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Update eigen 5.0.1 v3 #6259

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33711e0
ENH: Update Third Party Eigen to 5.0.1
blowekamp May 12, 2026
9877bc8
Eigen3 2026-05-12 (572347d1)
kwrobot May 12, 2026
eb3e74d
Merge branch 'upstream-Eigen3' into update_eigen_5.0.1_v3
blowekamp May 12, 2026
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8 changes: 2 additions & 6 deletions Modules/ThirdParty/Eigen3/UpdateFromUpstream.sh
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Expand Up @@ -6,14 +6,10 @@ shopt -s dotglob

readonly name="Eigen3"
readonly ownership="Eigen Upstream <kwrobot@kitware.com>"
# ITK has applied a small number of post-import patches under itkeigen/
# (e.g., SelfadjointMatrixVector.h pzero init), so the tree no longer
# bytewise matches the previous import commit's tree. Use log-based
# matching instead of exact-tree matching for the previous-import probe.
exact_tree_match=false
readonly subtree="Modules/ThirdParty/Eigen3/src/itkeigen"
readonly exact_tree_match=false
readonly repo="https://github.com/InsightSoftwareConsortium/eigen"
readonly tag="for/itk-20260501-879885e1"
readonly tag="for/itk-5.0.1-v3"
readonly paths="
Eigen/AccelerateSupport
Eigen/Cholesky
Expand Down
2 changes: 0 additions & 2 deletions Modules/ThirdParty/Eigen3/src/itkeigen/.gitattributes
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Expand Up @@ -2,8 +2,6 @@
debug/msvc/*.dat eol=crlf
debug/msvc/*.natvis eol=crlf

# ITK fork: relax content-checks for the largest Eigen header so
# UpdateFromUpstream.sh / KWStyle hooks do not reject the import.
* -whitespace
Eigen/src/misc/lapacke.h hooks-max-size=1500000
Eigen/src/misc/lapacke.h hooks.MaxObjectKiB=2048
146 changes: 36 additions & 110 deletions Modules/ThirdParty/Eigen3/src/itkeigen/CMakeLists.txt
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Expand Up @@ -6,8 +6,6 @@ project(Eigen3)
# ITK doesn't compile anything here, just generates targets for the INTERFACE library.
#[[ # ITK - START DISABLE UPSTREAM EIGEN LOGIC

cmake_minimum_required(VERSION 3.10.0)

#==============================================================================
# CMake Policy issues.
#==============================================================================
Expand Down Expand Up @@ -42,17 +40,10 @@ if (POLICY CMP0177)
cmake_policy(SET CMP0177 NEW)
endif ()

# Respect <PackageName>_ROOT variables.
if (POLICY CMP0074)
cmake_policy(SET CMP0074 NEW)
endif ()

#==============================================================================
# CMake Project.
#==============================================================================

project(Eigen3)

# Remove this block after bumping CMake to v3.21.0
# PROJECT_IS_TOP_LEVEL is defined then by default
if(CMAKE_VERSION VERSION_LESS 3.21.0)
Expand Down Expand Up @@ -82,6 +73,8 @@ if (EIGEN_BUILD_BLAS OR EIGEN_BUILD_LAPACK)
endif()
endif()

option(EIGEN_BUILD_BTL "Build benchmark suite" OFF)
option(EIGEN_BUILD_SPBENCH "Build sparse benchmark suite" OFF)
# Avoid building docs if included from another project.
# Building documentation requires creating and running executables on the host
# platform. We shouldn't do this if cross-compiling.
Expand All @@ -98,7 +91,7 @@ if(NOT WIN32 OR NOT CMAKE_HOST_SYSTEM_NAME MATCHES Windows)
endif()
option(EIGEN_BUILD_CMAKE_PACKAGE "Enables the creation of EigenConfig.cmake and related files" ${PROJECT_IS_TOP_LEVEL})

if (EIGEN_BUILD_TESTING OR EIGEN_BUILD_BLAS OR EIGEN_BUILD_LAPACK OR EIGEN_BUILD_DOC OR EIGEN_BUILD_DEMOS)
if (EIGEN_BUILD_TESTING OR EIGEN_BUILD_BLAS OR EIGEN_BUILD_LAPACK OR EIGEN_BUILT_BTL OR EIGEN_BUILD_BTL OR EIGEN_BUILD_SPBENCH OR EIGEN_BUILD_DOC OR EIGEN_BUILD_DEMOS)
set(EIGEN_IS_BUILDING_ ON)
endif()

