
+
+} // end namespace internal
+
+/**  Given a BVH, runs the query encapsulated by \a intersector.
+  *  The Intersector type must provide the following members: \code
+     bool intersectVolume(const BVH::Volume &volume) //returns true if volume intersects the query
+     bool intersectObject(const BVH::Object &object) //returns true if the search should terminate immediately
+  \endcode
+  */
+template<typename BVH, typename Intersector>
+void BVIntersect(const BVH &tree, Intersector &intersector)
+{
+  internal::intersect_helper(tree, intersector, tree.getRootIndex());
+}
+
+/**  Given two BVH's, runs the query on their Cartesian product encapsulated by \a intersector.
+  *  The Intersector type must provide the following members: \code
+     bool intersectVolumeVolume(const BVH1::Volume &v1, const BVH2::Volume &v2) //returns true if product of volumes intersects the query
+     bool intersectVolumeObject(const BVH1::Volume &v1, const BVH2::Object &o2) //returns true if the volume-object product intersects the query
+     bool intersectObjectVolume(const BVH1::Object &o1, const BVH2::Volume &v2) //returns true if the volume-object product intersects the query
+     bool intersectObjectObject(const BVH1::Object &o1, const BVH2::Object &o2) //returns true if the search should terminate immediately
+  \endcode
+  */
+template<typename BVH1, typename BVH2, typename Intersector>
+void BVIntersect(const BVH1 &tree1, const BVH2 &tree2, Intersector &intersector) //TODO: tandem descent when it makes sense
+{
+  typedef typename BVH1::Index Index1;
+  typedef typename BVH2::Index Index2;
+  typedef internal::intersector_helper1<typename BVH1::Volume, typename BVH1::Object, typename BVH2::Object, Intersector> Helper1;
+  typedef internal::intersector_helper2<typename BVH2::Volume, typename BVH2::Object, typename BVH1::Object, Intersector> Helper2;
+  typedef typename BVH1::VolumeIterator VolIter1;
+  typedef typename BVH1::ObjectIterator ObjIter1;
+  typedef typename BVH2::VolumeIterator VolIter2;
+  typedef typename BVH2::ObjectIterator ObjIter2;
+
+  VolIter1 vBegin1 = VolIter1(), vEnd1 = VolIter1();
+  ObjIter1 oBegin1 = ObjIter1(), oEnd1 = ObjIter1();
+  VolIter2 vBegin2 = VolIter2(), vEnd2 = VolIter2(), vCur2 = VolIter2();
+  ObjIter2 oBegin2 = ObjIter2(), oEnd2 = ObjIter2(), oCur2 = ObjIter2();
+
+  std::vector<std::pair<Index1, Index2> > todo(1, std::make_pair(tree1.getRootIndex(), tree2.getRootIndex()));
+
+  while(!todo.empty()) {
+    tree1.getChildren(todo.back().first, vBegin1, vEnd1, oBegin1, oEnd1);
+    tree2.getChildren(todo.back().second, vBegin2, vEnd2, oBegin2, oEnd2);
+    todo.pop_back();
+
+    for(; vBegin1 != vEnd1; ++vBegin1) { //go through child volumes of first tree
+      const typename BVH1::Volume &vol1 = tree1.getVolume(*vBegin1);
+      for(vCur2 = vBegin2; vCur2 != vEnd2; ++vCur2) { //go through child volumes of second tree
+        if(intersector.intersectVolumeVolume(vol1, tree2.getVolume(*vCur2)))
+          todo.push_back(std::make_pair(*vBegin1, *vCur2));
+      }
+
+      for(oCur2 = oBegin2; oCur2 != oEnd2; ++oCur2) {//go through child objects of second tree
+        Helper1 helper(*oCur2, intersector);
+        if(internal::intersect_helper(tree1, helper, *vBegin1))
+          return; //intersector said to stop query
+      }
+    }
+
+    for(; oBegin1 != oEnd1; ++oBegin1) { //go through child objects of first tree
+      for(vCur2 = vBegin2; vCur2 != vEnd2; ++vCur2) { //go through child volumes of second tree
+        Helper2 helper(*oBegin1, intersector);
+        if(internal::intersect_helper(tree2, helper, *vCur2))
+          return; //intersector said to stop query
+      }
+
+      for(oCur2 = oBegin2; oCur2 != oEnd2; ++oCur2) {//go through child objects of second tree
+        if(intersector.intersectObjectObject(*oBegin1, *oCur2))
+          return; //intersector said to stop query
+      }
+    }
+  }
+}
+
+namespace internal {
+
+#ifndef EIGEN_PARSED_BY_DOXYGEN
+template<typename BVH, typename Minimizer>
+typename Minimizer::Scalar minimize_helper(const BVH &tree, Minimizer &minimizer, typename BVH::Index root, typename Minimizer::Scalar minimum)
+{
+  typedef typename Minimizer::Scalar Scalar;
+  typedef typename BVH::Index Index;
+  typedef std::pair<Scalar, Index> QueueElement; //first element is priority
+  typedef typename BVH::VolumeIterator VolIter;
+  typedef typename BVH::ObjectIterator ObjIter;
+
+  VolIter vBegin = VolIter(), vEnd = VolIter();
+  ObjIter oBegin = ObjIter(), oEnd = ObjIter();
+  std::priority_queue<QueueElement, std::vector<QueueElement>, std::greater<QueueElement> > todo; //smallest is at the top
+
+  todo.push(std::make_pair(Scalar(), root));
+
+  while(!todo.empty()) {
+    tree.getChildren(todo.top().second, vBegin, vEnd, oBegin, oEnd);
+    todo.pop();
+
+    for(; oBegin != oEnd; ++oBegin) //go through child objects
+      minimum = (std::min)(minimum, minimizer.minimumOnObject(*oBegin));
+
+    for(; vBegin != vEnd; ++vBegin) { //go through child volumes
+      Scalar val = minimizer.minimumOnVolume(tree.getVolume(*vBegin));
+      if(val < minimum)
+        todo.push(std::make_pair(val, *vBegin));
+    }
+  }
+
+  return minimum;
+}
+#endif //not EIGEN_PARSED_BY_DOXYGEN
+
+
+template<typename Volume1, typename Object1, typename Object2, typename Minimizer>
+struct minimizer_helper1
+{
+  typedef typename Minimizer::Scalar Scalar;
+  minimizer_helper1(const Object2 &inStored, Minimizer &m) : stored(inStored), minimizer(m) {}
+  Scalar minimumOnVolume(const Volume1 &vol) { return minimizer.minimumOnVolumeObject(vol, stored); }
+  Scalar minimumOnObject(const Object1 &obj) { return minimizer.minimumOnObjectObject(obj, stored); }
+  Object2 stored;
+  Minimizer &minimizer;
+private:
+  minimizer_helper1& operator=(const minimizer_helper1&);
+};
+
+template<typename Volume2, typename Object2, typename Object1, typename Minimizer>
+struct minimizer_helper2
+{
+  typedef typename Minimizer::Scalar Scalar;
+  minimizer_helper2(const Object1 &inStored, Minimizer &m) : stored(inStored), minimizer(m) {}
+  Scalar minimumOnVolume(const Volume2 &vol) { return minimizer.minimumOnObjectVolume(stored, vol); }
+  Scalar minimumOnObject(const Object2 &obj) { return minimizer.minimumOnObjectObject(stored, obj); }
+  Object1 stored;
+  Minimizer &minimizer;
+private:
+  minimizer_helper2& operator=(const minimizer_helper2&);
+};
+
+} // end namespace internal
+
+/**  Given a BVH, runs the query encapsulated by \a minimizer.
+  *  \returns the minimum value.
+  *  The Minimizer type must provide the following members: \code
+     typedef Scalar //the numeric type of what is being minimized--not necessarily the Scalar type of the BVH (if it has one)
+     Scalar minimumOnVolume(const BVH::Volume &volume)
+     Scalar minimumOnObject(const BVH::Object &object)
+  \endcode
+  */
+template<typename BVH, typename Minimizer>
+typename Minimizer::Scalar BVMinimize(const BVH &tree, Minimizer &minimizer)
+{
+  return internal::minimize_helper(tree, minimizer, tree.getRootIndex(), (std::numeric_limits<typename Minimizer::Scalar>::max)());
+}
+
+/**  Given two BVH's, runs the query on their cartesian product encapsulated by \a minimizer.
+  *  \returns the minimum value.
+  *  The Minimizer type must provide the following members: \code
+     typedef Scalar //the numeric type of what is being minimized--not necessarily the Scalar type of the BVH (if it has one)
+     Scalar minimumOnVolumeVolume(const BVH1::Volume &v1, const BVH2::Volume &v2)
+     Scalar minimumOnVolumeObject(const BVH1::Volume &v1, const BVH2::Object &o2)
+     Scalar minimumOnObjectVolume(const BVH1::Object &o1, const BVH2::Volume &v2)
+     Scalar minimumOnObjectObject(const BVH1::Object &o1, const BVH2::Object &o2)
+  \endcode
+  */
+template<typename BVH1, typename BVH2, typename Minimizer>
+typename Minimizer::Scalar BVMinimize(const BVH1 &tree1, const BVH2 &tree2, Minimizer &minimizer)
+{
+  typedef typename Minimizer::Scalar Scalar;
+  typedef typename BVH1::Index Index1;
+  typedef typename BVH2::Index Index2;
+  typedef internal::minimizer_helper1<typename BVH1::Volume, typename BVH1::Object, typename BVH2::Object, Minimizer> Helper1;
+  typedef internal::minimizer_helper2<typename BVH2::Volume, typename BVH2::Object, typename BVH1::Object, Minimizer> Helper2;
+  typedef std::pair<Scalar, std::pair<Index1, Index2> > QueueElement; //first element is priority
+  typedef typename BVH1::VolumeIterator VolIter1;
+  typedef typename BVH1::ObjectIterator ObjIter1;
+  typedef typename BVH2::VolumeIterator VolIter2;
+  typedef typename BVH2::ObjectIterator ObjIter2;
+
+  VolIter1 vBegin1 = VolIter1(), vEnd1 = VolIter1();
+  ObjIter1 oBegin1 = ObjIter1(), oEnd1 = ObjIter1();
+  VolIter2 vBegin2 = VolIter2(), vEnd2 = VolIter2(), vCur2 = VolIter2();
+  ObjIter2 oBegin2 = ObjIter2(), oEnd2 = ObjIter2(), oCur2 = ObjIter2();
+  std::priority_queue<QueueElement, std::vector<QueueElement>, std::greater<QueueElement> > todo; //smallest is at the top
+
+  Scalar minimum = (std::numeric_limits<Scalar>::max)();
+  todo.push(std::make_pair(Scalar(), std::make_pair(tree1.getRootIndex(), tree2.getRootIndex())));
+
+  while(!todo.empty()) {
+    tree1.getChildren(todo.top().second.first, vBegin1, vEnd1, oBegin1, oEnd1);
+    tree2.getChildren(todo.top().second.second, vBegin2, vEnd2, oBegin2, oEnd2);
+    todo.pop();
+
+    for(; oBegin1 != oEnd1; ++oBegin1) { //go through child objects of first tree
+      for(oCur2 = oBegin2; oCur2 != oEnd2; ++oCur2) {//go through child objects of second tree
+        minimum = (std::min)(minimum, minimizer.minimumOnObjectObject(*oBegin1, *oCur2));
+      }
+
+      for(vCur2 = vBegin2; vCur2 != vEnd2; ++vCur2) { //go through child volumes of second tree
+        Helper2 helper(*oBegin1, minimizer);
+        minimum = (std::min)(minimum, internal::minimize_helper(tree2, helper, *vCur2, minimum));
+      }
+    }
+
+    for(; vBegin1 != vEnd1; ++vBegin1) { //go through child volumes of first tree
+      const typename BVH1::Volume &vol1 = tree1.getVolume(*vBegin1);
+
+      for(oCur2 = oBegin2; oCur2 != oEnd2; ++oCur2) {//go through child objects of second tree
+        Helper1 helper(*oCur2, minimizer);
+        minimum = (std::min)(minimum, internal::minimize_helper(tree1, helper, *vBegin1, minimum));
+      }
+
+      for(vCur2 = vBegin2; vCur2 != vEnd2; ++vCur2) { //go through child volumes of second tree
+        Scalar val = minimizer.minimumOnVolumeVolume(vol1, tree2.getVolume(*vCur2));
+        if(val < minimum)
+          todo.push(std::make_pair(val, std::make_pair(*vBegin1, *vCur2)));
+      }
+    }
+  }
+  return minimum;
+}
+
+} // end namespace Eigen
+
+#endif // EIGEN_BVALGORITHMS_H

extern/Eigen3/unsupported/Eigen/src/BVH/CMakeLists.txt

@@ -0,0 +1,6 @@
+FILE(GLOB Eigen_BVH_SRCS "*.h")
+
+INSTALL(FILES
+  ${Eigen_BVH_SRCS}
+  DESTINATION ${INCLUDE_INSTALL_DIR}/unsupported/Eigen/src/BVH COMPONENT Devel
+  )

