[openexr,openimageio,suitesparse,theia] updates for non-win32 (#6371)

* [openexr,openimageio,suitesparse,theia] updates for non-win32

* [theia] use only valid cmake symbols

* [suitesparse] Fix build

* [lapack] still not properly integrating with other ports

* [lapack] intercept cmake module calls and substitute them with our defs

* [suitesparse,clapack] fixes for proper integration

* [ceres,clapack] bump CONTROL

* [suitesparse] remove unnecessary defs

* [clapack] improve wrapper logic

* [WIN32] remove wrong symbol

* [clapack] fix wrapper integration

* [Accelerate] use best framework when available

* [clapack] separate config from wrapper

* [clapack] fix paths and filenames

* [mlpack,armadillo,clapack] improve library handling

* [mlpack] remove unnecessary cmake option

* [clp,coinutils,osi,liblemon] dependencies of openmvg, improve compatibility with non-win32

* [openmvg] fix for case-sensitive filesystems

* [clp,coinutils,osi] simplify CMakeLists removing many unnecessary steps

* [sophus] Force rebuild

* [theia] fixes for linux, part1

* [io2d] remove broken sintax

* [fontconfig] bump version to remove CI cached failure

* [theia] fixes for linux, part2

* [theia] remove unnecessary empty folders and comments from portfile

* [theia] use correct build type removing forced vars in cmakelists.txt

* [openmvg] add missing suitesparse target detection

* [sophus] fix Suitesparse dependency

* [sophus,openmvg] use suitesparse lowercase for module compatibility on case-sensitive filesystems