Expand All @@ -111,19 +104,19 @@ endif()
file(READ "${PROJECT_SOURCE_DIR}/Eigen/Version" _eigen_version_header)
if (NOT DEFINED EIGEN_WORLD_VERSION)
string(REGEX MATCH "define[ \t]+EIGEN_WORLD_VERSION[ \t]+([0-9]+)" _eigen_world_version_match "${_eigen_version_header}")
set(EIGEN_WORLD_VERSION "${CMAKE_MATCH_1}" CACHE STRING "")
set(EIGEN_WORLD_VERSION "${CMAKE_MATCH_1}")
endif()
if (NOT DEFINED EIGEN_MAJOR_VERSION)
string(REGEX MATCH "define[ \t]+EIGEN_MAJOR_VERSION[ \t]+([0-9]+)" _eigen_major_version_match "${_eigen_version_header}")
set(EIGEN_MAJOR_VERSION "${CMAKE_MATCH_1}" CACHE STRING "")
set(EIGEN_MAJOR_VERSION "${CMAKE_MATCH_1}")
endif()
if (NOT DEFINED EIGEN_MINOR_VERSION)
string(REGEX MATCH "define[ \t]+EIGEN_MINOR_VERSION[ \t]+([0-9]+)" _eigen_minor_version_match "${_eigen_version_header}")
set(EIGEN_MINOR_VERSION "${CMAKE_MATCH_1}" CACHE STRING "")
set(EIGEN_MINOR_VERSION "${CMAKE_MATCH_1}")
endif()
if (NOT DEFINED EIGEN_PATCH_VERSION)
string(REGEX MATCH "define[ \t]+EIGEN_PATCH_VERSION[ \t]+([0-9]+)" _eigen_patch_version_match "${_eigen_version_header}")
set(EIGEN_PATCH_VERSION "${CMAKE_MATCH_1}" CACHE STRING "")
set(EIGEN_PATCH_VERSION "${CMAKE_MATCH_1}")
endif()
if (NOT DEFINED EIGEN_PRERELEASE_VERSION)
set(EIGEN_PRERELEASE_VERSION "dev")
Expand All @@ -145,18 +138,18 @@ endif()
if (NOT DEFINED EIGEN_BUILD_VERSION AND DEFINED EIGEN_GIT_REVNUM)
string(SUBSTRING "${EIGEN_GIT_REVNUM}" 0 8 EIGEN_BUILD_VERSION)
else()
set(EIGEN_BUILD_VERSION "" CACHE STRING "")
set(EIGEN_BUILD_VERSION "")
endif()

# The EIGEN_VERSION_NUMBER must be of the form <major.minor.patch>.
# The EIGEN_VERSION_STRING can contain the preprelease/build strings.
set(EIGEN_VERSION_NUMBER "${EIGEN_MAJOR_VERSION}.${EIGEN_MINOR_VERSION}.${EIGEN_PATCH_VERSION}" CACHE STRING "")
set(EIGEN_VERSION_STRING "${EIGEN_VERSION_NUMBER}" CACHE STRING "")
set(EIGEN_VERSION_NUMBER "${EIGEN_MAJOR_VERSION}.${EIGEN_MINOR_VERSION}.${EIGEN_PATCH_VERSION}")
set(EIGEN_VERSION_STRING "${EIGEN_VERSION_NUMBER}")
if (NOT "x${EIGEN_PRERELEASE_VERSION}" STREQUAL "x")
set(EIGEN_VERSION_STRING "${EIGEN_VERSION_STRING}-${EIGEN_PRERELEASE_VERSION}" CACHE STRING "")
set(EIGEN_VERSION_STRING "${EIGEN_VERSION_STRING}-${EIGEN_PRERELEASE_VERSION}")
endif()
if (NOT "x${EIGEN_BUILD_VERSION}" STREQUAL "x")
set(EIGEN_VERSION_STRING "${EIGEN_VERSION_STRING}+${EIGEN_BUILD_VERSION}" CACHE STRING "")
set(EIGEN_VERSION_STRING "${EIGEN_VERSION_STRING}+${EIGEN_BUILD_VERSION}")
endif()