extern/Eigen3/unsupported/Eigen/src/BVH/KdBVH.h

@@ -0,0 +1,222 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Ilya Baran <ibaran@mit.edu>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef KDBVH_H_INCLUDED
+#define KDBVH_H_INCLUDED
+
+namespace Eigen { 
+
+namespace internal {
+
+//internal pair class for the BVH--used instead of std::pair because of alignment
+template<typename Scalar, int Dim>
+struct vector_int_pair
+{
+EIGEN_MAKE_ALIGNED_OPERATOR_NEW_IF_VECTORIZABLE_FIXED_SIZE(Scalar, Dim)
+  typedef Matrix<Scalar, Dim, 1> VectorType;
+
+  vector_int_pair(const VectorType &v, int i) : first(v), second(i) {}
+
+  VectorType first;
+  int second;
+};
+
+//these templates help the tree initializer get the bounding boxes either from a provided
+//iterator range or using bounding_box in a unified way
+template<typename ObjectList, typename VolumeList, typename BoxIter>
+struct get_boxes_helper {
+  void operator()(const ObjectList &objects, BoxIter boxBegin, BoxIter boxEnd, VolumeList &outBoxes)
+  {
+    outBoxes.insert(outBoxes.end(), boxBegin, boxEnd);
+    eigen_assert(outBoxes.size() == objects.size());
+  }
+};
+
+template<typename ObjectList, typename VolumeList>
+struct get_boxes_helper<ObjectList, VolumeList, int> {
+  void operator()(const ObjectList &objects, int, int, VolumeList &outBoxes)
+  {
+    outBoxes.reserve(objects.size());
+    for(int i = 0; i < (int)objects.size(); ++i)
+      outBoxes.push_back(bounding_box(objects[i]));
+  }
+};
+
+} // end namespace internal
+
+
+/** \class KdBVH
+ *  \brief A simple bounding volume hierarchy based on AlignedBox
+ *
+ *  \param _Scalar The underlying scalar type of the bounding boxes
+ *  \param _Dim The dimension of the space in which the hierarchy lives
+ *  \param _Object The object type that lives in the hierarchy.  It must have value semantics.  Either bounding_box(_Object) must
+ *                 be defined and return an AlignedBox<_Scalar, _Dim> or bounding boxes must be provided to the tree initializer.
+ *
+ *  This class provides a simple (as opposed to optimized) implementation of a bounding volume hierarchy analogous to a Kd-tree.
+ *  Given a sequence of objects, it computes their bounding boxes, constructs a Kd-tree of their centers
+ *  and builds a BVH with the structure of that Kd-tree.  When the elements of the tree are too expensive to be copied around,
+ *  it is useful for _Object to be a pointer.
+ */
+template<typename _Scalar, int _Dim, typename _Object> class KdBVH
+{
+public:
+  enum { Dim = _Dim };
+  typedef _Object Object;
+  typedef std::vector<Object, aligned_allocator<Object> > ObjectList;
+  typedef _Scalar Scalar;
+  typedef AlignedBox<Scalar, Dim> Volume;
+  typedef std::vector<Volume, aligned_allocator<Volume> > VolumeList;
+  typedef int Index;
+  typedef const int *VolumeIterator; //the iterators are just pointers into the tree's vectors
+  typedef const Object *ObjectIterator;
+
+  KdBVH() {}
+
+  /** Given an iterator range over \a Object references, constructs the BVH.  Requires that bounding_box(Object) return a Volume. */
+  template<typename Iter> KdBVH(Iter begin, Iter end) { init(begin, end, 0, 0); } //int is recognized by init as not being an iterator type
+
+  /** Given an iterator range over \a Object references and an iterator range over their bounding boxes, constructs the BVH */
+  template<typename OIter, typename BIter> KdBVH(OIter begin, OIter end, BIter boxBegin, BIter boxEnd) { init(begin, end, boxBegin, boxEnd); }
+
+  /** Given an iterator range over \a Object references, constructs the BVH, overwriting whatever is in there currently.
+    * Requires that bounding_box(Object) return a Volume. */
+  template<typename Iter> void init(Iter begin, Iter end) { init(begin, end, 0, 0); }
+
+  /** Given an iterator range over \a Object references and an iterator range over their bounding boxes,
+    * constructs the BVH, overwriting whatever is in there currently. */
+  template<typename OIter, typename BIter> void init(OIter begin, OIter end, BIter boxBegin, BIter boxEnd)
+  {
+    objects.clear();
+    boxes.clear();
+    children.clear();
+
+    objects.insert(objects.end(), begin, end);
+    int n = static_cast<int>(objects.size());
+
+    if(n < 2)
+      return; //if we have at most one object, we don't need any internal nodes
+
+    VolumeList objBoxes;
+    VIPairList objCenters;
+
+    //compute the bounding boxes depending on BIter type
+    internal::get_boxes_helper<ObjectList, VolumeList, BIter>()(objects, boxBegin, boxEnd, objBoxes);
+
+    objCenters.reserve(n);
+    boxes.reserve(n - 1);
+    children.reserve(2 * n - 2);
+
+    for(int i = 0; i < n; ++i)
+      objCenters.push_back(VIPair(objBoxes[i].center(), i));
+
+    build(objCenters, 0, n, objBoxes, 0); //the recursive part of the algorithm
+
+    ObjectList tmp(n);
+    tmp.swap(objects);
+    for(int i = 0; i < n; ++i)
+      objects[i] = tmp[objCenters[i].second];
+  }
+
+  /** \returns the index of the root of the hierarchy */
+  inline Index getRootIndex() const { return (int)boxes.size() - 1; }
+
+  /** Given an \a index of a node, on exit, \a outVBegin and \a outVEnd range over the indices of the volume children of the node
+    * and \a outOBegin and \a outOEnd range over the object children of the node */
+  EIGEN_STRONG_INLINE void getChildren(Index index, VolumeIterator &outVBegin, VolumeIterator &outVEnd,
+                                       ObjectIterator &outOBegin, ObjectIterator &outOEnd) const
+  { //inlining this function should open lots of optimization opportunities to the compiler
+    if(index < 0) {
+      outVBegin = outVEnd;
+      if(!objects.empty())
+        outOBegin = &(objects[0]);
+      outOEnd = outOBegin + objects.size(); //output all objects--necessary when the tree has only one object
+      return;
+    }
+
+    int numBoxes = static_cast<int>(boxes.size());
+
+    int idx = index * 2;
+    if(children[idx + 1] < numBoxes) { //second index is always bigger
+      outVBegin = &(children[idx]);
+      outVEnd = outVBegin + 2;
+      outOBegin = outOEnd;
+    }
+    else if(children[idx] >= numBoxes) { //if both children are objects
+      outVBegin = outVEnd;
+      outOBegin = &(objects[children[idx] - numBoxes]);
+      outOEnd = outOBegin + 2;
+    } else { //if the first child is a volume and the second is an object
+      outVBegin = &(children[idx]);
+      outVEnd = outVBegin + 1;
+      outOBegin = &(objects[children[idx + 1] - numBoxes]);
+      outOEnd = outOBegin + 1;
+    }
+  }
+
+  /** \returns the bounding box of the node at \a index */
+  inline const Volume &getVolume(Index index) const
+  {
+    return boxes[index];
+  }
+
+private:
+  typedef internal::vector_int_pair<Scalar, Dim> VIPair;
+  typedef std::vector<VIPair, aligned_allocator<VIPair> > VIPairList;
+  typedef Matrix<Scalar, Dim, 1> VectorType;
+  struct VectorComparator //compares vectors, or, more specificall, VIPairs along a particular dimension
+  {
+    VectorComparator(int inDim) : dim(inDim) {}
+    inline bool operator()(const VIPair &v1, const VIPair &v2) const { return v1.first[dim] < v2.first[dim]; }
+    int dim;
+  };
+
+  //Build the part of the tree between objects[from] and objects[to] (not including objects[to]).
+  //This routine partitions the objCenters in [from, to) along the dimension dim, recursively constructs
+  //the two halves, and adds their parent node.  TODO: a cache-friendlier layout
+  void build(VIPairList &objCenters, int from, int to, const VolumeList &objBoxes, int dim)
+  {
+    eigen_assert(to - from > 1);
+    if(to - from == 2) {
+      boxes.push_back(objBoxes[objCenters[from].second].merged(objBoxes[objCenters[from + 1].second]));
+      children.push_back(from + (int)objects.size() - 1); //there are objects.size() - 1 tree nodes
+      children.push_back(from + (int)objects.size());
+    }
+    else if(to - from == 3) {
+      int mid = from + 2;
+      std::nth_element(objCenters.begin() + from, objCenters.begin() + mid,
+                        objCenters.begin() + to, VectorComparator(dim)); //partition
+      build(objCenters, from, mid, objBoxes, (dim + 1) % Dim);
+      int idx1 = (int)boxes.size() - 1;
+      boxes.push_back(boxes[idx1].merged(objBoxes[objCenters[mid].second]));
+      children.push_back(idx1);
+      children.push_back(mid + (int)objects.size() - 1);
+    }
+    else {
+      int mid = from + (to - from) / 2;
+      nth_element(objCenters.begin() + from, objCenters.begin() + mid,
+                  objCenters.begin() + to, VectorComparator(dim)); //partition
+      build(objCenters, from, mid, objBoxes, (dim + 1) % Dim);
+      int idx1 = (int)boxes.size() - 1;
+      build(objCenters, mid, to, objBoxes, (dim + 1) % Dim);
+      int idx2 = (int)boxes.size() - 1;
+      boxes.push_back(boxes[idx1].merged(boxes[idx2]));
+      children.push_back(idx1);
+      children.push_back(idx2);
+    }
+  }
+
+  std::vector<int> children; //children of x are children[2x] and children[2x+1], indices bigger than boxes.size() index into objects.
+  VolumeList boxes;
+  ObjectList objects;
+};
+
+} // end namespace Eigen
+
+#endif //KDBVH_H_INCLUDED

extern/Eigen3/unsupported/Eigen/src/CMakeLists.txt

@@ -0,0 +1,15 @@
+ADD_SUBDIRECTORY(AutoDiff)
+ADD_SUBDIRECTORY(BVH)
+ADD_SUBDIRECTORY(Eigenvalues)
+ADD_SUBDIRECTORY(FFT)
+ADD_SUBDIRECTORY(IterativeSolvers)
+ADD_SUBDIRECTORY(KroneckerProduct)
+ADD_SUBDIRECTORY(LevenbergMarquardt)
+ADD_SUBDIRECTORY(MatrixFunctions)
+ADD_SUBDIRECTORY(MoreVectorization)
+ADD_SUBDIRECTORY(NonLinearOptimization)
+ADD_SUBDIRECTORY(NumericalDiff)
+ADD_SUBDIRECTORY(Polynomials)
+ADD_SUBDIRECTORY(Skyline)
+ADD_SUBDIRECTORY(SparseExtra)
+ADD_SUBDIRECTORY(Splines)