* [suitesparse] fixes for case-sensitive filesystems

* [openmvg] use correct Eigen3 name for case-sensitive filesystems

* [sophus] trigger rebuild

* [shogun] use modern vcpkg style

* [shogun] add missing cmake system processor symbol

1 files changed, 0 insertions, 310 deletions

diff --git a/ports/theia/fix-cmakelists.patch b/ports/theia/fix-cmakelists.patch
deleted file mode 100644
index 674543c68..000000000
--- a/ports/theia/fix-cmakelists.patch
+++ /dev/null
@@ -1,310 +0,0 @@
-diff --git a/CMakeLists.txt b/CMakeLists.txt
-index 9c1b150..367fbbc 100644
---- a/CMakeLists.txt
-+++ b/CMakeLists.txt
-@@ -218,24 +218,71 @@ include_directories(
- # as system headers.
- include_directories(SYSTEM ${EIGEN_INCLUDE_DIRS})
- 
-+
-+set(THEIA_USE_EXTERNAL_CEREAL OFF CACHE BOOL "Use a system Cereal library")
-+set(THEIA_USE_EXTERNAL_FLANN OFF CACHE BOOL "Use a system Flann library")
-+
- # build Third party libraries included in distro.
--add_subdirectory(libraries)
--include_directories(
--  libraries
--  libraries/spectra
--  ${akaze_SOURCE_DIR}
--  ${akaze_INCLUDE_DIR}
--  ${cereal_SOURCE_DIR}
--  ${cereal_SOURCE_DIR}/include
--  ${flann_SOURCE_DIR}
--  ${flann_SOURCE_DIR}/src/cpp
--  ${gtest_SOURCE_DIR}/include
--  ${gtest_SOURCE_DIR}
--  ${optimo_SOURCE_DIR}
--  ${statx_SOURCE_DIR}
--  ${stlplus3_SOURCE_DIR}
--  ${vlfeat_SOURCE_DIR}
--  ${visual_sfm_SOURCE_DIR})
-+if (BUILD_TESTING)
-+  add_subdirectory(libraries/gtest)
-+endif (BUILD_TESTING)
-+
-+# AKAZE feature extractor.
-+add_subdirectory(libraries/akaze)
-+
-+include_directories(${akaze_SOURCE_DIR} ${akaze_INCLUDE_DIR})
-+
-+# Cereal for portable IO.
-+if(NOT THEIA_USE_EXTERNAL_CEREAL)
-+  add_subdirectory(libraries/cereal)
-+
-+  include_directories(${cereal_SOURCE_DIR} ${cereal_SOURCE_DIR}/include)
-+  set(THEIA_INTERNAL_CEREAL_LIB ${THEIA_INTERNAL_LIB_PREFIX}/cereal ${THEIA_INTERNAL_LIB_PREFIX}/cereal/include)
-+else()
-+  find_package(cereal REQUIRED)
-+
-+  set(_THEIA_CEREAL_LIBRARIES cereal)
-+endif()
-+
-+# Flann for fast approximate nearest neighbor searches.
-+if(NOT THEIA_USE_EXTERNAL_FLANN)
-+  add_subdirectory(libraries/flann)
-+
-+  include_directories(${flann_SOURCE_DIR} ${flann_SOURCE_DIR}/src/cpp)
-+  set(_THEIA_FLANN_LIBRARIES flann_cpp)
-+  set(THEIA_INTERNAL_FLANN_LIB ${THEIA_INTERNAL_LIB_PREFIX}/flann)
-+else()
-+  find_package(Flann REQUIRED)
-+
-+  include_directories(${FLANN_INCLUDE_DIR})
-+  set(_THEIA_FLANN_LIBRARIES ${FLANN_LIBRARY})
-+endif()
-+
-+# Add Optimo.
-+add_subdirectory(libraries/optimo)
-+include_directories(${optimo_SOURCE_DIR})
-+
-+# Add Spectra.
-+include_directories(libraries/spectra)
-+
-+# Add Statx.
-+add_subdirectory(libraries/statx)
-+include_directories(${statx_SOURCE_DIR})
-+
-+# STLPlus for filepath tools.
-+add_subdirectory(libraries/stlplus3)
-+include_directories(${stlplus3_SOURCE_DIR})
-+
-+# Add VLFeat.
-+add_subdirectory(libraries/vlfeat)
-+include_directories(${vlfeat_SOURCE_DIR})
