search

eidelen / DicomToMesh

A command line tool to transform a DICOM volume into a 3d surface mesh (obj, stl or ply). Several mesh processing routines can be enabled, such as mesh reduction, smoothing or cleaning. Works on Linux, OSX and Windows.
MIT License
451 stars 93 forks source link

Problem with build on Mac OSX #29

Closed cogitas3d closed 4 years ago

cogitas3d commented 4 years ago

Hey there!

I vever had problem with compilation of DicomToMesh, but after I upgrade brew on Mac I had a lot...

First, the system doesn't found Qt, so, I solve it with:

cmake .. -DCMAKE_PREFIX_PATH=$(brew --prefix qt5)

After I had an error on Python 3, so, I solve it with:

brew link python@3.8

I did the cmake again:

-- The C compiler identification is AppleClang 10.0.0.10001044 -- The CXX compiler identification is AppleClang 10.0.0.10001044 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found OpenGL: /System/Library/Frameworks/OpenGL.framework found components: OpenGL -- Found Python3: /usr/local/Frameworks/Python.framework/Versions/3.8/bin/python3.8 (found suitable version "3.8.5", minimum required is "3.8") found components: Interpreter Development.Module Development.Embed -- Found FontConfig: /usr/local/lib/libfontconfig.dylib -- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found HDF5: /usr/local/lib/libhdf5.dylib;/usr/local/lib/libsz.dylib;/usr/lib/libz.dylib;/usr/lib/libdl.dylib;/usr/lib/libm.dylib (found version "1.12.0") found components: C HL -- Found LibXml2: /usr/lib/libxml2.dylib (found version "2.9.4") -- Found ZLIB: /usr/lib/libz.dylib (found version "1.2.11") -- Found PNG: /usr/local/lib/libpng.dylib (found version "1.6.37") -- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0") -- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0") found components: serialization -- Found EXPAT: /usr/lib/libexpat.dylib (found version "2.2.1") -- Found JPEG: /usr/local/lib/libjpeg.dylib (found version "90") -- Found TIFF: /usr/local/lib/libtiff.dylib (found version "4.1.0") CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-use-file-deprecated.cmake:1 (message): TheVTK_USE_FILE` is no longer used starting with 8.90. Call Stack (most recent call first): lib/CMakeLists.txt:6 (include)

-- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0")
-- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0") found components: serialization CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-use-file-deprecated.cmake:1 (message): The VTK_USE_FILE is no longer used starting with 8.90. Call Stack (most recent call first): dicom2mesh/CMakeLists.txt:6 (include)

-- Configuring done -- Generating done -- Build files have been written to: /Users/cogitas3d/Programs/DicomToMesh/build/UILD_GUI=OFF MacBook-Pro-de-Cicero:build cogitas3d$ make make: *** No targets specified and no makefile found. Stop. MacBook-Pro-de-Cicero:build cogitas3d$ ls CMakeCache.txt CMakeFiles UILD_GUI=OFF MacBook-Pro-de-Cicero:build cogitas3d$ ls CMakeCache.txt CMakeFiles UILD_GUI=OFF MacBook-Pro-de-Cicero:build cogitas3d$ cmake .. -DCMAKE_PREFIX_PATH=$(brew --prefix qt5) -- The C compiler identification is AppleClang 10.0.0.10001044 -- The CXX compiler identification is AppleClang 10.0.0.10001044 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE
-- Found OpenGL: /System/Library/Frameworks/OpenGL.framework found components: OpenGL -- Found Python3: /usr/local/Frameworks/Python.framework/Versions/3.8/bin/python3.8 (found suitable version "3.8.5", minimum required is "3.8") found components: Interpreter Development.Module Development.Embed -- Found FontConfig: /usr/local/lib/libfontconfig.dylib
-- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found HDF5: /usr/local/lib/libhdf5.dylib;/usr/local/lib/libsz.dylib;/usr/lib/libz.dylib;/usr/lib/libdl.dylib;/usr/lib/libm.dylib (found version "1.12.0") found components: C HL -- Found LibXml2: /usr/lib/libxml2.dylib (found version "2.9.4") -- Found ZLIB: /usr/lib/libz.dylib (found version "1.2.11") -- Found PNG: /usr/local/lib/libpng.dylib (found version "1.6.37") -- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0")
-- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0") found components: serialization -- Found EXPAT: /usr/lib/libexpat.dylib (found version "2.2.1") -- Found JPEG: /usr/local/lib/libjpeg.dylib (found version "90") -- Found TIFF: /usr/local/lib/libtiff.dylib (found version "4.1.0") CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-use-file-deprecated.cmake:1 (message): The VTK_USE_FILE is no longer used starting with 8.90. Call Stack (most recent call first): lib/CMakeLists.txt:6 (include)

-- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0")
-- Found Boost: /usr/local/lib/cmake/Boost-1.73.0/BoostConfig.cmake (found suitable exact version "1.73.0") found components: serialization CMake Deprecation Warning at /usr/local/lib/cmake/vtk-9.0/vtk-use-file-deprecated.cmake:1 (message): The VTK_USE_FILE is no longer used starting with 8.90. Call Stack (most recent call first): dicom2mesh/CMakeLists.txt:6 (include)

-- Configuring done -- Generating done -- Build files have been written to: /Users/cogitas3d/Programs/DicomToMesh/build`

But, when I did the make and:

`Scanning dependencies of target dicom2meshlib [ 10%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/dicomFactory.cpp.o [ 20%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/dicomRoutines.cpp.o [ 30%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/meshData.cpp.o [ 40%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/meshRoutines.cpp.o [ 50%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/meshVisualizer.cpp.o /Users/cogitas3d/Programs/DicomToMesh/lib/src/meshVisualizer.cpp:70:23: error: no member named 'ConstructInstance' in 'vtkObjectFactory' vtkObjectFactory::ConstructInstance(result->GetClassName());


1 error generated.
make[2]: *** [lib/CMakeFiles/dicom2meshlib.dir/src/meshVisualizer.cpp.o] Error 1
make[1]: *** [lib/CMakeFiles/dicom2meshlib.dir/all] Error 2
make: *** [all] Error 2`

Is it possible solve it?

Thank you.
cogitas3d commented 4 years ago

Is it possible build without the meshvisualizer?

eidelen commented 4 years ago

Hi Cicero, It comes likely form VTK 9. Some other people had problems too. We have to tackle that at one point... I'm sorry.

cogitas3d commented 4 years ago

@eidelen Do you think that have another way to solve it in Mac?

eidelen commented 4 years ago

I made a quick fix for VTK 9 (v9.0.1). Please checkout the particular branch:

git pull
git checkout vtk-9-experimental

Then build as usual. The sophisticated vtk-dicom library cannot be used currently. They seem to work on the issue.

cogitas3d commented 4 years ago

I made cmake and do not appear the problem with VTK, but, when run make:

`MacBook-Pro-de-Cicero:build cogitas3d$ make Scanning dependencies of target dicom2meshlib [ 10%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/dicomFactory.cpp.o [ 20%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/dicomRoutines.cpp.o [ 30%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/meshData.cpp.o [ 40%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/meshRoutines.cpp.o [ 50%] Building CXX object lib/CMakeFiles/dicom2meshlib.dir/src/meshVisualizer.cpp.o /Users/cogitas3d/Programs/DicomToMesh-vtk-9-experimental/lib/src/meshVisualizer.cpp:70:23: error: no member named 'ConstructInstance' in 'vtkObjectFactory' vtkObjectFactory::ConstructInstance(result->GetClassName());


1 error generated.
make[2]: *** [lib/CMakeFiles/dicom2meshlib.dir/src/meshVisualizer.cpp.o] Error 1
make[1]: *** [lib/CMakeFiles/dicom2meshlib.dir/all] Error 2
make: *** [all] Error 2
MacBook-Pro-de-Cicero:build cogitas3d$ `
eidelen commented 4 years ago

I can compile on OSX, VTK 9.0.1. However, I made a branch without visualization for the mean time.

git pull
git checkout  vtk-9-novisual

Does this work?

cogitas3d commented 4 years ago

Master @eidelen

It works perfectly! Thank you very much!