extern/Eigen3/unsupported/Eigen/src/Eigenvalues/ArpackSelfAdjointEigenSolver.h

@@ -0,0 +1,805 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2012 David Harmon <dharmon@gmail.com>
+//
+// Eigen 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; either
+// version 3 of the License, or (at your option) any later version.
+//
+// Alternatively, you can redistribute it and/or
+// modify it under the terms of the GNU General Public License as
+// published by the Free Software Foundation; either version 2 of
+// the License, or (at your option) any later version.
+//
+// Eigen is distributed in the hope that it will be useful, but WITHOUT ANY
+// WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
+// FOR A PARTICULAR PURPOSE. See the GNU Lesser General Public License or the
+// GNU General Public License for more details.
+//
+// You should have received a copy of the GNU Lesser General Public
+// License and a copy of the GNU General Public License along with
+// Eigen. If not, see <http://www.gnu.org/licenses/>.
+
+#ifndef EIGEN_ARPACKGENERALIZEDSELFADJOINTEIGENSOLVER_H
+#define EIGEN_ARPACKGENERALIZEDSELFADJOINTEIGENSOLVER_H
+
+#include <Eigen/Dense>
+
+namespace Eigen { 
+
+namespace internal {
+  template<typename Scalar, typename RealScalar> struct arpack_wrapper;
+  template<typename MatrixSolver, typename MatrixType, typename Scalar, bool BisSPD> struct OP;
+}
+
+
+
+template<typename MatrixType, typename MatrixSolver=SimplicialLLT<MatrixType>, bool BisSPD=false>
+class ArpackGeneralizedSelfAdjointEigenSolver
+{
+public:
+  //typedef typename MatrixSolver::MatrixType MatrixType;
+
+  /** \brief Scalar type for matrices of type \p MatrixType. */
+  typedef typename MatrixType::Scalar Scalar;
+  typedef typename MatrixType::Index Index;
+
+  /** \brief Real scalar type for \p MatrixType.
+   *
+   * This is just \c Scalar if #Scalar is real (e.g., \c float or
+   * \c Scalar), and the type of the real part of \c Scalar if #Scalar is
+   * complex.
+   */
+  typedef typename NumTraits<Scalar>::Real RealScalar;
+
+  /** \brief Type for vector of eigenvalues as returned by eigenvalues().
+   *
+   * This is a column vector with entries of type #RealScalar.
+   * The length of the vector is the size of \p nbrEigenvalues.
+   */
+  typedef typename internal::plain_col_type<MatrixType, RealScalar>::type RealVectorType;
+
+  /** \brief Default constructor.
+   *
+   * The default constructor is for cases in which the user intends to
+   * perform decompositions via compute().
+   *
+   */
+  ArpackGeneralizedSelfAdjointEigenSolver()
+   : m_eivec(),
+     m_eivalues(),
+     m_isInitialized(false),
+     m_eigenvectorsOk(false),
+     m_nbrConverged(0),
+     m_nbrIterations(0)
+  { }
+
+  /** \brief Constructor; computes generalized eigenvalues of given matrix with respect to another matrix.
+   *
+   * \param[in] A Self-adjoint matrix whose eigenvalues / eigenvectors will
+   *    computed. By default, the upper triangular part is used, but can be changed
+   *    through the template parameter.
+   * \param[in] B Self-adjoint matrix for the generalized eigenvalue problem.
+   * \param[in] nbrEigenvalues The number of eigenvalues / eigenvectors to compute.
+   *    Must be less than the size of the input matrix, or an error is returned.
+   * \param[in] eigs_sigma String containing either "LM", "SM", "LA", or "SA", with
+   *    respective meanings to find the largest magnitude , smallest magnitude,
+   *    largest algebraic, or smallest algebraic eigenvalues. Alternatively, this
+   *    value can contain floating point value in string form, in which case the
+   *    eigenvalues closest to this value will be found.
+   * \param[in]  options Can be #ComputeEigenvectors (default) or #EigenvaluesOnly.
+   * \param[in] tol What tolerance to find the eigenvalues to. Default is 0, which
+   *    means machine precision.
+   *
+   * This constructor calls compute(const MatrixType&, const MatrixType&, Index, string, int, RealScalar)
+   * to compute the eigenvalues of the matrix \p A with respect to \p B. The eigenvectors are computed if
+   * \p options equals #ComputeEigenvectors.
+   *
+   */
+  ArpackGeneralizedSelfAdjointEigenSolver(const MatrixType& A, const MatrixType& B,
+                                          Index nbrEigenvalues, std::string eigs_sigma="LM",
+                               int options=ComputeEigenvectors, RealScalar tol=0.0)
+    : m_eivec(),
+      m_eivalues(),
+      m_isInitialized(false),
+      m_eigenvectorsOk(false),
+      m_nbrConverged(0),
+      m_nbrIterations(0)
+  {
+    compute(A, B, nbrEigenvalues, eigs_sigma, options, tol);
+  }
+
+  /** \brief Constructor; computes eigenvalues of given matrix.
+   *
+   * \param[in] A Self-adjoint matrix whose eigenvalues / eigenvectors will
+   *    computed. By default, the upper triangular part is used, but can be changed
+   *    through the template parameter.
+   * \param[in] nbrEigenvalues The number of eigenvalues / eigenvectors to compute.
+   *    Must be less than the size of the input matrix, or an error is returned.
+   * \param[in] eigs_sigma String containing either "LM", "SM", "LA", or "SA", with
+   *    respective meanings to find the largest magnitude , smallest magnitude,
+   *    largest algebraic, or smallest algebraic eigenvalues. Alternatively, this
+   *    value can contain floating point value in string form, in which case the
+   *    eigenvalues closest to this value will be found.
+   * \param[in]  options Can be #ComputeEigenvectors (default) or #EigenvaluesOnly.
+   * \param[in] tol What tolerance to find the eigenvalues to. Default is 0, which
+   *    means machine precision.
+   *
+   * This constructor calls compute(const MatrixType&, Index, string, int, RealScalar)
+   * to compute the eigenvalues of the matrix \p A. The eigenvectors are computed if
+   * \p options equals #ComputeEigenvectors.
+   *
+   */
+
+  ArpackGeneralizedSelfAdjointEigenSolver(const MatrixType& A,
+                                          Index nbrEigenvalues, std::string eigs_sigma="LM",
+                               int options=ComputeEigenvectors, RealScalar tol=0.0)
+    : m_eivec(),
+      m_eivalues(),
+      m_isInitialized(false),
+      m_eigenvectorsOk(false),
+      m_nbrConverged(0),
+      m_nbrIterations(0)
+  {
+    compute(A, nbrEigenvalues, eigs_sigma, options, tol);
+  }
+
+
+  /** \brief Computes generalized eigenvalues / eigenvectors of given matrix using the external ARPACK library.
+   *
+   * \param[in]  A  Selfadjoint matrix whose eigendecomposition is to be computed.
+   * \param[in]  B  Selfadjoint matrix for generalized eigenvalues.
+   * \param[in] nbrEigenvalues The number of eigenvalues / eigenvectors to compute.
+   *    Must be less than the size of the input matrix, or an error is returned.
+   * \param[in] eigs_sigma String containing either "LM", "SM", "LA", or "SA", with
+   *    respective meanings to find the largest magnitude , smallest magnitude,
+   *    largest algebraic, or smallest algebraic eigenvalues. Alternatively, this
+   *    value can contain floating point value in string form, in which case the
+   *    eigenvalues closest to this value will be found.
+   * \param[in]  options Can be #ComputeEigenvectors (default) or #EigenvaluesOnly.
+   * \param[in] tol What tolerance to find the eigenvalues to. Default is 0, which
+   *    means machine precision.
+   *
+   * \returns    Reference to \c *this
+   *
+   * This function computes the generalized eigenvalues of \p A with respect to \p B using ARPACK.  The eigenvalues()
+   * function can be used to retrieve them.  If \p options equals #ComputeEigenvectors,
+   * then the eigenvectors are also computed and can be retrieved by
+   * calling eigenvectors().
+   *
+   */
+  ArpackGeneralizedSelfAdjointEigenSolver& compute(const MatrixType& A, const MatrixType& B,
+                                                   Index nbrEigenvalues, std::string eigs_sigma="LM",
+                                        int options=ComputeEigenvectors, RealScalar tol=0.0);
+  
+  /** \brief Computes eigenvalues / eigenvectors of given matrix using the external ARPACK library.
+   *
+   * \param[in]  A  Selfadjoint matrix whose eigendecomposition is to be computed.
+   * \param[in] nbrEigenvalues The number of eigenvalues / eigenvectors to compute.
+   *    Must be less than the size of the input matrix, or an error is returned.
+   * \param[in] eigs_sigma String containing either "LM", "SM", "LA", or "SA", with
+   *    respective meanings to find the largest magnitude , smallest magnitude,
+   *    largest algebraic, or smallest algebraic eigenvalues. Alternatively, this
+   *    value can contain floating point value in string form, in which case the
+   *    eigenvalues closest to this value will be found.
+   * \param[in]  options Can be #ComputeEigenvectors (default) or #EigenvaluesOnly.
+   * \param[in] tol What tolerance to find the eigenvalues to. Default is 0, which
+   *    means machine precision.
+   *
+   * \returns    Reference to \c *this
+   *
+   * This function computes the eigenvalues of \p A using ARPACK.  The eigenvalues()
+   * function can be used to retrieve them.  If \p options equals #ComputeEigenvectors,
+   * then the eigenvectors are also computed and can be retrieved by
+   * calling eigenvectors().
+   *
+   */
+  ArpackGeneralizedSelfAdjointEigenSolver& compute(const MatrixType& A,
+                                                   Index nbrEigenvalues, std::string eigs_sigma="LM",
+                                        int options=ComputeEigenvectors, RealScalar tol=0.0);
+
+
+  /** \brief Returns the eigenvectors of given matrix.
+   *
+   * \returns  A const reference to the matrix whose columns are the eigenvectors.
+   *
+   * \pre The eigenvectors have been computed before.
+   *
+   * Column \f$ k \f$ of the returned matrix is an eigenvector corresponding
+   * to eigenvalue number \f$ k \f$ as returned by eigenvalues().  The
+   * eigenvectors are normalized to have (Euclidean) norm equal to one. If
+   * this object was used to solve the eigenproblem for the selfadjoint
+   * matrix \f$ A \f$, then the matrix returned by this function is the
+   * matrix \f$ V \f$ in the eigendecomposition \f$ A V = D V \f$.
+   * For the generalized eigenproblem, the matrix returned is the solution \f$ A V = D B V \f$
+   *
+   * Example: \include SelfAdjointEigenSolver_eigenvectors.cpp
+   * Output: \verbinclude SelfAdjointEigenSolver_eigenvectors.out
+   *
+   * \sa eigenvalues()
+   */
+  const Matrix<Scalar, Dynamic, Dynamic>& eigenvectors() const
+  {
+    eigen_assert(m_isInitialized && "ArpackGeneralizedSelfAdjointEigenSolver is not initialized.");
+    eigen_assert(m_eigenvectorsOk && "The eigenvectors have not been computed together with the eigenvalues.");
+    return m_eivec;
+  }
+
+  /** \brief Returns the eigenvalues of given matrix.
+   *
+   * \returns A const reference to the column vector containing the eigenvalues.
+   *
+   * \pre The eigenvalues have been computed before.
+   *
+   * The eigenvalues are repeated according to their algebraic multiplicity,
+   * so there are as many eigenvalues as rows in the matrix. The eigenvalues
+   * are sorted in increasing order.
+   *
+   * Example: \include SelfAdjointEigenSolver_eigenvalues.cpp
+   * Output: \verbinclude SelfAdjointEigenSolver_eigenvalues.out
+   *
+   * \sa eigenvectors(), MatrixBase::eigenvalues()
+   */
+  const Matrix<Scalar, Dynamic, 1>& eigenvalues() const
+  {
+    eigen_assert(m_isInitialized && "ArpackGeneralizedSelfAdjointEigenSolver is not initialized.");
+    return m_eivalues;
+  }
+
+  /** \brief Computes the positive-definite square root of the matrix.
+   *
+   * \returns the positive-definite square root of the matrix
+   *
+   * \pre The eigenvalues and eigenvectors of a positive-definite matrix
+   * have been computed before.
+   *
+   * The square root of a positive-definite matrix \f$ A \f$ is the
+   * positive-definite matrix whose square equals \f$ A \f$. This function
+   * uses the eigendecomposition \f$ A = V D V^{-1} \f$ to compute the
+   * square root as \f$ A^{1/2} = V D^{1/2} V^{-1} \f$.
+   *
+   * Example: \include SelfAdjointEigenSolver_operatorSqrt.cpp
+   * Output: \verbinclude SelfAdjointEigenSolver_operatorSqrt.out
+   *
+   * \sa operatorInverseSqrt(),
+   *     \ref MatrixFunctions_Module "MatrixFunctions Module"
+   */
+  Matrix<Scalar, Dynamic, Dynamic> operatorSqrt() const
+  {
+    eigen_assert(m_isInitialized && "SelfAdjointEigenSolver is not initialized.");
+    eigen_assert(m_eigenvectorsOk && "The eigenvectors have not been computed together with the eigenvalues.");
+    return m_eivec * m_eivalues.cwiseSqrt().asDiagonal() * m_eivec.adjoint();
+  }
+
+  /** \brief Computes the inverse square root of the matrix.
+   *
+   * \returns the inverse positive-definite square root of the matrix
+   *
+   * \pre The eigenvalues and eigenvectors of a positive-definite matrix
+   * have been computed before.
+   *
+   * This function uses the eigendecomposition \f$ A = V D V^{-1} \f$ to
+   * compute the inverse square root as \f$ V D^{-1/2} V^{-1} \f$. This is
+   * cheaper than first computing the square root with operatorSqrt() and
+   * then its inverse with MatrixBase::inverse().
+   *
+   * Example: \include SelfAdjointEigenSolver_operatorInverseSqrt.cpp
+   * Output: \verbinclude SelfAdjointEigenSolver_operatorInverseSqrt.out
+   *
+   * \sa operatorSqrt(), MatrixBase::inverse(),
+   *     \ref MatrixFunctions_Module "MatrixFunctions Module"
+   */
+  Matrix<Scalar, Dynamic, Dynamic> operatorInverseSqrt() const
+  {
+    eigen_assert(m_isInitialized && "SelfAdjointEigenSolver is not initialized.");
+    eigen_assert(m_eigenvectorsOk && "The eigenvectors have not been computed together with the eigenvalues.");
+    return m_eivec * m_eivalues.cwiseInverse().cwiseSqrt().asDiagonal() * m_eivec.adjoint();
+  }
+
+  /** \brief Reports whether previous computation was successful.
+   *
+   * \returns \c Success if computation was succesful, \c NoConvergence otherwise.
+   */
+  ComputationInfo info() const
+  {
+    eigen_assert(m_isInitialized && "ArpackGeneralizedSelfAdjointEigenSolver is not initialized.");
+    return m_info;
+  }
+
+  size_t getNbrConvergedEigenValues() const
+  { return m_nbrConverged; }
+
+  size_t getNbrIterations() const
+  { return m_nbrIterations; }
+
+protected:
+  Matrix<Scalar, Dynamic, Dynamic> m_eivec;
+  Matrix<Scalar, Dynamic, 1> m_eivalues;
+  ComputationInfo m_info;
+  bool m_isInitialized;
+  bool m_eigenvectorsOk;
+
+  size_t m_nbrConverged;
+  size_t m_nbrIterations;
+};
+
+
+
+
+
+template<typename MatrixType, typename MatrixSolver, bool BisSPD>
+ArpackGeneralizedSelfAdjointEigenSolver<MatrixType, MatrixSolver, BisSPD>&
+    ArpackGeneralizedSelfAdjointEigenSolver<MatrixType, MatrixSolver, BisSPD>
+::compute(const MatrixType& A, Index nbrEigenvalues,
+          std::string eigs_sigma, int options, RealScalar tol)
+{
+    MatrixType B(0,0);
+    compute(A, B, nbrEigenvalues, eigs_sigma, options, tol);
+    
+    return *this;
+}
+
+
+template<typename MatrixType, typename MatrixSolver, bool BisSPD>