-+
-+# Add VisualSfM files.
-+add_subdirectory(libraries/visual_sfm)
-+include_directories(${visual_sfm_SOURCE_DIR})
-+
-+include_directories(libraries)
-+
- 
- list(APPEND CMAKE_MODULE_PATH "${CMAKE_SOURCE_DIR}/cmake")
- include(OptimizeTheiaCompilerFlags)
-@@ -260,7 +307,19 @@ install(FILES ${THEIA_HDRS} DESTINATION include/theia)
- file(GLOB_RECURSE THEIA_INTERNAL_HDRS ${CMAKE_SOURCE_DIR}/src/theia/*.h)
- install(DIRECTORY src/theia/ DESTINATION include/theia FILES_MATCHING PATTERN "*.h")
- 
--install(DIRECTORY libraries/ DESTINATION include/theia/libraries FILES_MATCHING PATTERN "*.h*")
-+install(DIRECTORY libraries/akaze/ DESTINATION include/theia/libraries/akaze FILES_MATCHING PATTERN "*.h*")
-+if(NOT THEIA_USE_EXTERNAL_CEREAL)
-+  install(DIRECTORY libraries/cereal/ DESTINATION include/theia/libraries/cereal FILES_MATCHING PATTERN "*.h*")
-+endif()
-+if(NOT THEIA_USE_EXTERNAL_FLANN)
-+  install(DIRECTORY libraries/flann/ DESTINATION include/theia/libraries/flann FILES_MATCHING PATTERN "*.h*")
-+endif()
-+install(DIRECTORY libraries/optimo/ DESTINATION include/theia/libraries/optimo FILES_MATCHING PATTERN "*.h*")
-+install(DIRECTORY libraries/spectra/ DESTINATION include/theia/libraries/spectra FILES_MATCHING PATTERN "*.h*")
-+install(DIRECTORY libraries/statx/ DESTINATION include/theia/libraries/statx FILES_MATCHING PATTERN "*.h*")
-+install(DIRECTORY libraries/stlplus3/ DESTINATION include/theia/libraries/stlplus3 FILES_MATCHING PATTERN "*.h*")
-+install(DIRECTORY libraries/visual_sfm/ DESTINATION include/theia/libraries/visual_sfm FILES_MATCHING PATTERN "*.h*")
-+install(DIRECTORY libraries/vlfeat/ DESTINATION include/theia/libraries/vlfeat FILES_MATCHING PATTERN "*.h*")
- 
- # Add an uninstall target to remove all installed files.
- configure_file("${CMAKE_SOURCE_DIR}/cmake/uninstall.cmake.in"
-@@ -320,8 +379,9 @@ configure_file("${CMAKE_SOURCE_DIR}/cmake/TheiaConfigVersion.cmake.in"
- install(FILES "${CMAKE_CURRENT_BINARY_DIR}/TheiaConfig.cmake"
-               "${CMAKE_CURRENT_BINARY_DIR}/TheiaConfigVersion.cmake"
-               "${CMAKE_SOURCE_DIR}/cmake/FindEigen.cmake"
--              "${CMAKE_SOURCE_DIR}/cmake/FindGlog.cmake"
-+              "${CMAKE_SOURCE_DIR}/cmake/FindFlann.cmake"
-               "${CMAKE_SOURCE_DIR}/cmake/FindGflags.cmake"
--	      "${CMAKE_SOURCE_DIR}/cmake/FindOpenImageIO.cmake"
-+              "${CMAKE_SOURCE_DIR}/cmake/FindGlog.cmake"
-+              "${CMAKE_SOURCE_DIR}/cmake/FindOpenImageIO.cmake"
-               "${CMAKE_SOURCE_DIR}/cmake/FindSuiteSparse.cmake"
-               DESTINATION ${CMAKECONFIG_INSTALL_DIR})
-diff --git a/cmake/FindFlann.cmake b/cmake/FindFlann.cmake
-new file mode 100644
-index 0000000..5d19ef7
---- /dev/null
-+++ b/cmake/FindFlann.cmake
-@@ -0,0 +1,63 @@
-+###############################################################################
-+# Find FLANN
-+#
-+# This sets the following variables:
-+# FLANN_FOUND - True if FLANN was found.
-+# FLANN_INCLUDE_DIRS - Directories containing the FLANN include files.
-+# FLANN_LIBRARIES - Libraries needed to use FLANN.
-+# FLANN_DEFINITIONS - Compiler flags for FLANN.
-+# If FLANN_USE_STATIC is specified and then look for static libraries ONLY else
-+# look for shared ones
-+
-+if(FLANN_USE_STATIC)
-+  set(FLANN_RELEASE_NAME flann_cpp_s flann_cpp)
-+  set(FLANN_DEBUG_NAME flann_cpp_s-gd flann_cpp-gd)
-+else(FLANN_USE_STATIC)
-+  set(FLANN_RELEASE_NAME flann_cpp)
-+  set(FLANN_DEBUG_NAME flann_cpp-gd)
-+endif(FLANN_USE_STATIC)
-+
-+find_package(PkgConfig QUIET)
-+if (FLANN_FIND_VERSION)
-+    pkg_check_modules(PC_FLANN flann>=${FLANN_FIND_VERSION})
-+else(FLANN_FIND_VERSION)
-+    pkg_check_modules(PC_FLANN flann)
-+endif(FLANN_FIND_VERSION)
-+
-+set(FLANN_DEFINITIONS ${PC_FLANN_CFLAGS_OTHER})
-+
-+find_path(FLANN_INCLUDE_DIR flann/flann.hpp
-+          HINTS ${PC_FLANN_INCLUDEDIR} ${PC_FLANN_INCLUDE_DIRS} "${FLANN_ROOT}" "$ENV{FLANN_ROOT}"
-+          PATHS "$ENV{PROGRAMFILES}/Flann" "$ENV{PROGRAMW6432}/Flann"
-+          PATH_SUFFIXES include)
-+
-+find_library(FLANN_LIBRARY
-+             NAMES ${FLANN_RELEASE_NAME}
-+             HINTS ${PC_FLANN_LIBDIR} ${PC_FLANN_LIBRARY_DIRS} "${FLANN_ROOT}" "$ENV{FLANN_ROOT}"
-+             PATHS "$ENV{PROGRAMFILES}/Flann" "$ENV{PROGRAMW6432}/Flann"
-+	     PATH_SUFFIXES lib)
-+
-+find_library(FLANN_LIBRARY_DEBUG
-+             NAMES ${FLANN_DEBUG_NAME} ${FLANN_RELEASE_NAME}
-+	     HINTS ${PC_FLANN_LIBDIR} ${PC_FLANN_LIBRARY_DIRS} "${FLANN_ROOT}" "$ENV{FLANN_ROOT}"
-+	     PATHS "$ENV{PROGRAMFILES}/Flann" "$ENV{PROGRAMW6432}/Flann"
-+	     PATH_SUFFIXES lib)
-+
-+if(NOT FLANN_LIBRARY_DEBUG)
-+  set(FLANN_LIBRARY_DEBUG ${FLANN_LIBRARY})
-+endif(NOT FLANN_LIBRARY_DEBUG)
-+
-+set(FLANN_INCLUDE_DIRS ${FLANN_INCLUDE_DIR})
-+set(FLANN_LIBRARIES optimized ${FLANN_LIBRARY} debug ${FLANN_LIBRARY_DEBUG})
-+
-+include(FindPackageHandleStandardArgs)
-+find_package_handle_standard_args(FLANN DEFAULT_MSG FLANN_LIBRARY FLANN_INCLUDE_DIR)
-+
-+mark_as_advanced(FLANN_LIBRARY FLANN_LIBRARY_DEBUG FLANN_INCLUDE_DIR)
-+
-+if(FLANN_FOUND)
-+  message(STATUS "Flann found (include: ${FLANN_INCLUDE_DIRS}, lib: ${FLANN_LIBRARIES})")
-+  if(FLANN_USE_STATIC)
-+    add_definitions(-DFLANN_STATIC)
-+  endif(FLANN_USE_STATIC)
-+endif(FLANN_FOUND)
-diff --git a/cmake/TheiaConfig.cmake.in b/cmake/TheiaConfig.cmake.in
-index a3ea187..9195da1 100644
---- a/cmake/TheiaConfig.cmake.in
-+++ b/cmake/TheiaConfig.cmake.in
-@@ -207,22 +207,47 @@ endif (NOT TARGET theia AND NOT Theia_BINARY_DIR)
- # Set the expected XX_LIBRARIES variable for FindPackage().
- set(THEIA_LIBRARIES theia)
- 
-+set(THEIA_USE_EXTERNAL_CEREAL @THEIA_USE_EXTERNAL_CEREAL@)
-+set(THEIA_USE_EXTERNAL_FLANN @THEIA_USE_EXTERNAL_FLANN@)
-+
-+# Cereal.
-+if (THEIA_USE_EXTERNAL_CEREAL)
-+  find_package(cereal QUIET)
-+  if (TARGET cereal)