Expand Down Expand Up @@ -316,29 +309,17 @@ if (EIGEN_IS_BUILDING_)
set(CMAKE_INCLUDE_CURRENT_DIR OFF)

find_package(StandardMathLibrary)
find_package(AOCL QUIET)
set(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO "")
if(AOCL_FOUND)
list(APPEND EIGEN_STANDARD_LIBRARIES_TO_LINK_TO ${AOCL_LIBRARIES})
if(AOCL_INCLUDE_DIRS)
include_directories(${AOCL_INCLUDE_DIRS})
endif()
endif()

if(NOT STANDARD_MATH_LIBRARY_FOUND)
message(FATAL_ERROR
"Can't link to the standard math library. Please report to the Eigen developers, telling them about your platform.")
message(FATAL_ERROR
"Can't link to the standard math library. Please report to the Eigen developers, telling them about your platform.")
else()
if(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO)
set(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO "${EIGEN_STANDARD_LIBRARIES_TO_LINK_TO} ${STANDARD_MATH_LIBRARY}")
else()
set(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO "${STANDARD_MATH_LIBRARY}")
if(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO)
set(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO "${EIGEN_STANDARD_LIBRARIES_TO_LINK_TO} ${STANDARD_MATH_LIBRARY}")
else()
set(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO "${STANDARD_MATH_LIBRARY}")
endif()
endif()
# Clean up any leading/trailing whitespace in the variable to avoid CMP0004 errors
string(STRIP "${EIGEN_STANDARD_LIBRARIES_TO_LINK_TO}" EIGEN_STANDARD_LIBRARIES_TO_LINK_TO)
endif()


if(EIGEN_STANDARD_LIBRARIES_TO_LINK_TO)
message(STATUS "Standard libraries to link to explicitly: ${EIGEN_STANDARD_LIBRARIES_TO_LINK_TO}")
else()
Expand Down Expand Up @@ -415,16 +396,13 @@ if (EIGEN_BUILD_TESTING)
ei_add_cxx_compiler_flag("-Wshorten-64-to-32")
ei_add_cxx_compiler_flag("-Wlogical-op")
ei_add_cxx_compiler_flag("-Wenum-conversion")
ei_add_cxx_compiler_flag("-Werror=deprecated-anon-enum-enum-conversion")
ei_add_cxx_compiler_flag("-Werror=deprecated-enum-enum-conversion")
ei_add_cxx_compiler_flag("-Wc++11-extensions")
ei_add_cxx_compiler_flag("-Wdouble-promotion")
# ei_add_cxx_compiler_flag("-Wconversion")
ei_add_cxx_compiler_flag("-Wshadow")
ei_add_cxx_compiler_flag("-Wno-psabi")
ei_add_cxx_compiler_flag("-Wno-variadic-macros")
ei_add_cxx_compiler_flag("-Wno-long-long")
ei_add_cxx_compiler_flag("-Wno-pass-failed") # disable clang's warning for unrolling when the loop count is dynamic.
ei_add_cxx_compiler_flag("-fno-common")
ei_add_cxx_compiler_flag("-fstrict-aliasing")
ei_add_cxx_compiler_flag("-wd981") # disable ICC's "operands are evaluated in unspecified order" remark
Expand All @@ -435,17 +413,6 @@ if (EIGEN_BUILD_TESTING)
ei_add_cxx_compiler_flag("-fno-check-new")
endif()