+ArpackGeneralizedSelfAdjointEigenSolver<MatrixType, MatrixSolver, BisSPD>&
+    ArpackGeneralizedSelfAdjointEigenSolver<MatrixType, MatrixSolver, BisSPD>
+::compute(const MatrixType& A, const MatrixType& B, Index nbrEigenvalues,
+          std::string eigs_sigma, int options, RealScalar tol)
+{
+  eigen_assert(A.cols() == A.rows());
+  eigen_assert(B.cols() == B.rows());
+  eigen_assert(B.rows() == 0 || A.cols() == B.rows());
+  eigen_assert((options &~ (EigVecMask | GenEigMask)) == 0
+            && (options & EigVecMask) != EigVecMask
+            && "invalid option parameter");
+
+  bool isBempty = (B.rows() == 0) || (B.cols() == 0);
+
+  // For clarity, all parameters match their ARPACK name
+  //
+  // Always 0 on the first call
+  //
+  int ido = 0;
+
+  int n = (int)A.cols();
+
+  // User options: "LA", "SA", "SM", "LM", "BE"
+  //
+  char whch[3] = "LM";
+    
+  // Specifies the shift if iparam[6] = { 3, 4, 5 }, not used if iparam[6] = { 1, 2 }
+  //
+  RealScalar sigma = 0.0;
+
+  if (eigs_sigma.length() >= 2 && isalpha(eigs_sigma[0]) && isalpha(eigs_sigma[1]))
+  {
+      eigs_sigma[0] = toupper(eigs_sigma[0]);
+      eigs_sigma[1] = toupper(eigs_sigma[1]);
+
+      // In the following special case we're going to invert the problem, since solving
+      // for larger magnitude is much much faster
+      // i.e., if 'SM' is specified, we're going to really use 'LM', the default
+      //
+      if (eigs_sigma.substr(0,2) != "SM")
+      {
+          whch[0] = eigs_sigma[0];
+          whch[1] = eigs_sigma[1];
+      }
+  }
+  else
+  {
+      eigen_assert(false && "Specifying clustered eigenvalues is not yet supported!");
+
+      // If it's not scalar values, then the user may be explicitly
+      // specifying the sigma value to cluster the evs around
+      //
+      sigma = atof(eigs_sigma.c_str());
+
+      // If atof fails, it returns 0.0, which is a fine default
+      //
+  }
+
+  // "I" means normal eigenvalue problem, "G" means generalized
+  //
+  char bmat[2] = "I";
+  if (eigs_sigma.substr(0,2) == "SM" || !(isalpha(eigs_sigma[0]) && isalpha(eigs_sigma[1])) || (!isBempty && !BisSPD))
+      bmat[0] = 'G';
+
+  // Now we determine the mode to use
+  //
+  int mode = (bmat[0] == 'G') + 1;
+  if (eigs_sigma.substr(0,2) == "SM" || !(isalpha(eigs_sigma[0]) && isalpha(eigs_sigma[1])))
+  {
+      // We're going to use shift-and-invert mode, and basically find
+      // the largest eigenvalues of the inverse operator
+      //
+      mode = 3;
+  }
+
+  // The user-specified number of eigenvalues/vectors to compute
+  //
+  int nev = (int)nbrEigenvalues;
+
+  // Allocate space for ARPACK to store the residual
+  //
+  Scalar *resid = new Scalar[n];
+
+  // Number of Lanczos vectors, must satisfy nev < ncv <= n
+  // Note that this indicates that nev != n, and we cannot compute
+  // all eigenvalues of a mtrix
+  //
+  int ncv = std::min(std::max(2*nev, 20), n);
+
+  // The working n x ncv matrix, also store the final eigenvectors (if computed)
+  //
+  Scalar *v = new Scalar[n*ncv];
+  int ldv = n;
+
+  // Working space
+  //
+  Scalar *workd = new Scalar[3*n];
+  int lworkl = ncv*ncv+8*ncv; // Must be at least this length
+  Scalar *workl = new Scalar[lworkl];
+
+  int *iparam= new int[11];
+  iparam[0] = 1; // 1 means we let ARPACK perform the shifts, 0 means we'd have to do it
+  iparam[2] = std::max(300, (int)std::ceil(2*n/std::max(ncv,1)));
+  iparam[6] = mode; // The mode, 1 is standard ev problem, 2 for generalized ev, 3 for shift-and-invert
+
+  // Used during reverse communicate to notify where arrays start
+  //
+  int *ipntr = new int[11]; 
+
+  // Error codes are returned in here, initial value of 0 indicates a random initial
+  // residual vector is used, any other values means resid contains the initial residual
+  // vector, possibly from a previous run
+  //
+  int info = 0;
+
+  Scalar scale = 1.0;
+  //if (!isBempty)
+  //{
+  //Scalar scale = B.norm() / std::sqrt(n);
+  //scale = std::pow(2, std::floor(std::log(scale+1)));
+  ////M /= scale;
+  //for (size_t i=0; i<(size_t)B.outerSize(); i++)
+  //    for (typename MatrixType::InnerIterator it(B, i); it; ++it)
+  //        it.valueRef() /= scale;
+  //}
+
+  MatrixSolver OP;
+  if (mode == 1 || mode == 2)
+  {
+      if (!isBempty)
+          OP.compute(B);
+  }
+  else if (mode == 3)
+  {
+      if (sigma == 0.0)
+      {
+          OP.compute(A);
+      }
+      else
+      {
+          // Note: We will never enter here because sigma must be 0.0
+          //
+          if (isBempty)
+          {
+            MatrixType AminusSigmaB(A);
+            for (Index i=0; i<A.rows(); ++i)
+                AminusSigmaB.coeffRef(i,i) -= sigma;
+            
+            OP.compute(AminusSigmaB);
+          }
+          else
+          {
+              MatrixType AminusSigmaB = A - sigma * B;
+              OP.compute(AminusSigmaB);
+          }
+      }
+  }
+ 
+  if (!(mode == 1 && isBempty) && !(mode == 2 && isBempty) && OP.info() != Success)
+      std::cout << "Error factoring matrix" << std::endl;
+
+  do
+  {
+    internal::arpack_wrapper<Scalar, RealScalar>::saupd(&ido, bmat, &n, whch, &nev, &tol, resid, 
+                                                        &ncv, v, &ldv, iparam, ipntr, workd, workl,
+                                                        &lworkl, &info);
+
+    if (ido == -1 || ido == 1)
+    {
+      Scalar *in  = workd + ipntr[0] - 1;
+      Scalar *out = workd + ipntr[1] - 1;
+
+      if (ido == 1 && mode != 2)
+      {
+          Scalar *out2 = workd + ipntr[2] - 1;
+          if (isBempty || mode == 1)
+            Matrix<Scalar, Dynamic, 1>::Map(out2, n) = Matrix<Scalar, Dynamic, 1>::Map(in, n);
+          else
+            Matrix<Scalar, Dynamic, 1>::Map(out2, n) = B * Matrix<Scalar, Dynamic, 1>::Map(in, n);
+          
+          in = workd + ipntr[2] - 1;
+      }
+
+      if (mode == 1)
+      {
+        if (isBempty)
+        {
+          // OP = A
+          //
+          Matrix<Scalar, Dynamic, 1>::Map(out, n) = A * Matrix<Scalar, Dynamic, 1>::Map(in, n);
+        }
+        else
+        {
+          // OP = L^{-1}AL^{-T}
+          //
+          internal::OP<MatrixSolver, MatrixType, Scalar, BisSPD>::applyOP(OP, A, n, in, out);
+        }
+      }
+      else if (mode == 2)
+      {
+        if (ido == 1)
+          Matrix<Scalar, Dynamic, 1>::Map(in, n)  = A * Matrix<Scalar, Dynamic, 1>::Map(in, n);
+        
+        // OP = B^{-1} A
+        //
+        Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.solve(Matrix<Scalar, Dynamic, 1>::Map(in, n));
+      }
+      else if (mode == 3)
+      {
+        // OP = (A-\sigmaB)B (\sigma could be 0, and B could be I)
+        // The B * in is already computed and stored at in if ido == 1
+        //
+        if (ido == 1 || isBempty)
+          Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.solve(Matrix<Scalar, Dynamic, 1>::Map(in, n));
+        else
+          Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.solve(B * Matrix<Scalar, Dynamic, 1>::Map(in, n));
+      }
+    }
+    else if (ido == 2)
+    {
+      Scalar *in  = workd + ipntr[0] - 1;
+      Scalar *out = workd + ipntr[1] - 1;
+
+      if (isBempty || mode == 1)
+        Matrix<Scalar, Dynamic, 1>::Map(out, n) = Matrix<Scalar, Dynamic, 1>::Map(in, n);
+      else
+        Matrix<Scalar, Dynamic, 1>::Map(out, n) = B * Matrix<Scalar, Dynamic, 1>::Map(in, n);
+    }
+  } while (ido != 99);
+
+  if (info == 1)
+    m_info = NoConvergence;
+  else if (info == 3)
+    m_info = NumericalIssue;
+  else if (info < 0)
+    m_info = InvalidInput;
+  else if (info != 0)
+    eigen_assert(false && "Unknown ARPACK return value!");
+  else
+  {
+    // Do we compute eigenvectors or not?
+    //
+    int rvec = (options & ComputeEigenvectors) == ComputeEigenvectors;
+
+    // "A" means "All", use "S" to choose specific eigenvalues (not yet supported in ARPACK))
+    //
+    char howmny[2] = "A"; 
+
+    // if howmny == "S", specifies the eigenvalues to compute (not implemented in ARPACK)
+    //
+    int *select = new int[ncv];
+
+    // Final eigenvalues
+    //
+    m_eivalues.resize(nev, 1);
+
+    internal::arpack_wrapper<Scalar, RealScalar>::seupd(&rvec, howmny, select, m_eivalues.data(), v, &ldv,
+                                                        &sigma, bmat, &n, whch, &nev, &tol, resid, &ncv,
+                                                        v, &ldv, iparam, ipntr, workd, workl, &lworkl, &info);
+
+    if (info == -14)
+      m_info = NoConvergence;
+    else if (info != 0)
+      m_info = InvalidInput;
+    else
+    {
+      if (rvec)
+      {
+        m_eivec.resize(A.rows(), nev);
+        for (int i=0; i<nev; i++)
+          for (int j=0; j<n; j++)
+            m_eivec(j,i) = v[i*n+j] / scale;
+      
+        if (mode == 1 && !isBempty && BisSPD)
+          internal::OP<MatrixSolver, MatrixType, Scalar, BisSPD>::project(OP, n, nev, m_eivec.data());
+
+        m_eigenvectorsOk = true;
+      }
+
+      m_nbrIterations = iparam[2];
+      m_nbrConverged  = iparam[4];
+
+      m_info = Success;
+    }
+
+    delete select;
+  }
+
+  delete v;
+  delete iparam;
+  delete ipntr;
+  delete workd;
+  delete workl;
+  delete resid;
+
+  m_isInitialized = true;
+
+  return *this;
+}
+
+
+// Single precision
+//
+extern "C" void ssaupd_(int *ido, char *bmat, int *n, char *which,
+    int *nev, float *tol, float *resid, int *ncv,
+    float *v, int *ldv, int *iparam, int *ipntr,
+    float *workd, float *workl, int *lworkl,
+    int *info);
+
+extern "C" void sseupd_(int *rvec, char *All, int *select, float *d,
+    float *z, int *ldz, float *sigma, 
+    char *bmat, int *n, char *which, int *nev,
+    float *tol, float *resid, int *ncv, float *v,
+    int *ldv, int *iparam, int *ipntr, float *workd,
+    float *workl, int *lworkl, int *ierr);
+
+// Double precision
+//
+extern "C" void dsaupd_(int *ido, char *bmat, int *n, char *which,
+    int *nev, double *tol, double *resid, int *ncv,
+    double *v, int *ldv, int *iparam, int *ipntr,
+    double *workd, double *workl, int *lworkl,
+    int *info);
+
+extern "C" void dseupd_(int *rvec, char *All, int *select, double *d,
+    double *z, int *ldz, double *sigma, 
+    char *bmat, int *n, char *which, int *nev,
+    double *tol, double *resid, int *ncv, double *v,
+    int *ldv, int *iparam, int *ipntr, double *workd,
+    double *workl, int *lworkl, int *ierr);
+
+
+namespace internal {
+
+template<typename Scalar, typename RealScalar> struct arpack_wrapper
+{
+  static inline void saupd(int *ido, char *bmat, int *n, char *which,
+      int *nev, RealScalar *tol, Scalar *resid, int *ncv,
+      Scalar *v, int *ldv, int *iparam, int *ipntr,
+      Scalar *workd, Scalar *workl, int *lworkl, int *info)
+  { 
+    EIGEN_STATIC_ASSERT(!NumTraits<Scalar>::IsComplex, NUMERIC_TYPE_MUST_BE_REAL)
+  }
+
+  static inline void seupd(int *rvec, char *All, int *select, Scalar *d,
+      Scalar *z, int *ldz, RealScalar *sigma,
+      char *bmat, int *n, char *which, int *nev,
+      RealScalar *tol, Scalar *resid, int *ncv, Scalar *v,
+      int *ldv, int *iparam, int *ipntr, Scalar *workd,
+      Scalar *workl, int *lworkl, int *ierr)
+  {
+    EIGEN_STATIC_ASSERT(!NumTraits<Scalar>::IsComplex, NUMERIC_TYPE_MUST_BE_REAL)
+  }
+};
+
+template <> struct arpack_wrapper<float, float>
+{
+  static inline void saupd(int *ido, char *bmat, int *n, char *which,
+      int *nev, float *tol, float *resid, int *ncv,
+      float *v, int *ldv, int *iparam, int *ipntr,
+      float *workd, float *workl, int *lworkl, int *info)
+  {
+    ssaupd_(ido, bmat, n, which, nev, tol, resid, ncv, v, ldv, iparam, ipntr, workd, workl, lworkl, info);
+  }
+
+  static inline void seupd(int *rvec, char *All, int *select, float *d,
+      float *z, int *ldz, float *sigma,
+      char *bmat, int *n, char *which, int *nev,
+      float *tol, float *resid, int *ncv, float *v,
+      int *ldv, int *iparam, int *ipntr, float *workd,
+      float *workl, int *lworkl, int *ierr)
+  {
+    sseupd_(rvec, All, select, d, z, ldz, sigma, bmat, n, which, nev, tol, resid, ncv, v, ldv, iparam, ipntr,
+        workd, workl, lworkl, ierr);
+  }
+};
+
+template <> struct arpack_wrapper<double, double>
+{
+  static inline void saupd(int *ido, char *bmat, int *n, char *which,
+      int *nev, double *tol, double *resid, int *ncv,
+      double *v, int *ldv, int *iparam, int *ipntr,
+      double *workd, double *workl, int *lworkl, int *info)
+  {
+    dsaupd_(ido, bmat, n, which, nev, tol, resid, ncv, v, ldv, iparam, ipntr, workd, workl, lworkl, info);
+  }
+
+  static inline void seupd(int *rvec, char *All, int *select, double *d,
+      double *z, int *ldz, double *sigma,
+      char *bmat, int *n, char *which, int *nev,
+      double *tol, double *resid, int *ncv, double *v,
+      int *ldv, int *iparam, int *ipntr, double *workd,
+      double *workl, int *lworkl, int *ierr)
+  {
+    dseupd_(rvec, All, select, d, v, ldv, sigma, bmat, n, which, nev, tol, resid, ncv, v, ldv, iparam, ipntr,
+        workd, workl, lworkl, ierr);
+  }
+};
+
+
+template<typename MatrixSolver, typename MatrixType, typename Scalar, bool BisSPD>
+struct OP
+{
+    static inline void applyOP(MatrixSolver &OP, const MatrixType &A, int n, Scalar *in, Scalar *out);
+    static inline void project(MatrixSolver &OP, int n, int k, Scalar *vecs);
+};
+
+template<typename MatrixSolver, typename MatrixType, typename Scalar>
+struct OP<MatrixSolver, MatrixType, Scalar, true>
+{
+  static inline void applyOP(MatrixSolver &OP, const MatrixType &A, int n, Scalar *in, Scalar *out)
+{
+    // OP = L^{-1} A L^{-T}  (B = LL^T)
+    //
+    // First solve L^T out = in
+    //
+    Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.matrixU().solve(Matrix<Scalar, Dynamic, 1>::Map(in, n));
+    Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.permutationPinv() * Matrix<Scalar, Dynamic, 1>::Map(out, n);
+
+    // Then compute out = A out
+    //
+    Matrix<Scalar, Dynamic, 1>::Map(out, n) = A * Matrix<Scalar, Dynamic, 1>::Map(out, n);
+
+    // Then solve L out = out
+    //
+    Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.permutationP() * Matrix<Scalar, Dynamic, 1>::Map(out, n);
+    Matrix<Scalar, Dynamic, 1>::Map(out, n) = OP.matrixL().solve(Matrix<Scalar, Dynamic, 1>::Map(out, n));
+}
+
+  static inline void project(MatrixSolver &OP, int n, int k, Scalar *vecs)
+{
+    // Solve L^T out = in
+    //
+    Matrix<Scalar, Dynamic, Dynamic>::Map(vecs, n, k) = OP.matrixU().solve(Matrix<Scalar, Dynamic, Dynamic>::Map(vecs, n, k));
+    Matrix<Scalar, Dynamic, Dynamic>::Map(vecs, n, k) = OP.permutationPinv() * Matrix<Scalar, Dynamic, Dynamic>::Map(vecs, n, k);
+}
+
+};
+
+template<typename MatrixSolver, typename MatrixType, typename Scalar>
+struct OP<MatrixSolver, MatrixType, Scalar, false>
+{
+  static inline void applyOP(MatrixSolver &OP, const MatrixType &A, int n, Scalar *in, Scalar *out)
+{
+    eigen_assert(false && "Should never be in here...");
+}
+
+  static inline void project(MatrixSolver &OP, int n, int k, Scalar *vecs)
+{
+    eigen_assert(false && "Should never be in here...");
+}
+
+};
+
+} // end namespace internal
+
+} // end namespace Eigen
+
+#endif // EIGEN_ARPACKSELFADJOINTEIGENSOLVER_H
+