-+    message(STATUS "Found required Theia dependency: Cereal")
-+  else (TARGET cereal)
-+    theia_report_not_found("Missing required Theia dependency: Cereal.")
-+  endif (TARGET cereal)
-+  list(APPEND THEIA_LIBRARIES cereal)
-+endif (THEIA_USE_EXTERNAL_CEREAL)
-+
-+# Flann.
-+if (THEIA_USE_EXTERNAL_FLANN)
-+  find_package(Flann QUIET)
-+  if (FLANN_FOUND)
-+    message(STATUS "Found required Theia dependency: Flann")
-+  else (FLANN_FOUND)
-+    theia_report_not_found("Missing required Theia dependency: Flann.")
-+  endif (FLANN_FOUND)
-+  list(APPEND THEIA_INCLUDE_DIRS ${FLANN_INCLUDE_DIR})
-+  list(APPEND THEIA_LIBRARIES ${FLANN_LIBRARY})
-+endif (THEIA_USE_EXTERNAL_FLANN)
-+
- # Add the libraries included with the distribution.
- set(THEIA_INTERNAL_LIB_PREFIX ${THEIA_INCLUDE_DIR}/theia/libraries)
- set(THEIA_INTERNAL_LIBS_INCLUDES
-   ${THEIA_INTERNAL_LIB_PREFIX}
-   ${THEIA_INTERNAL_LIB_PREFIX}/akaze
--  ${THEIA_INTERNAL_LIB_PREFIX}/cereal
--  ${THEIA_INTERNAL_LIB_PREFIX}/cereal/include
--  ${THEIA_INTERNAL_LIB_PREFIX}/flann
-+  @THEIA_INTERNAL_CEREAL_LIB@
-+  @THEIA_INTERNAL_FLANN_LIB@
-   ${THEIA_INTERNAL_LIB_PREFIX}/gtest
-   ${THEIA_INTERNAL_LIB_PREFIX}/gtest/include
-   ${THEIA_INTERNAL_LIB_PREFIX}/optimo
-   ${THEIA_INTERNAL_LIB_PREFIX}/spectra
-   ${THEIA_INTERNAL_LIB_PREFIX}/statx
-   ${THEIA_INTERNAL_LIB_PREFIX}/stlplus3
--  ${THEIA_INTERNAL_LIB_PREFIX}/vlfeat
--  ${THEIA_INTERNAL_LIB_PREFIX}/visual_sfm)
-+  ${THEIA_INTERNAL_LIB_PREFIX}/visual_sfm
-+  ${THEIA_INTERNAL_LIB_PREFIX}/vlfeat)
- 
- list(APPEND THEIA_INCLUDE_DIRS ${THEIA_INTERNAL_LIBS_INCLUDES})
- 
-diff --git a/libraries/CMakeLists.txt b/libraries/CMakeLists.txt
-deleted file mode 100644
-index 84f3829..0000000
---- a/libraries/CMakeLists.txt
-+++ /dev/null
-@@ -1,27 +0,0 @@
--if (${BUILD_TESTING})
--  add_subdirectory(gtest)
--endif (${BUILD_TESTING})
--
--# AKAZE feature extractor.
--add_subdirectory(akaze)
--
--# Cereal for portable IO.
--add_subdirectory(cereal)
--
--# Flann for fast approximate nearest neighbor searches.
--add_subdirectory(flann)
--
--# Add Optimo.
--add_subdirectory(optimo)
--
--# Add Statx.
--add_subdirectory(statx)
--
--# STLPlus for filepath tools.
--add_subdirectory(stlplus3)
--
--# Add VLFeat.
--add_subdirectory(vlfeat)
--
--# Add VisualSfM files.
--add_subdirectory(visual_sfm)
-\ No newline at end of file
-diff --git a/src/theia/CMakeLists.txt b/src/theia/CMakeLists.txt
-index 65787eb..07c54a4 100644
---- a/src/theia/CMakeLists.txt
-+++ b/src/theia/CMakeLists.txt
-@@ -174,14 +174,15 @@ set(THEIA_LIBRARY_DEPENDENCIES
-   ${CERES_LIBRARIES}
-   ${GFLAGS_LIBRARIES}
-   ${GLOG_LIBRARIES}
--  ${SUITESPARSE_LIBRARIES}
-   ${OPENIMAGEIO_LIBRARIES}
-+  ${SUITESPARSE_LIBRARIES}
-+  ${_THEIA_CEREAL_LIBRARIES}
-+  ${_THEIA_FLANN_LIBRARIES}
-   akaze
--  flann_cpp
-   statx
-   stlplus3
--  vlfeat
--  visual_sfm)
-+  visual_sfm
-+  vlfeat)
- 
- set(THEIA_LIBRARY_SOURCE
-   ${THEIA_SRC}