# GCC 12+ emits false-positive -Warray-bounds, -Wmaybe-uninitialized,
# -Wstringop-overread, and -Wnonnull warnings at -O2/-O3 in heavily
# templated code with mixed static/dynamic sizes. These are well-known
# compiler bugs (see GCC PR 109394, 106247, 105329, 98610, among others).
if (CMAKE_COMPILER_IS_GNUCXX)
ei_add_cxx_compiler_flag("-Wno-array-bounds")
ei_add_cxx_compiler_flag("-Wno-maybe-uninitialized")
ei_add_cxx_compiler_flag("-Wno-stringop-overread")
ei_add_cxx_compiler_flag("-Wno-nonnull")
endif()


if(ANDROID_NDK)
ei_add_cxx_compiler_flag("-pie")
Expand Down Expand Up @@ -682,7 +649,7 @@ if (EIGEN_BUILD_TESTING)
endif()

set(EIGEN_CUDA_CXX_FLAGS "" CACHE STRING "Additional flags to pass to the cuda compiler.")
set(EIGEN_CUDA_COMPUTE_ARCH 70 CACHE STRING "The CUDA compute architecture(s) to target when compiling CUDA code")
set(EIGEN_CUDA_COMPUTE_ARCH 30 CACHE STRING "The CUDA compute architecture(s) to target when compiling CUDA code")

option(EIGEN_TEST_SYCL "Add Sycl support." OFF)
if(EIGEN_TEST_SYCL)
Expand Down Expand Up @@ -772,6 +739,15 @@ if(EIGEN_BUILD_DOC)
add_subdirectory(doc EXCLUDE_FROM_ALL)
endif()

# TODO: consider also replacing EIGEN_BUILD_BTL by a custom target "make btl"?
if(EIGEN_BUILD_BTL)
add_subdirectory(bench/btl EXCLUDE_FROM_ALL)
endif()

if(NOT WIN32 AND EIGEN_BUILD_SPBENCH)
add_subdirectory(bench/spbench EXCLUDE_FROM_ALL)
endif()

if (EIGEN_BUILD_DEMOS)
add_subdirectory(demos EXCLUDE_FROM_ALL)
endif()
Expand Down Expand Up @@ -827,7 +803,6 @@ endif()
message(STATUS "")
message(STATUS "Configured Eigen ${EIGEN_VERSION_STRING}")
message(STATUS "")

#]] # ITK -STOP DISABLE UPSTREAM EIGEN LOGIC

###############################################################################
Expand All @@ -849,33 +824,15 @@ include(GNUInstallDirs)
set(INCLUDE_INSTALL_DIR "${CMAKE_INSTALL_INCLUDEDIR}")
set(CMAKEPACKAGE_INSTALL_DIR "${CMAKE_INSTALL_DATADIR}")

# Automatically parse the version number.
# Eigen 5+ moved the version macros from Eigen/src/Core/util/Macros.h to
# Eigen/Version, and switched to semantic versioning. EIGEN_WORLD_VERSION
# is now permanently "3" (legacy "Eigen3" name); EIGEN_MAJOR_VERSION /
# EIGEN_MINOR_VERSION / EIGEN_PATCH_VERSION carry the real semver triple.
# Build EIGEN_VERSION_NUMBER as MAJOR.MINOR.PATCH so that
# find_package(Eigen3 X.Y.Z) and Eigen3_VERSION reflect the real version.
if(EXISTS "${PROJECT_SOURCE_DIR}/Eigen/Version")
file(READ "${PROJECT_SOURCE_DIR}/Eigen/Version" _eigen_version_header)
else()
file(READ "${PROJECT_SOURCE_DIR}/Eigen/src/Core/util/Macros.h" _eigen_version_header)
endif()
# automatically parse the version number
file(READ "${PROJECT_SOURCE_DIR}/Eigen/src/Core/util/Macros.h" _eigen_version_header)
string(REGEX MATCH "define[ \t]+EIGEN_WORLD_VERSION[ \t]+([0-9]+)" _eigen_world_version_match "${_eigen_version_header}")
set(EIGEN_WORLD_VERSION "${CMAKE_MATCH_1}")
string(REGEX MATCH "define[ \t]+EIGEN_MAJOR_VERSION[ \t]+([0-9]+)" _eigen_major_version_match "${_eigen_version_header}")
set(EIGEN_MAJOR_VERSION "${CMAKE_MATCH_1}")
string(REGEX MATCH "define[ \t]+EIGEN_MINOR_VERSION[ \t]+([0-9]+)" _eigen_minor_version_match "${_eigen_version_header}")
set(EIGEN_MINOR_VERSION "${CMAKE_MATCH_1}")
string(REGEX MATCH "define[ \t]+EIGEN_PATCH_VERSION[ \t]+([0-9]+)" _eigen_patch_version_match "${_eigen_version_header}")
set(EIGEN_PATCH_VERSION "${CMAKE_MATCH_1}")
if(EIGEN_WORLD_VERSION STREQUAL "3" AND EIGEN_PATCH_VERSION)
# Eigen >= 5.0: WORLD frozen at 3, real version is MAJOR.MINOR.PATCH.
set(EIGEN_VERSION_NUMBER ${EIGEN_MAJOR_VERSION}.${EIGEN_MINOR_VERSION}.${EIGEN_PATCH_VERSION})
else()
# Eigen <= 3.4.x: legacy WORLD.MAJOR.MINOR layout.
set(EIGEN_VERSION_NUMBER ${EIGEN_WORLD_VERSION}.${EIGEN_MAJOR_VERSION}.${EIGEN_MINOR_VERSION})
endif()
set(EIGEN_VERSION_NUMBER ${EIGEN_WORLD_VERSION}.${EIGEN_MAJOR_VERSION}.${EIGEN_MINOR_VERSION})