extern/Eigen3/unsupported/Eigen/src/Eigenvalues/CMakeLists.txt

@@ -0,0 +1,6 @@
+FILE(GLOB Eigen_Eigenvalues_SRCS "*.h")
+
+INSTALL(FILES
+  ${Eigen_Eigenvalues_SRCS}
+  DESTINATION ${INCLUDE_INSTALL_DIR}/unsupported/Eigen/src/Eigenvalues COMPONENT Devel
+  )

extern/Eigen3/unsupported/Eigen/src/FFT/CMakeLists.txt

@@ -0,0 +1,6 @@
+FILE(GLOB Eigen_FFT_SRCS "*.h")
+
+INSTALL(FILES
+  ${Eigen_FFT_SRCS}
+  DESTINATION ${INCLUDE_INSTALL_DIR}/unsupported/Eigen/src/FFT COMPONENT Devel
+  )

extern/Eigen3/unsupported/Eigen/src/FFT/ei_fftw_impl.h

@@ -0,0 +1,261 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra. 
+//
+// Copyright (C) 2009 Mark Borgerding mark a borgerding net
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+namespace Eigen { 
+
+namespace internal {
+
+  // FFTW uses non-const arguments
+  // so we must use ugly const_cast calls for all the args it uses
+  //
+  // This should be safe as long as 
+  // 1. we use FFTW_ESTIMATE for all our planning
+  //       see the FFTW docs section 4.3.2 "Planner Flags"
+  // 2. fftw_complex is compatible with std::complex
+  //    This assumes std::complex<T> layout is array of size 2 with real,imag
+  template <typename T> 
+  inline 
+  T * fftw_cast(const T* p)
+  { 
+      return const_cast<T*>( p); 
+  }
+
+  inline 
+  fftw_complex * fftw_cast( const std::complex<double> * p)
+  {
+      return const_cast<fftw_complex*>( reinterpret_cast<const fftw_complex*>(p) ); 
+  }
+
+  inline 
+  fftwf_complex * fftw_cast( const std::complex<float> * p)
+  { 
+      return const_cast<fftwf_complex*>( reinterpret_cast<const fftwf_complex*>(p) ); 
+  }
+
+  inline 
+  fftwl_complex * fftw_cast( const std::complex<long double> * p)
+  { 
+      return const_cast<fftwl_complex*>( reinterpret_cast<const fftwl_complex*>(p) ); 
+  }
+
+  template <typename T> 
+  struct fftw_plan {};
+
+  template <> 
+  struct fftw_plan<float>
+  {
+      typedef float scalar_type;
+      typedef fftwf_complex complex_type;
+      fftwf_plan m_plan;
+      fftw_plan() :m_plan(NULL) {}
+      ~fftw_plan() {if (m_plan) fftwf_destroy_plan(m_plan);}
+
+      inline
+      void fwd(complex_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftwf_plan_dft_1d(nfft,src,dst, FFTW_FORWARD, FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwf_execute_dft( m_plan, src,dst);
+      }
+      inline
+      void inv(complex_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftwf_plan_dft_1d(nfft,src,dst, FFTW_BACKWARD , FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwf_execute_dft( m_plan, src,dst);
+      }
+      inline
+      void fwd(complex_type * dst,scalar_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftwf_plan_dft_r2c_1d(nfft,src,dst,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwf_execute_dft_r2c( m_plan,src,dst);
+      }
+      inline
+      void inv(scalar_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL)
+              m_plan = fftwf_plan_dft_c2r_1d(nfft,src,dst,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwf_execute_dft_c2r( m_plan, src,dst);
+      }
+
+      inline 
+      void fwd2( complex_type * dst,complex_type * src,int n0,int n1) {
+          if (m_plan==NULL) m_plan = fftwf_plan_dft_2d(n0,n1,src,dst,FFTW_FORWARD,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwf_execute_dft( m_plan, src,dst);
+      }
+      inline 
+      void inv2( complex_type * dst,complex_type * src,int n0,int n1) {
+          if (m_plan==NULL) m_plan = fftwf_plan_dft_2d(n0,n1,src,dst,FFTW_BACKWARD,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwf_execute_dft( m_plan, src,dst);
+      }
+
+  };
+  template <> 
+  struct fftw_plan<double>
+  {
+      typedef double scalar_type;
+      typedef fftw_complex complex_type;
+      ::fftw_plan m_plan;
+      fftw_plan() :m_plan(NULL) {}
+      ~fftw_plan() {if (m_plan) fftw_destroy_plan(m_plan);}
+
+      inline
+      void fwd(complex_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftw_plan_dft_1d(nfft,src,dst, FFTW_FORWARD, FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftw_execute_dft( m_plan, src,dst);
+      }
+      inline
+      void inv(complex_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftw_plan_dft_1d(nfft,src,dst, FFTW_BACKWARD , FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftw_execute_dft( m_plan, src,dst);
+      }
+      inline
+      void fwd(complex_type * dst,scalar_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftw_plan_dft_r2c_1d(nfft,src,dst,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftw_execute_dft_r2c( m_plan,src,dst);
+      }
+      inline
+      void inv(scalar_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL)
+              m_plan = fftw_plan_dft_c2r_1d(nfft,src,dst,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftw_execute_dft_c2r( m_plan, src,dst);
+      }
+      inline 
+      void fwd2( complex_type * dst,complex_type * src,int n0,int n1) {
+          if (m_plan==NULL) m_plan = fftw_plan_dft_2d(n0,n1,src,dst,FFTW_FORWARD,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftw_execute_dft( m_plan, src,dst);
+      }
+      inline 
+      void inv2( complex_type * dst,complex_type * src,int n0,int n1) {
+          if (m_plan==NULL) m_plan = fftw_plan_dft_2d(n0,n1,src,dst,FFTW_BACKWARD,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftw_execute_dft( m_plan, src,dst);
+      }
+  };
+  template <> 
+  struct fftw_plan<long double>
+  {
+      typedef long double scalar_type;
+      typedef fftwl_complex complex_type;
+      fftwl_plan m_plan;
+      fftw_plan() :m_plan(NULL) {}
+      ~fftw_plan() {if (m_plan) fftwl_destroy_plan(m_plan);}
+
+      inline
+      void fwd(complex_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftwl_plan_dft_1d(nfft,src,dst, FFTW_FORWARD, FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwl_execute_dft( m_plan, src,dst);
+      }
+      inline
+      void inv(complex_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftwl_plan_dft_1d(nfft,src,dst, FFTW_BACKWARD , FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwl_execute_dft( m_plan, src,dst);
+      }
+      inline
+      void fwd(complex_type * dst,scalar_type * src,int nfft) {
+          if (m_plan==NULL) m_plan = fftwl_plan_dft_r2c_1d(nfft,src,dst,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwl_execute_dft_r2c( m_plan,src,dst);
+      }
+      inline
+      void inv(scalar_type * dst,complex_type * src,int nfft) {
+          if (m_plan==NULL)
+              m_plan = fftwl_plan_dft_c2r_1d(nfft,src,dst,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwl_execute_dft_c2r( m_plan, src,dst);
+      }
+      inline 
+      void fwd2( complex_type * dst,complex_type * src,int n0,int n1) {
+          if (m_plan==NULL) m_plan = fftwl_plan_dft_2d(n0,n1,src,dst,FFTW_FORWARD,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwl_execute_dft( m_plan, src,dst);
+      }
+      inline 
+      void inv2( complex_type * dst,complex_type * src,int n0,int n1) {
+          if (m_plan==NULL) m_plan = fftwl_plan_dft_2d(n0,n1,src,dst,FFTW_BACKWARD,FFTW_ESTIMATE|FFTW_PRESERVE_INPUT);
+          fftwl_execute_dft( m_plan, src,dst);
+      }
+  };
+
+  template <typename _Scalar>
+  struct fftw_impl
+  {
+      typedef _Scalar Scalar;
+      typedef std::complex<Scalar> Complex;
+
+      inline
+      void clear() 
+      {
+        m_plans.clear();
+      }
+
+      // complex-to-complex forward FFT
+      inline
+      void fwd( Complex * dst,const Complex *src,int nfft)
+      {
+        get_plan(nfft,false,dst,src).fwd(fftw_cast(dst), fftw_cast(src),nfft );
+      }
+
+      // real-to-complex forward FFT
+      inline
+      void fwd( Complex * dst,const Scalar * src,int nfft) 
+      {
+          get_plan(nfft,false,dst,src).fwd(fftw_cast(dst), fftw_cast(src) ,nfft);
+      }
+
+      // 2-d complex-to-complex
+      inline
+      void fwd2(Complex * dst, const Complex * src, int n0,int n1)
+      {
+          get_plan(n0,n1,false,dst,src).fwd2(fftw_cast(dst), fftw_cast(src) ,n0,n1);
+      }
+
+      // inverse complex-to-complex
+      inline
+      void inv(Complex * dst,const Complex  *src,int nfft)
+      {
+        get_plan(nfft,true,dst,src).inv(fftw_cast(dst), fftw_cast(src),nfft );
+      }
+
+      // half-complex to scalar
+      inline
+      void inv( Scalar * dst,const Complex * src,int nfft) 
+      {
+        get_plan(nfft,true,dst,src).inv(fftw_cast(dst), fftw_cast(src),nfft );
+      }
+
+      // 2-d complex-to-complex
+      inline
+      void inv2(Complex * dst, const Complex * src, int n0,int n1)
+      {
+        get_plan(n0,n1,true,dst,src).inv2(fftw_cast(dst), fftw_cast(src) ,n0,n1);
+      }
+
+
+  protected:
+      typedef fftw_plan<Scalar> PlanData;
+
+      typedef std::map<int64_t,PlanData> PlanMap;
+
+      PlanMap m_plans;
+
+      inline
+      PlanData & get_plan(int nfft,bool inverse,void * dst,const void * src)
+      {
+          bool inplace = (dst==src);
+          bool aligned = ( (reinterpret_cast<size_t>(src)&15) | (reinterpret_cast<size_t>(dst)&15) ) == 0;
+          int64_t key = ( (nfft<<3 ) | (inverse<<2) | (inplace<<1) | aligned ) << 1;
+          return m_plans[key];
+      }
+
+      inline
+      PlanData & get_plan(int n0,int n1,bool inverse,void * dst,const void * src)
+      {
+          bool inplace = (dst==src);
+          bool aligned = ( (reinterpret_cast<size_t>(src)&15) | (reinterpret_cast<size_t>(dst)&15) ) == 0;
+          int64_t key = ( ( (((int64_t)n0) << 30)|(n1<<3 ) | (inverse<<2) | (inplace<<1) | aligned ) << 1 ) + 1;
+          return m_plans[key];
+      }
+  };
+
+} // end namespace internal
+
+} // end namespace Eigen
+
+/* vim: set filetype=cpp et sw=2 ts=2 ai: */

