Added vtkFillSurfaceHoles

based on the code by Constantine Butakoff:
https://github.com/cbutakoff/tools/tree/master/FillSurfaceHoles

Author: Steffen Schuler

CMakeLists.txt

@@ -49,8 +49,16 @@ if(VTK_VERSION LESS 8.9)
 	include(${VTK_USE_FILE})
 endif()
 
+## Set up Eigen3 dependency (needed for vtkFillSurfaceHoles)
+find_package(Eigen3 REQUIRED)
+if(NOT EIGEN3_FOUND)
+    message(FATAL_ERROR "Eigen3 could not be found. Try setting EIGEN3_INCLUDE_DIR.")
+else()
+    message(STATUS "Found Eigen3: " ${EIGEN3_INCLUDE_DIR})
+endif()
+
 ## Build library "vtkMatlab", which is used by all MEX functions in this toolbox
-include_directories(libvtkMatlab ${Matlab_INCLUDE_DIRS})
+include_directories(libvtkMatlab ${Matlab_INCLUDE_DIRS} ${EIGEN3_INCLUDE_DIR})
 add_library(vtkMatlab STATIC libvtkMatlab/common.cxx libvtkMatlab/vtkToStruct.cxx libvtkMatlab/structToVtk.cxx)
 target_link_libraries(vtkMatlab ${VTK_LIBRARIES})
 
@@ -88,3 +96,5 @@ matlab_add_mex(NAME vtkThreshold SRC vtkThreshold/vtkThreshold.cxx LINK_TO vtkMa
 matlab_add_mex(NAME vtkTriangleFilter SRC vtkTriangleFilter/vtkTriangleFilter.cxx LINK_TO vtkMatlab ${VTK_LIBRARIES})
 matlab_add_mex(NAME vtkWindowedSincPolyDataFilter SRC vtkWindowedSincPolyDataFilter/vtkWindowedSincPolyDataFilter.cxx LINK_TO vtkMatlab ${VTK_LIBRARIES})
 #matlab_add_mex(NAME vtkMmg3d SRC vtkMmg3d/vtkMmg3d.cxx LINK_TO vtkMatlab ${VTK_LIBRARIES} mmg3d Scotch)
+matlab_add_mex(NAME vtkFillSurfaceHoles SRC vtkFillSurfaceHoles/vtkFillSurfaceHoles.cxx vtkFillSurfaceHoles/FillSurfaceHoles/SurfaceHoleFiller.cpp vtkFillSurfaceHoles/FillSurfaceHoles/UmbrellaWeightedOrder2Smoother.cpp vtkFillSurfaceHoles/FillSurfaceHoles/CoverRefiner.cpp LINK_TO vtkMatlab ${VTK_LIBRARIES})
+target_link_libraries(vtkFillSurfaceHoles Eigen3::Eigen)

MATLAB/vtkFillSurfaceHoles.m

@@ -0,0 +1,23 @@
+% Detects and fills holes in a vtkPolyData.
+% You can choose, whether/how to smooth the filled-in surface.
+% 
+% This function uses Constantine Butakoff's code from
+% https://github.com/cbutakoff/tools/tree/master/FillSurfaceHoles (commit 8c2cac1),
+% which implements the algorithms in
+% P. Liepa (2003), Filling Holes in Meshes, http://dx.doi.org/10.2312/SGP/SGP03/200-206
+% G. Barequet et al. (1995), Filling gaps in the boundary of a polyhedron, https://doi.org/10.1016/0167-8396(94)00011-G
+%
+% Syntax:
+% outStruct = vtkFillSurfaceHoles(struct inStruct, (char method), (bool verbose))
+%
+% method:  smoothing method:
+%          'none':    no smoothing
+%          'cot':     cotangent weights (default)
+%          'edgelen': inverse edge length weights
+% verbose: whether to print status messages (default: false)
+%
+% Written in 2021 by Steffen Schuler
+% Institute of Biomedical Engineering, KIT
+% www.ibt.kit.edu
+
+function outStruct = vtkFillSurfaceHoles(inStruct, method, verbose) %#ok

vtkFillSurfaceHoles/CMakeLists.txt

@@ -0,0 +1,25 @@
+FIND_PACKAGE(VTK REQUIRED)
+INCLUDE(${VTK_USE_FILE})
+
+
+#FIND_PACKAGE(Boost COMPONENTS serialization REQUIRED)
+find_package(Eigen3 REQUIRED)
+
+include_directories(${EIGEN3_INCLUDE_DIR})
+#include_directories(${Boost_INCLUDE_DIRS})
+
+set(SOURCES
+HoleFillerDefines.h
+UmbrellaWeightedOrder2Smoother.h
+UmbrellaWeightedOrder2Smoother.cpp
+SurfaceHoleFiller.h  
+SurfaceHoleFiller.cpp 
+FillSurfaceHoles.cpp
+CoverRefiner.h
+CoverRefiner.cpp
+)
+
+ADD_EXECUTABLE(FillSurfaceHoles ${SOURCES})
+TARGET_LINK_LIBRARIES(FillSurfaceHoles ${VTK_LIBRARIES})
+#TARGET_LINK_LIBRARIES(FillSurfaceHoles ${VTK_LIBRARIES} ${Boost_LIBRARIES})
+

vtkFillSurfaceHoles/FillSurfaceHoles/COPYRIGHT

@@ -0,0 +1,3 @@
+All code in this directory is by Constantine Butakoff
+(https://github.com/cbutakoff/tools/tree/master/FillSurfaceHoles, commit 8c2cac1)
+and licensed under the Attribution-NonCommercial-ShareAlike 4.0 International license.