include (CMakePackageConfigHelpers)

Expand Down Expand Up @@ -935,7 +892,7 @@ install ( FILES ${CMAKE_CURRENT_BINARY_DIR}/Eigen3Config.cmake
# Install files (used for both eigen_external and eigen_internal)
install(
DIRECTORY "${CMAKE_CURRENT_SOURCE_DIR}/Eigen/"
DESTINATION "${INCLUDE_INSTALL_DIR}/itkeigen/Eigen"
DESTINATION "${ITK3P_INSTALL_INCLUDE_DIR}/itkeigen/Eigen"
PATTERN "*.txt" EXCLUDE)

######################### eigen_internal #####################################
Expand All @@ -949,7 +906,6 @@ add_library (ITKInternalEigen3::Eigen ALIAS eigen_internal)
# This would wrongly enforce EIGEN_MPL2_ONLY to other libraries using Eigen.
# We wrap this definition in ITK_USE_EIGEN_MPL2_ONLY, and only enabling it internally in the dashboards and CI,
# to avoid introducing GPL code from Eigen3 internally in ITK.
# (ITK_USE_EIGEN_MPL2_ONLY is declared once near line 844 of this file.)

if(ITK_USE_EIGEN_MPL2_ONLY)
target_compile_definitions (eigen_internal INTERFACE "EIGEN_MPL2_ONLY")
Expand All @@ -959,40 +915,10 @@ endif()
# #include <itkeigen/Eigen/x>
# INSTALL: headers require pre-prend itkeigen/Eigen/X.
target_include_directories (eigen_internal SYSTEM INTERFACE
$<BUILD_INTERFACE:${CMAKE_CURRENT_SOURCE_DIR}/..>
$<INSTALL_INTERFACE:${INCLUDE_INSTALL_DIR}>
$<BUILD_INTERFACE:${CMAKE_CURRENT_SOURCE_DIR}>
"$<INSTALL_INTERFACE:$<INSTALL_PREFIX>/${ITK3P_INSTALL_INCLUDE_DIR}/itkeigen>;"
)

# Export as title case Eigen
set_target_properties (eigen_internal PROPERTIES EXPORT_NAME Eigen)
install (TARGETS eigen_internal EXPORT ITKInternalEigen3Targets)
install (TARGETS eigen_internal EXPORT ${ITK3P_INSTALL_EXPORT_NAME})