extern/Eigen3/unsupported/Eigen/src/FFT/ei_kissfft_impl.h

@@ -0,0 +1,420 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2009 Mark Borgerding mark a borgerding net
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+namespace Eigen { 
+
+namespace internal {
+
+  // This FFT implementation was derived from kissfft http:sourceforge.net/projects/kissfft
+  // Copyright 2003-2009 Mark Borgerding
+
+template <typename _Scalar>
+struct kiss_cpx_fft
+{
+  typedef _Scalar Scalar;
+  typedef std::complex<Scalar> Complex;
+  std::vector<Complex> m_twiddles;
+  std::vector<int> m_stageRadix;
+  std::vector<int> m_stageRemainder;
+  std::vector<Complex> m_scratchBuf;
+  bool m_inverse;
+
+  inline
+    void make_twiddles(int nfft,bool inverse)
+    {
+      using std::acos;
+      m_inverse = inverse;
+      m_twiddles.resize(nfft);
+      Scalar phinc =  (inverse?2:-2)* acos( (Scalar) -1)  / nfft;
+      for (int i=0;i<nfft;++i)
+        m_twiddles[i] = exp( Complex(0,i*phinc) );
+    }
+
+  void factorize(int nfft)
+  {
+    //start factoring out 4's, then 2's, then 3,5,7,9,...
+    int n= nfft;
+    int p=4;
+    do {
+      while (n % p) {
+        switch (p) {
+          case 4: p = 2; break;
+          case 2: p = 3; break;
+          default: p += 2; break;
+        }
+        if (p*p>n)
+          p=n;// impossible to have a factor > sqrt(n)
+      }
+      n /= p;
+      m_stageRadix.push_back(p);
+      m_stageRemainder.push_back(n);
+      if ( p > 5 )
+        m_scratchBuf.resize(p); // scratchbuf will be needed in bfly_generic
+    }while(n>1);
+  }
+
+  template <typename _Src>
+    inline
+    void work( int stage,Complex * xout, const _Src * xin, size_t fstride,size_t in_stride)
+    {
+      int p = m_stageRadix[stage];
+      int m = m_stageRemainder[stage];
+      Complex * Fout_beg = xout;
+      Complex * Fout_end = xout + p*m;
+
+      if (m>1) {
+        do{
+          // recursive call:
+          // DFT of size m*p performed by doing
+          // p instances of smaller DFTs of size m, 
+          // each one takes a decimated version of the input
+          work(stage+1, xout , xin, fstride*p,in_stride);
+          xin += fstride*in_stride;
+        }while( (xout += m) != Fout_end );
+      }else{
+        do{
+          *xout = *xin;
+          xin += fstride*in_stride;
+        }while(++xout != Fout_end );
+      }
+      xout=Fout_beg;
+
+      // recombine the p smaller DFTs 
+      switch (p) {
+        case 2: bfly2(xout,fstride,m); break;
+        case 3: bfly3(xout,fstride,m); break;
+        case 4: bfly4(xout,fstride,m); break;
+        case 5: bfly5(xout,fstride,m); break;
+        default: bfly_generic(xout,fstride,m,p); break;
+      }
+    }
+
+  inline
+    void bfly2( Complex * Fout, const size_t fstride, int m)
+    {
+      for (int k=0;k<m;++k) {
+        Complex t = Fout[m+k] * m_twiddles[k*fstride];
+        Fout[m+k] = Fout[k] - t;
+        Fout[k] += t;
+      }
+    }
+
+  inline
+    void bfly4( Complex * Fout, const size_t fstride, const size_t m)
+    {
+      Complex scratch[6];
+      int negative_if_inverse = m_inverse * -2 +1;
+      for (size_t k=0;k<m;++k) {
+        scratch[0] = Fout[k+m] * m_twiddles[k*fstride];
+        scratch[1] = Fout[k+2*m] * m_twiddles[k*fstride*2];
+        scratch[2] = Fout[k+3*m] * m_twiddles[k*fstride*3];
+        scratch[5] = Fout[k] - scratch[1];
+
+        Fout[k] += scratch[1];
+        scratch[3] = scratch[0] + scratch[2];
+        scratch[4] = scratch[0] - scratch[2];
+        scratch[4] = Complex( scratch[4].imag()*negative_if_inverse , -scratch[4].real()* negative_if_inverse );
+
+        Fout[k+2*m]  = Fout[k] - scratch[3];
+        Fout[k] += scratch[3];
+        Fout[k+m] = scratch[5] + scratch[4];
+        Fout[k+3*m] = scratch[5] - scratch[4];
+      }
+    }
+
+  inline
+    void bfly3( Complex * Fout, const size_t fstride, const size_t m)
+    {
+      size_t k=m;
+      const size_t m2 = 2*m;
+      Complex *tw1,*tw2;
+      Complex scratch[5];
+      Complex epi3;
+      epi3 = m_twiddles[fstride*m];
+
+      tw1=tw2=&m_twiddles[0];
+
+      do{
+        scratch[1]=Fout[m] * *tw1;
+        scratch[2]=Fout[m2] * *tw2;
+
+        scratch[3]=scratch[1]+scratch[2];
+        scratch[0]=scratch[1]-scratch[2];
+        tw1 += fstride;
+        tw2 += fstride*2;
+        Fout[m] = Complex( Fout->real() - Scalar(.5)*scratch[3].real() , Fout->imag() - Scalar(.5)*scratch[3].imag() );
+        scratch[0] *= epi3.imag();
+        *Fout += scratch[3];
+        Fout[m2] = Complex(  Fout[m].real() + scratch[0].imag() , Fout[m].imag() - scratch[0].real() );
+        Fout[m] += Complex( -scratch[0].imag(),scratch[0].real() );
+        ++Fout;
+      }while(--k);
+    }
+
+  inline
+    void bfly5( Complex * Fout, const size_t fstride, const size_t m)
+    {
+      Complex *Fout0,*Fout1,*Fout2,*Fout3,*Fout4;
+      size_t u;
+      Complex scratch[13];
+      Complex * twiddles = &m_twiddles[0];
+      Complex *tw;
+      Complex ya,yb;
+      ya = twiddles[fstride*m];
+      yb = twiddles[fstride*2*m];
+
+      Fout0=Fout;
+      Fout1=Fout0+m;
+      Fout2=Fout0+2*m;
+      Fout3=Fout0+3*m;
+      Fout4=Fout0+4*m;
+
+      tw=twiddles;
+      for ( u=0; u<m; ++u ) {
+        scratch[0] = *Fout0;
+
+        scratch[1]  = *Fout1 * tw[u*fstride];
+        scratch[2]  = *Fout2 * tw[2*u*fstride];
+        scratch[3]  = *Fout3 * tw[3*u*fstride];
+        scratch[4]  = *Fout4 * tw[4*u*fstride];
+
+        scratch[7] = scratch[1] + scratch[4];
+        scratch[10] = scratch[1] - scratch[4];
+        scratch[8] = scratch[2] + scratch[3];
+        scratch[9] = scratch[2] - scratch[3];
+
+        *Fout0 +=  scratch[7];
+        *Fout0 +=  scratch[8];
+
+        scratch[5] = scratch[0] + Complex(
+            (scratch[7].real()*ya.real() ) + (scratch[8].real() *yb.real() ),
+            (scratch[7].imag()*ya.real()) + (scratch[8].imag()*yb.real())
+            );
+
+        scratch[6] = Complex(
+            (scratch[10].imag()*ya.imag()) + (scratch[9].imag()*yb.imag()),
+            -(scratch[10].real()*ya.imag()) - (scratch[9].real()*yb.imag())
+            );
+
+        *Fout1 = scratch[5] - scratch[6];
+        *Fout4 = scratch[5] + scratch[6];
+
+        scratch[11] = scratch[0] +
+          Complex(
+              (scratch[7].real()*yb.real()) + (scratch[8].real()*ya.real()),
+              (scratch[7].imag()*yb.real()) + (scratch[8].imag()*ya.real())
+              );
+
+        scratch[12] = Complex(
+            -(scratch[10].imag()*yb.imag()) + (scratch[9].imag()*ya.imag()),
+            (scratch[10].real()*yb.imag()) - (scratch[9].real()*ya.imag())
+            );
+
+        *Fout2=scratch[11]+scratch[12];
+        *Fout3=scratch[11]-scratch[12];
+
+        ++Fout0;++Fout1;++Fout2;++Fout3;++Fout4;
+      }
+    }
+
+  /* perform the butterfly for one stage of a mixed radix FFT */
+  inline
+    void bfly_generic(
+        Complex * Fout,
+        const size_t fstride,
+        int m,
+        int p
+        )
+    {
+      int u,k,q1,q;
+      Complex * twiddles = &m_twiddles[0];
+      Complex t;
+      int Norig = static_cast<int>(m_twiddles.size());
+      Complex * scratchbuf = &m_scratchBuf[0];
+
+      for ( u=0; u<m; ++u ) {
+        k=u;
+        for ( q1=0 ; q1<p ; ++q1 ) {
+          scratchbuf[q1] = Fout[ k  ];
+          k += m;
+        }
+
+        k=u;
+        for ( q1=0 ; q1<p ; ++q1 ) {
+          int twidx=0;
+          Fout[ k ] = scratchbuf[0];
+          for (q=1;q<p;++q ) {
+            twidx += static_cast<int>(fstride) * k;
+            if (twidx>=Norig) twidx-=Norig;
+            t=scratchbuf[q] * twiddles[twidx];
+            Fout[ k ] += t;
+          }
+          k += m;
+        }
+      }
+    }
+};
+
+template <typename _Scalar>
+struct kissfft_impl
+{
+  typedef _Scalar Scalar;
+  typedef std::complex<Scalar> Complex;
+
+  void clear() 
+  {
+    m_plans.clear();
+    m_realTwiddles.clear();
+  }
+
+  inline
+    void fwd( Complex * dst,const Complex *src,int nfft)
+    {
+      get_plan(nfft,false).work(0, dst, src, 1,1);
+    }
+
+  inline
+    void fwd2( Complex * dst,const Complex *src,int n0,int n1)
+    {
+        EIGEN_UNUSED_VARIABLE(dst);
+        EIGEN_UNUSED_VARIABLE(src);
+        EIGEN_UNUSED_VARIABLE(n0);
+        EIGEN_UNUSED_VARIABLE(n1);
+    }
+
+  inline
+    void inv2( Complex * dst,const Complex *src,int n0,int n1)
+    {
+        EIGEN_UNUSED_VARIABLE(dst);
+        EIGEN_UNUSED_VARIABLE(src);
+        EIGEN_UNUSED_VARIABLE(n0);
+        EIGEN_UNUSED_VARIABLE(n1);
+    }
+
+  // real-to-complex forward FFT
+  // perform two FFTs of src even and src odd
+  // then twiddle to recombine them into the half-spectrum format
+  // then fill in the conjugate symmetric half
+  inline
+    void fwd( Complex * dst,const Scalar * src,int nfft) 
+    {
+      if ( nfft&3  ) {
+        // use generic mode for odd
+        m_tmpBuf1.resize(nfft);
+        get_plan(nfft,false).work(0, &m_tmpBuf1[0], src, 1,1);
+        std::copy(m_tmpBuf1.begin(),m_tmpBuf1.begin()+(nfft>>1)+1,dst );
+      }else{
+        int ncfft = nfft>>1;
+        int ncfft2 = nfft>>2;
+        Complex * rtw = real_twiddles(ncfft2);
+
+        // use optimized mode for even real
+        fwd( dst, reinterpret_cast<const Complex*> (src), ncfft);
+        Complex dc = dst[0].real() +  dst[0].imag();
+        Complex nyquist = dst[0].real() -  dst[0].imag();
+        int k;
+        for ( k=1;k <= ncfft2 ; ++k ) {
+          Complex fpk = dst[k];
+          Complex fpnk = conj(dst[ncfft-k]);
+          Complex f1k = fpk + fpnk;
+          Complex f2k = fpk - fpnk;
+          Complex tw= f2k * rtw[k-1];
+          dst[k] =  (f1k + tw) * Scalar(.5);
+          dst[ncfft-k] =  conj(f1k -tw)*Scalar(.5);
+        }
+        dst[0] = dc;
+        dst[ncfft] = nyquist;
+      }
+    }
+
+  // inverse complex-to-complex
+  inline
+    void inv(Complex * dst,const Complex  *src,int nfft)
+    {
+      get_plan(nfft,true).work(0, dst, src, 1,1);
+    }
+
+  // half-complex to scalar
+  inline
+    void inv( Scalar * dst,const Complex * src,int nfft) 
+    {
+      if (nfft&3) {
+        m_tmpBuf1.resize(nfft);
+        m_tmpBuf2.resize(nfft);
+        std::copy(src,src+(nfft>>1)+1,m_tmpBuf1.begin() );
+        for (int k=1;k<(nfft>>1)+1;++k)
+          m_tmpBuf1[nfft-k] = conj(m_tmpBuf1[k]);
+        inv(&m_tmpBuf2[0],&m_tmpBuf1[0],nfft);
+        for (int k=0;k<nfft;++k)
+          dst[k] = m_tmpBuf2[k].real();
+      }else{
+        // optimized version for multiple of 4
+        int ncfft = nfft>>1;
+        int ncfft2 = nfft>>2;
+        Complex * rtw = real_twiddles(ncfft2);
+        m_tmpBuf1.resize(ncfft);
+        m_tmpBuf1[0] = Complex( src[0].real() + src[ncfft].real(), src[0].real() - src[ncfft].real() );
+        for (int k = 1; k <= ncfft / 2; ++k) {
+          Complex fk = src[k];
+          Complex fnkc = conj(src[ncfft-k]);
+          Complex fek = fk + fnkc;
+          Complex tmp = fk - fnkc;
+          Complex fok = tmp * conj(rtw[k-1]);
+          m_tmpBuf1[k] = fek + fok;
+          m_tmpBuf1[ncfft-k] = conj(fek - fok);
+        }
+        get_plan(ncfft,true).work(0, reinterpret_cast<Complex*>(dst), &m_tmpBuf1[0], 1,1);
+      }
+    }
+
+  protected:
+  typedef kiss_cpx_fft<Scalar> PlanData;
+  typedef std::map<int,PlanData> PlanMap;
+
+  PlanMap m_plans;
+  std::map<int, std::vector<Complex> > m_realTwiddles;
+  std::vector<Complex> m_tmpBuf1;
+  std::vector<Complex> m_tmpBuf2;
+
+  inline
+    int PlanKey(int nfft, bool isinverse) const { return (nfft<<1) | int(isinverse); }
+
+  inline
+    PlanData & get_plan(int nfft, bool inverse)
+    {
+      // TODO look for PlanKey(nfft, ! inverse) and conjugate the twiddles
+      PlanData & pd = m_plans[ PlanKey(nfft,inverse) ];
+      if ( pd.m_twiddles.size() == 0 ) {
+        pd.make_twiddles(nfft,inverse);
+        pd.factorize(nfft);
+      }
+      return pd;
+    }
+
+  inline
+    Complex * real_twiddles(int ncfft2)
+    {
+      using std::acos;
+      std::vector<Complex> & twidref = m_realTwiddles[ncfft2];// creates new if not there
+      if ( (int)twidref.size() != ncfft2 ) {
+        twidref.resize(ncfft2);
+        int ncfft= ncfft2<<1;
+        Scalar pi =  acos( Scalar(-1) );
+        for (int k=1;k<=ncfft2;++k) 
+          twidref[k-1] = exp( Complex(0,-pi * (Scalar(k) / ncfft + Scalar(.5)) ) );
+      }
+      return &twidref[0];
+    }
+};
+
+} // end namespace internal
+
+} // end namespace Eigen
+
+/* vim: set filetype=cpp et sw=2 ts=2 ai: */

extern/Eigen3/unsupported/Eigen/src/IterativeSolvers/CMakeLists.txt

@@ -0,0 +1,6 @@
+FILE(GLOB Eigen_IterativeSolvers_SRCS "*.h")
+
+INSTALL(FILES
+  ${Eigen_IterativeSolvers_SRCS}
+  DESTINATION ${INCLUDE_INSTALL_DIR}/unsupported/Eigen/src/IterativeSolvers COMPONENT Devel
+  )

extern/Eigen3/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h

@@ -0,0 +1,189 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
+
+/* NOTE The functions of this file have been adapted from the GMM++ library */
+
+//========================================================================
+//
+// Copyright (C) 2002-2007 Yves Renard
+//
+// This file is a part of GETFEM++
+//
+// Getfem++ 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; version 2.1 of the License.
+//
+// This program is distributed in the hope that it will be useful,
+// but WITHOUT ANY WARRANTY; without even the implied warranty of
+// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+// GNU Lesser General Public License for more details.
+// You should have received a copy of the GNU Lesser General Public
+// License along with this program; if not, write to the Free Software
+// Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301,
+// USA.
+//
+//========================================================================
+
+#include "../../../../Eigen/src/Core/util/NonMPL2.h"
+
+#ifndef EIGEN_CONSTRAINEDCG_H
+#define EIGEN_CONSTRAINEDCG_H
+
+#include <Eigen/Core>
+
+namespace Eigen { 
+
+namespace internal {
+
+/** \ingroup IterativeSolvers_Module
+  * Compute the pseudo inverse of the non-square matrix C such that
+  * \f$ CINV = (C * C^T)^{-1} * C \f$ based on a conjugate gradient method.
+  *
+  * This function is internally used by constrained_cg.
+  */
+template <typename CMatrix, typename CINVMatrix>
+void pseudo_inverse(const CMatrix &C, CINVMatrix &CINV)
+{
+  // optimisable : copie de la ligne, precalcul de C * trans(C).
+  typedef typename CMatrix::Scalar Scalar;
+  typedef typename CMatrix::Index Index;
+  // FIXME use sparse vectors ?
+  typedef Matrix<Scalar,Dynamic,1> TmpVec;
+
+  Index rows = C.rows(), cols = C.cols();
+
+  TmpVec d(rows), e(rows), l(cols), p(rows), q(rows), r(rows);
+  Scalar rho, rho_1, alpha;
+  d.setZero();
+
+  typedef Triplet<double> T;
+  std::vector<T> tripletList;
+    
+  for (Index i = 0; i < rows; ++i)
+  {
+    d[i] = 1.0;
+    rho = 1.0;
+    e.setZero();
+    r = d;
+    p = d;
+
+    while (rho >= 1e-38)
+    { /* conjugate gradient to compute e             */
+      /* which is the i-th row of inv(C * trans(C))  */
+      l = C.transpose() * p;
+      q = C * l;
+      alpha = rho / p.dot(q);
+      e +=  alpha * p;
+      r += -alpha * q;
+      rho_1 = rho;
+      rho = r.dot(r);
+      p = (rho/rho_1) * p + r;
+    }
+
+    l = C.transpose() * e; // l is the i-th row of CINV
+    // FIXME add a generic "prune/filter" expression for both dense and sparse object to sparse
+    for (Index j=0; j<l.size(); ++j)
+      if (l[j]<1e-15)
+	tripletList.push_back(T(i,j,l(j)));
+
+	
+    d[i] = 0.0;
+  }
+  CINV.setFromTriplets(tripletList.begin(), tripletList.end());
+}
+
+
+
+/** \ingroup IterativeSolvers_Module
+  * Constrained conjugate gradient
+  *
+  * Computes the minimum of \f$ 1/2((Ax).x) - bx \f$ under the contraint \f$ Cx \le f \f$
+  */
+template<typename TMatrix, typename CMatrix,
+         typename VectorX, typename VectorB, typename VectorF>
+void constrained_cg(const TMatrix& A, const CMatrix& C, VectorX& x,
+                       const VectorB& b, const VectorF& f, IterationController &iter)
+{
+  using std::sqrt;
+  typedef typename TMatrix::Scalar Scalar;
+  typedef typename TMatrix::Index Index;
+  typedef Matrix<Scalar,Dynamic,1>  TmpVec;
+
+  Scalar rho = 1.0, rho_1, lambda, gamma;
+  Index xSize = x.size();
+  TmpVec  p(xSize), q(xSize), q2(xSize),
+          r(xSize), old_z(xSize), z(xSize),
+          memox(xSize);
+  std::vector<bool> satured(C.rows());
+  p.setZero();
+  iter.setRhsNorm(sqrt(b.dot(b))); // gael vect_sp(PS, b, b)
+  if (iter.rhsNorm() == 0.0) iter.setRhsNorm(1.0);
+
+  SparseMatrix<Scalar,RowMajor> CINV(C.rows(), C.cols());
+  pseudo_inverse(C, CINV);
+
+  while(true)
+  {
+    // computation of residual
+    old_z = z;
+    memox = x;
+    r = b;
+    r += A * -x;
+    z = r;
+    bool transition = false;
+    for (Index i = 0; i < C.rows(); ++i)
+    {
+      Scalar al = C.row(i).dot(x) - f.coeff(i);
+      if (al >= -1.0E-15)
+      {
+        if (!satured[i])
+        {
+          satured[i] = true;
+          transition = true;
+        }
+        Scalar bb = CINV.row(i).dot(z);
+        if (bb > 0.0)
+          // FIXME: we should allow that: z += -bb * C.row(i);
+          for (typename CMatrix::InnerIterator it(C,i); it; ++it)
+            z.coeffRef(it.index()) -= bb*it.value();
+      }
+      else
+        satured[i] = false;
+    }
+
+    // descent direction
+    rho_1 = rho;
+    rho = r.dot(z);
+
+    if (iter.finished(rho)) break;
+
+    if (iter.noiseLevel() > 0 && transition) std::cerr << "CCG: transition\n";
+    if (transition || iter.first()) gamma = 0.0;
+    else gamma = (std::max)(0.0, (rho - old_z.dot(z)) / rho_1);
+    p = z + gamma*p;
+
+    ++iter;
+    // one dimensionnal optimization
+    q = A * p;
+    lambda = rho / q.dot(p);
+    for (Index i = 0; i < C.rows(); ++i)
+    {
+      if (!satured[i])
+      {
+        Scalar bb = C.row(i).dot(p) - f[i];
+        if (bb > 0.0)
+          lambda = (std::min)(lambda, (f.coeff(i)-C.row(i).dot(x)) / bb);
+      }
+    }
+    x += lambda * p;
+    memox -= x;
+  }
+}
+
+} // end namespace internal
+
+} // end namespace Eigen
+
+#endif // EIGEN_CONSTRAINEDCG_H