set(EIGEN3_TARGETS_FILE ITKInternalEigen3Targets.cmake)
configure_package_config_file (
${CMAKE_CURRENT_SOURCE_DIR}/cmake/Eigen3Config.cmake.in
${CMAKE_CURRENT_BINARY_DIR}/ITKInternalEigen3Config.cmake
INSTALL_DESTINATION ${CMAKEPACKAGE_INSTALL_DIR}
NO_CHECK_REQUIRED_COMPONENTS_MACRO # Eigen does not provide components
)
# Remove CMAKE_SIZEOF_VOID_P from Eigen3ConfigVersion.cmake since Eigen does
# not depend on architecture specific settings or libraries. More
# specifically, an Eigen3Config.cmake generated from a 64 bit target can be
# used for 32 bit targets as well (and vice versa).
set (_Eigen3_CMAKE_SIZEOF_VOID_P ${CMAKE_SIZEOF_VOID_P})
unset (CMAKE_SIZEOF_VOID_P)
write_basic_package_version_file (ITKInternalEigen3ConfigVersion.cmake
VERSION ${EIGEN_VERSION_NUMBER}
COMPATIBILITY SameMajorVersion)
set (CMAKE_SIZEOF_VOID_P ${_Eigen3_CMAKE_SIZEOF_VOID_P})
# The Eigen target will be located in the Eigen3 namespace. Other CMake
# targets can refer to it using Eigen3::Eigen.
export (TARGETS eigen_internal NAMESPACE ITKInternalEigen3:: FILE ITKInternalEigen3Targets.cmake)
install (EXPORT ITKInternalEigen3Targets NAMESPACE ITKInternalEigen3:: DESTINATION ${CMAKEPACKAGE_INSTALL_DIR})
# Files already installed in eigen_external
# install(
# DIRECTORY "${CMAKE_CURRENT_SOURCE_DIR}/Eigen/"
# DESTINATION "${INCLUDE_INSTALL_DIR}/itkeigen/Eigen"
# PATTERN "*.txt" EXCLUDE)
install ( FILES ${CMAKE_CURRENT_BINARY_DIR}/ITKInternalEigen3Config.cmake
${CMAKE_CURRENT_BINARY_DIR}/ITKInternalEigen3ConfigVersion.cmake
DESTINATION ${CMAKEPACKAGE_INSTALL_DIR} )
2 changes: 1 addition & 1 deletion Modules/ThirdParty/Eigen3/src/itkeigen/COPYING.MPL2
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Expand Up @@ -35,7 +35,7 @@ Mozilla Public License Version 2.0
means any form of the work other than Source Code Form.

1.7. "Larger Work"
means a work that combines Covered Software with other material, in
means a work that combines Covered Software with other material, in
a separate file or files, that is not Covered Software.

1.8. "License"
Expand Down
18 changes: 5 additions & 13 deletions Modules/ThirdParty/Eigen3/src/itkeigen/COPYING.README
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@@ -1,14 +1,6 @@
Eigen is primarily licensed under the Mozilla Public License 2.0.
See LICENSE, COPYING.MPL2, and these links:
https://www.mozilla.org/MPL/2.0/
https://www.mozilla.org/MPL/2.0/FAQ.html
Eigen is primarily MPL2 licensed. See COPYING.MPL2 and these links:
http://www.mozilla.org/MPL/2.0/
http://www.mozilla.org/MPL/2.0/FAQ.html

Some files contain third-party code under permissive or otherwise
MPL2-compatible licenses, hence the other COPYING.* files here. These
include Apache-2.0, BSD-style notices, the MINPACK license, and the MORSE
CMake module BSD-style notice in cmake/MORSE-Copyright.txt.

Note that some optional external dependencies (e.g. FFTW, MPFR C++)
are distributed under different licenses, including the GPL. Refer to
the individual source files and their respective COPYING files for
details.
Some files contain third-party code under BSD or other MPL2-compatible licenses,
whence the other COPYING.* files here.
2 changes: 2 additions & 0 deletions Modules/ThirdParty/Eigen3/src/itkeigen/Eigen/Cholesky
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Expand Up @@ -14,6 +14,8 @@
#include "src/Core/util/DisableStupidWarnings.h"

/** \defgroup Cholesky_Module Cholesky module
*
*
*
* This module provides two variants of the Cholesky decomposition for selfadjoint (hermitian) matrices.
* Those decompositions are also accessible via the following methods:
Expand Down
2 changes: 1 addition & 1 deletion Modules/ThirdParty/Eigen3/src/itkeigen/Eigen/CholmodSupport
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Expand Up @@ -26,7 +26,7 @@
* For the sake of completeness, this module also propose the two following classes:
* - class CholmodSimplicialLLT
* - class CholmodSimplicialLDLT
* Note that these classes do not bring any particular advantage compared to the built-in
* Note that these classes does not bring any particular advantage compared to the built-in
* SimplicialLLT and SimplicialLDLT factorization classes.
*
* \code
Expand Down
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