extern/Eigen3/unsupported/Eigen/src/IterativeSolvers/DGMRES.h

@@ -0,0 +1,542 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// Copyright (C) 2012 Désiré Nuentsa-Wakam <desire.nuentsa_wakam@inria.fr>
+//
+// This Source Code Form is subject to the terms of the Mozilla
+// Public License v. 2.0. If a copy of the MPL was not distributed
+// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
+
+#ifndef EIGEN_DGMRES_H
+#define EIGEN_DGMRES_H
+
+#include <Eigen/Eigenvalues>
+
+namespace Eigen { 
+  
+template< typename _MatrixType,
+          typename _Preconditioner = DiagonalPreconditioner<typename _MatrixType::Scalar> >
+class DGMRES;
+
+namespace internal {
+
+template< typename _MatrixType, typename _Preconditioner>
+struct traits<DGMRES<_MatrixType,_Preconditioner> >
+{
+  typedef _MatrixType MatrixType;
+  typedef _Preconditioner Preconditioner;
+};
+
+/** \brief Computes a permutation vector to have a sorted sequence
+  * \param vec The vector to reorder.
+  * \param perm gives the sorted sequence on output. Must be initialized with 0..n-1
+  * \param ncut Put  the ncut smallest elements at the end of the vector
+  * WARNING This is an expensive sort, so should be used only 
+  * for small size vectors
+  * TODO Use modified QuickSplit or std::nth_element to get the smallest values 
+  */
+template <typename VectorType, typename IndexType>
+void sortWithPermutation (VectorType& vec, IndexType& perm, typename IndexType::Scalar& ncut)
+{
+  eigen_assert(vec.size() == perm.size());
+  typedef typename IndexType::Scalar Index; 
+  typedef typename VectorType::Scalar Scalar; 
+  bool flag; 
+  for (Index k  = 0; k < ncut; k++)
+  {
+    flag = false;
+    for (Index j = 0; j < vec.size()-1; j++)
+    {
+      if ( vec(perm(j)) < vec(perm(j+1)) )
+      {
+        std::swap(perm(j),perm(j+1)); 
+        flag = true;
+      }
+      if (!flag) break; // The vector is in sorted order
+    }
+  }
+}
+
+}
+/**
+ * \ingroup IterativeLInearSolvers_Module
+ * \brief A Restarted GMRES with deflation.
+ * This class implements a modification of the GMRES solver for
+ * sparse linear systems. The basis is built with modified 
+ * Gram-Schmidt. At each restart, a few approximated eigenvectors
+ * corresponding to the smallest eigenvalues are used to build a
+ * preconditioner for the next cycle. This preconditioner 
+ * for deflation can be combined with any other preconditioner, 
+ * the IncompleteLUT for instance. The preconditioner is applied 
+ * at right of the matrix and the combination is multiplicative.
+ * 
+ * \tparam _MatrixType the type of the sparse matrix A, can be a dense or a sparse matrix.
+ * \tparam _Preconditioner the type of the preconditioner. Default is DiagonalPreconditioner
+ * Typical usage :
+ * \code
+ * SparseMatrix<double> A;
+ * VectorXd x, b; 
+ * //Fill A and b ...
+ * DGMRES<SparseMatrix<double> > solver;
+ * solver.set_restart(30); // Set restarting value
+ * solver.setEigenv(1); // Set the number of eigenvalues to deflate
+ * solver.compute(A);
+ * x = solver.solve(b);
+ * \endcode
+ * 
+ * References :
+ * [1] D. NUENTSA WAKAM and F. PACULL, Memory Efficient Hybrid
+ *  Algebraic Solvers for Linear Systems Arising from Compressible
+ *  Flows, Computers and Fluids, In Press,
+ *  http://dx.doi.org/10.1016/j.compfluid.2012.03.023   
+ * [2] K. Burrage and J. Erhel, On the performance of various 
+ * adaptive preconditioned GMRES strategies, 5(1998), 101-121.
+ * [3] J. Erhel, K. Burrage and B. Pohl, Restarted GMRES 
+ *  preconditioned by deflation,J. Computational and Applied
+ *  Mathematics, 69(1996), 303-318. 
+
+ * 
+ */
+template< typename _MatrixType, typename _Preconditioner>
+class DGMRES : public IterativeSolverBase<DGMRES<_MatrixType,_Preconditioner> >
+{
+    typedef IterativeSolverBase<DGMRES> Base;
+    using Base::mp_matrix;
+    using Base::m_error;
+    using Base::m_iterations;
+    using Base::m_info;
+    using Base::m_isInitialized;
+    using Base::m_tolerance; 
+  public:
+    typedef _MatrixType MatrixType;
+    typedef typename MatrixType::Scalar Scalar;
+    typedef typename MatrixType::Index Index;
+    typedef typename MatrixType::RealScalar RealScalar;
+    typedef _Preconditioner Preconditioner;
+    typedef Matrix<Scalar,Dynamic,Dynamic> DenseMatrix; 
+    typedef Matrix<RealScalar,Dynamic,Dynamic> DenseRealMatrix; 
+    typedef Matrix<Scalar,Dynamic,1> DenseVector;
+    typedef Matrix<RealScalar,Dynamic,1> DenseRealVector; 
+    typedef Matrix<std::complex<RealScalar>, Dynamic, 1> ComplexVector;
+ 
+    
+  /** Default constructor. */
+  DGMRES() : Base(),m_restart(30),m_neig(0),m_r(0),m_maxNeig(5),m_isDeflAllocated(false),m_isDeflInitialized(false) {}
+
+  /** Initialize the solver with matrix \a A for further \c Ax=b solving.
+    * 
+    * This constructor is a shortcut for the default constructor followed
+    * by a call to compute().
+    * 
+    * \warning this class stores a reference to the matrix A as well as some
+    * precomputed values that depend on it. Therefore, if \a A is changed
+    * this class becomes invalid. Call compute() to update it with the new
+    * matrix A, or modify a copy of A.
+    */
+  template<typename MatrixDerived>
+  explicit DGMRES(const EigenBase<MatrixDerived>& A) : Base(A.derived()), m_restart(30),m_neig(0),m_r(0),m_maxNeig(5),m_isDeflAllocated(false),m_isDeflInitialized(false) {}
+
+  ~DGMRES() {}
+  
+  /** \returns the solution x of \f$ A x = b \f$ using the current decomposition of A
+    * \a x0 as an initial solution.
+    *
+    * \sa compute()
+    */
+  template<typename Rhs,typename Guess>
+  inline const internal::solve_retval_with_guess<DGMRES, Rhs, Guess>
+  solveWithGuess(const MatrixBase<Rhs>& b, const Guess& x0) const
+  {
+    eigen_assert(m_isInitialized && "DGMRES is not initialized.");
+    eigen_assert(Base::rows()==b.rows()
+              && "DGMRES::solve(): invalid number of rows of the right hand side matrix b");
+    return internal::solve_retval_with_guess
+            <DGMRES, Rhs, Guess>(*this, b.derived(), x0);
+  }
+  
+  /** \internal */
+  template<typename Rhs,typename Dest>
+  void _solveWithGuess(const Rhs& b, Dest& x) const
+  {    
+    bool failed = false;
+    for(int j=0; j<b.cols(); ++j)
+    {
+      m_iterations = Base::maxIterations();
+      m_error = Base::m_tolerance;
+      
+      typename Dest::ColXpr xj(x,j);
+      dgmres(*mp_matrix, b.col(j), xj, Base::m_preconditioner);
+    }
+    m_info = failed ? NumericalIssue
+           : m_error <= Base::m_tolerance ? Success
+           : NoConvergence;
+    m_isInitialized = true;
+  }
+
+  /** \internal */
+  template<typename Rhs,typename Dest>
+  void _solve(const Rhs& b, Dest& x) const
+  {
+    x = b;
+    _solveWithGuess(b,x);
+  }
+  /** 
+   * Get the restart value
+    */
+  int restart() { return m_restart; }
+  
+  /** 
+   * Set the restart value (default is 30)  
+   */
+  void set_restart(const int restart) { m_restart=restart; }
+  
+  /** 
+   * Set the number of eigenvalues to deflate at each restart 
+   */
+  void setEigenv(const int neig) 
+  {
+    m_neig = neig;
+    if (neig+1 > m_maxNeig) m_maxNeig = neig+1; // To allow for complex conjugates
+  }
+  
+  /** 
+   * Get the size of the deflation subspace size
+   */ 
+  int deflSize() {return m_r; }
+  
+  /**
+   * Set the maximum size of the deflation subspace
+   */
+  void setMaxEigenv(const int maxNeig) { m_maxNeig = maxNeig; }
+  
+  protected:
+    // DGMRES algorithm 
+    template<typename Rhs, typename Dest>
+    void dgmres(const MatrixType& mat,const Rhs& rhs, Dest& x, const Preconditioner& precond) const;
+    // Perform one cycle of GMRES
+    template<typename Dest>
+    int dgmresCycle(const MatrixType& mat, const Preconditioner& precond, Dest& x, DenseVector& r0, RealScalar& beta, const RealScalar& normRhs, int& nbIts) const; 
+    // Compute data to use for deflation 
+    int dgmresComputeDeflationData(const MatrixType& mat, const Preconditioner& precond, const Index& it, Index& neig) const;
+    // Apply deflation to a vector
+    template<typename RhsType, typename DestType>
+    int dgmresApplyDeflation(const RhsType& In, DestType& Out) const; 
+    ComplexVector schurValues(const ComplexSchur<DenseMatrix>& schurofH) const;
+    ComplexVector schurValues(const RealSchur<DenseMatrix>& schurofH) const;
+    // Init data for deflation
+    void dgmresInitDeflation(Index& rows) const; 
+    mutable DenseMatrix m_V; // Krylov basis vectors
+    mutable DenseMatrix m_H; // Hessenberg matrix 
+    mutable DenseMatrix m_Hes; // Initial hessenberg matrix wihout Givens rotations applied
+    mutable Index m_restart; // Maximum size of the Krylov subspace
+    mutable DenseMatrix m_U; // Vectors that form the basis of the invariant subspace 
+    mutable DenseMatrix m_MU; // matrix operator applied to m_U (for next cycles)
+    mutable DenseMatrix m_T; /* T=U^T*M^{-1}*A*U */
+    mutable PartialPivLU<DenseMatrix> m_luT; // LU factorization of m_T
+    mutable int m_neig; //Number of eigenvalues to extract at each restart
+    mutable int m_r; // Current number of deflated eigenvalues, size of m_U
+    mutable int m_maxNeig; // Maximum number of eigenvalues to deflate
+    mutable RealScalar m_lambdaN; //Modulus of the largest eigenvalue of A
+    mutable bool m_isDeflAllocated;
+    mutable bool m_isDeflInitialized;
+    
+    //Adaptive strategy 
+    mutable RealScalar m_smv; // Smaller multiple of the remaining number of steps allowed
+    mutable bool m_force; // Force the use of deflation at each restart
+    
+}; 
+/** 
+ * \brief Perform several cycles of restarted GMRES with modified Gram Schmidt, 
+ * 
+ * A right preconditioner is used combined with deflation.
+ * 
+ */
+template< typename _MatrixType, typename _Preconditioner>
+template<typename Rhs, typename Dest>
+void DGMRES<_MatrixType, _Preconditioner>::dgmres(const MatrixType& mat,const Rhs& rhs, Dest& x,
+              const Preconditioner& precond) const
+{
+  //Initialization
+  int n = mat.rows(); 
+  DenseVector r0(n); 
+  int nbIts = 0; 
+  m_H.resize(m_restart+1, m_restart);
+  m_Hes.resize(m_restart, m_restart);
+  m_V.resize(n,m_restart+1);
+  //Initial residual vector and intial norm
+  x = precond.solve(x);
+  r0 = rhs - mat * x; 
+  RealScalar beta = r0.norm(); 
+  RealScalar normRhs = rhs.norm();
+  m_error = beta/normRhs; 
+  if(m_error < m_tolerance)
+    m_info = Success; 
+  else
+    m_info = NoConvergence;
+  
+  // Iterative process
+  while (nbIts < m_iterations && m_info == NoConvergence)
+  {
+    dgmresCycle(mat, precond, x, r0, beta, normRhs, nbIts); 
+    
+    // Compute the new residual vector for the restart 
+    if (nbIts < m_iterations && m_info == NoConvergence)
+      r0 = rhs - mat * x; 
+  }
+} 
+
+/**
+ * \brief Perform one restart cycle of DGMRES
+ * \param mat The coefficient matrix
+ * \param precond The preconditioner
+ * \param x the new approximated solution
+ * \param r0 The initial residual vector
+ * \param beta The norm of the residual computed so far
+ * \param normRhs The norm of the right hand side vector
+ * \param nbIts The number of iterations
+ */
+template< typename _MatrixType, typename _Preconditioner>
+template<typename Dest>
+int DGMRES<_MatrixType, _Preconditioner>::dgmresCycle(const MatrixType& mat, const Preconditioner& precond, Dest& x, DenseVector& r0, RealScalar& beta, const RealScalar& normRhs, int& nbIts) const
+{
+  //Initialization 
+  DenseVector g(m_restart+1); // Right hand side of the least square problem
+  g.setZero();  
+  g(0) = Scalar(beta); 
+  m_V.col(0) = r0/beta; 
+  m_info = NoConvergence; 
+  std::vector<JacobiRotation<Scalar> >gr(m_restart); // Givens rotations
+  int it = 0; // Number of inner iterations 
+  int n = mat.rows();
+  DenseVector tv1(n), tv2(n);  //Temporary vectors
+  while (m_info == NoConvergence && it < m_restart && nbIts < m_iterations)
+  {    
+    // Apply preconditioner(s) at right
+    if (m_isDeflInitialized )
+    {
+      dgmresApplyDeflation(m_V.col(it), tv1); // Deflation
+      tv2 = precond.solve(tv1); 
+    }
+    else
+    {
+      tv2 = precond.solve(m_V.col(it)); // User's selected preconditioner
+    }
+    tv1 = mat * tv2; 
+   
+    // Orthogonalize it with the previous basis in the basis using modified Gram-Schmidt
+    Scalar coef; 
+    for (int i = 0; i <= it; ++i)
+    { 
+      coef = tv1.dot(m_V.col(i));
+      tv1 = tv1 - coef * m_V.col(i); 
+      m_H(i,it) = coef; 
+      m_Hes(i,it) = coef; 
+    }
+    // Normalize the vector 
+    coef = tv1.norm(); 
+    m_V.col(it+1) = tv1/coef;
+    m_H(it+1, it) = coef;
+//     m_Hes(it+1,it) = coef; 
+    
+    // FIXME Check for happy breakdown 
+    
+    // Update Hessenberg matrix with Givens rotations
+    for (int i = 1; i <= it; ++i) 
+    {
+      m_H.col(it).applyOnTheLeft(i-1,i,gr[i-1].adjoint());
+    }
+    // Compute the new plane rotation 
+    gr[it].makeGivens(m_H(it, it), m_H(it+1,it)); 
+    // Apply the new rotation
+    m_H.col(it).applyOnTheLeft(it,it+1,gr[it].adjoint());
+    g.applyOnTheLeft(it,it+1, gr[it].adjoint()); 
+    
+    beta = std::abs(g(it+1));
+    m_error = beta/normRhs; 
+    std::cerr << nbIts << " Relative Residual Norm " << m_error << std::endl;
+    it++; nbIts++; 
+    
+    if (m_error < m_tolerance)
+    {
+      // The method has converged
+      m_info = Success;
+      break;
+    }
+  }
+  
+  // Compute the new coefficients by solving the least square problem
+//   it++;
+  //FIXME  Check first if the matrix is singular ... zero diagonal
+  DenseVector nrs(m_restart); 
+  nrs = m_H.topLeftCorner(it,it).template triangularView<Upper>().solve(g.head(it)); 
+  
+  // Form the new solution
+  if (m_isDeflInitialized)
+  {
+    tv1 = m_V.leftCols(it) * nrs; 
+    dgmresApplyDeflation(tv1, tv2); 
+    x = x + precond.solve(tv2);
+  }
+  else
+    x = x + precond.solve(m_V.leftCols(it) * nrs); 
+  
+  // Go for a new cycle and compute data for deflation
+  if(nbIts < m_iterations && m_info == NoConvergence && m_neig > 0 && (m_r+m_neig) < m_maxNeig)
+    dgmresComputeDeflationData(mat, precond, it, m_neig); 
+  return 0; 
+  
+}
+
+
+template< typename _MatrixType, typename _Preconditioner>
+void DGMRES<_MatrixType, _Preconditioner>::dgmresInitDeflation(Index& rows) const
+{
+  m_U.resize(rows, m_maxNeig);
+  m_MU.resize(rows, m_maxNeig); 
+  m_T.resize(m_maxNeig, m_maxNeig);
+  m_lambdaN = 0.0; 
+  m_isDeflAllocated = true; 
+}
+
+template< typename _MatrixType, typename _Preconditioner>
+inline typename DGMRES<_MatrixType, _Preconditioner>::ComplexVector DGMRES<_MatrixType, _Preconditioner>::schurValues(const ComplexSchur<DenseMatrix>& schurofH) const
+{
+  return schurofH.matrixT().diagonal();
+}
+
+template< typename _MatrixType, typename _Preconditioner>
+inline typename DGMRES<_MatrixType, _Preconditioner>::ComplexVector DGMRES<_MatrixType, _Preconditioner>::schurValues(const RealSchur<DenseMatrix>& schurofH) const
+{
+  typedef typename MatrixType::Index Index;
+  const DenseMatrix& T = schurofH.matrixT();
+  Index it = T.rows();
+  ComplexVector eig(it);
+  Index j = 0;
+  while (j < it-1)
+  {
+    if (T(j+1,j) ==Scalar(0))
+    {
+      eig(j) = std::complex<RealScalar>(T(j,j),RealScalar(0)); 
+      j++; 
+    }
+    else
+    {
+      eig(j) = std::complex<RealScalar>(T(j,j),T(j+1,j)); 
+      eig(j+1) = std::complex<RealScalar>(T(j,j+1),T(j+1,j+1));
+      j++;
+    }
+  }
+  if (j < it-1) eig(j) = std::complex<RealScalar>(T(j,j),RealScalar(0));
+  return eig;
+}
+
+template< typename _MatrixType, typename _Preconditioner>
+int DGMRES<_MatrixType, _Preconditioner>::dgmresComputeDeflationData(const MatrixType& mat, const Preconditioner& precond, const Index& it, Index& neig) const
+{
+  // First, find the Schur form of the Hessenberg matrix H
+  typename internal::conditional<NumTraits<Scalar>::IsComplex, ComplexSchur<DenseMatrix>, RealSchur<DenseMatrix> >::type schurofH; 
+  bool computeU = true;
+  DenseMatrix matrixQ(it,it); 
+  matrixQ.setIdentity();
+  schurofH.computeFromHessenberg(m_Hes.topLeftCorner(it,it), matrixQ, computeU); 
+  
+  ComplexVector eig(it);
+  Matrix<Index,Dynamic,1>perm(it); 
+  eig = this->schurValues(schurofH);
+  
+  // Reorder the absolute values of Schur values
+  DenseRealVector modulEig(it); 
+  for (int j=0; j<it; ++j) modulEig(j) = std::abs(eig(j)); 
+  perm.setLinSpaced(it,0,it-1);
+  internal::sortWithPermutation(modulEig, perm, neig);
+  
+  if (!m_lambdaN)
+  {
+    m_lambdaN = (std::max)(modulEig.maxCoeff(), m_lambdaN);
+  }
+  //Count the real number of extracted eigenvalues (with complex conjugates)
+  int nbrEig = 0; 
+  while (nbrEig < neig)
+  {
+    if(eig(perm(it-nbrEig-1)).imag() == RealScalar(0)) nbrEig++; 
+    else nbrEig += 2; 
+  }
+  // Extract the  Schur vectors corresponding to the smallest Ritz values
+  DenseMatrix Sr(it, nbrEig); 
+  Sr.setZero();
+  for (int j = 0; j < nbrEig; j++)
+  {
+    Sr.col(j) = schurofH.matrixU().col(perm(it-j-1));
+  }
+  
+  // Form the Schur vectors of the initial matrix using the Krylov basis
+  DenseMatrix X; 
+  X = m_V.leftCols(it) * Sr;
+  if (m_r)
+  {
+   // Orthogonalize X against m_U using modified Gram-Schmidt
+   for (int j = 0; j < nbrEig; j++)
+     for (int k =0; k < m_r; k++)
+      X.col(j) = X.col(j) - (m_U.col(k).dot(X.col(j)))*m_U.col(k); 
+  }
+  
+  // Compute m_MX = A * M^-1 * X
+  Index m = m_V.rows();
+  if (!m_isDeflAllocated) 
+    dgmresInitDeflation(m); 
+  DenseMatrix MX(m, nbrEig);
+  DenseVector tv1(m);
+  for (int j = 0; j < nbrEig; j++)
+  {
+    tv1 = mat * X.col(j);
+    MX.col(j) = precond.solve(tv1);
+  }
+  
+  //Update m_T = [U'MU U'MX; X'MU X'MX]
+  m_T.block(m_r, m_r, nbrEig, nbrEig) = X.transpose() * MX; 
+  if(m_r)
+  {
+    m_T.block(0, m_r, m_r, nbrEig) = m_U.leftCols(m_r).transpose() * MX; 
+    m_T.block(m_r, 0, nbrEig, m_r) = X.transpose() * m_MU.leftCols(m_r);
+  }
+  
+  // Save X into m_U and m_MX in m_MU
+  for (int j = 0; j < nbrEig; j++) m_U.col(m_r+j) = X.col(j);
+  for (int j = 0; j < nbrEig; j++) m_MU.col(m_r+j) = MX.col(j);
+  // Increase the size of the invariant subspace
+  m_r += nbrEig; 
+  
+  // Factorize m_T into m_luT
+  m_luT.compute(m_T.topLeftCorner(m_r, m_r));
+  
+  //FIXME CHeck if the factorization was correctly done (nonsingular matrix)
+  m_isDeflInitialized = true;
+  return 0; 
+}
+template<typename _MatrixType, typename _Preconditioner>
+template<typename RhsType, typename DestType>
+int DGMRES<_MatrixType, _Preconditioner>::dgmresApplyDeflation(const RhsType &x, DestType &y) const
+{
+  DenseVector x1 = m_U.leftCols(m_r).transpose() * x; 
+  y = x + m_U.leftCols(m_r) * ( m_lambdaN * m_luT.solve(x1) - x1);
+  return 0; 
+}
+
+namespace internal {
+
+  template<typename _MatrixType, typename _Preconditioner, typename Rhs>
+struct solve_retval<DGMRES<_MatrixType, _Preconditioner>, Rhs>
+  : solve_retval_base<DGMRES<_MatrixType, _Preconditioner>, Rhs>
+{
+  typedef DGMRES<_MatrixType, _Preconditioner> Dec;
+  EIGEN_MAKE_SOLVE_HELPERS(Dec,Rhs)
+
+  template<typename Dest> void evalTo(Dest& dst) const
+  {
+    dec()._solve(rhs(),dst);
+  }
+};
+} // end namespace internal
+
+} // end namespace Eigen
+#endif