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UG4 / plugin_ProMesh

Interface and extensions to the meshing routines provided by ugcore/lib_grid.
4 stars 5 forks source link

Linking ProMesh fails #3

Closed hynny closed 5 years ago

hynny commented 5 years ago

I was trying to build ug4 with Promesh in a clean build folder, with cmake -DProMesh=ON ../

ugcore and Promesh are up-to-date. My os is macos sierra 10.12.6. The compiler is 

gcc --version
Configured with: --prefix=/Library/Developer/CommandLineTools/usr --with-gxx-include-dir=/usr/include/c++/4.2.1
Apple LLVM version 9.0.0 (clang-900.0.39.2)
Target: x86_64-apple-darwin16.7.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin

My cmake configuration is 

cmake ..
-- 
-- Info: Current options:
-- Info: TARGET:            ugshell (options are: ugshell, libug4, vrl, vrlgrid, libgrid, gridshell, ugplugin, amg, luashell)
-- Info: DIM:               2;3 (options are: 1, 2, 3, ALL, "1;2", "1;3", "2;3")
-- Info: CPU:               1 (options are: 1, 2, 3, 4, 5, VAR, ALL, "2;4", "1;3;4" , ...)
-- Info: PRECISION:         double (options are: single, double)
-- Info: STATIC_BUILD:      OFF (options are: ON, OFF)
-- Info: DEBUG:             OFF (options are: ON, OFF)
-- Info: DEBUG_LOGS:        OFF (options are: ON, OFF)
-- Info: PARALLEL:          ON (options are: ON, OFF)
-- Info: PCL_DEBUG_BARRIER: OFF (options are: ON, OFF)
-- Info: PROFILER:          None (options are: None, Shiny, Scalasca, Vampir, ScoreP)
-- Info: PROFILE_PCL:       OFF (options are: ON, OFF)
-- Info: CPU_FREQ:          OFF (options are: ON, OFF)
-- Info: PROFILE_BRIDGE:    OFF (options are: ON, OFF)
-- Info: LAPACK:            ON (options are: ON, OFF)
-- Info: BLAS:              ON (options are: ON, OFF)
-- Info: INTERNAL_BOOST:    ON (options are: ON, OFF)
-- Info: EMBEDDED_PLUGINS   OFF (options are: ON, OFF)
-- Info: COMPILE_INFO       ON (options are: ON, OFF)
-- Info: USE_LUA2C          ON (options are: ON, OFF)
-- Info: USE_LUAJIT          (options are: ON, OFF)
-- 
-- Info: External libraries (path which contains the library or ON if you used uginstall):
-- Info: TETGEN:   
-- Info: HLIBPRO:  
-- 
-- Info: C   Compiler: /Library/Developer/CommandLineTools/usr/bin/cc (ID: Clang)
-- Info: C++ Compiler: /Library/Developer/CommandLineTools/usr/bin/c++ (ID: Clang)
-- 
-- Info: Using CPU Algebra.
CMake Warning at ugcore/cmake/ug_includes.cmake:389 (message):
  WARNING: C Compiler is Clang, might not work with CUDA.  Try cmake
  -DCUDA_HOST_COMPILER=/usr/bin/gcc ..
Call Stack (most recent call first):
  ugcore/CMakeLists.txt:44 (include)

-- Info: compiling with cxx flags:  -Wall -Wno-multichar -Wsign-compare -Wno-unused-local-typedef -Wno-unknown-warning-option -Wno-undefined-var-template -Wno-unneeded-internal-declaration -O3 -DNDEBUG
-- Info: compiling with c flags:  -Wall -Wno-multichar -Wsign-compare -Wno-unused-local-typedef -Wno-unknown-warning-option -Wno-undefined-var-template -Wno-unneeded-internal-declaration -O3 -DNDEBUG
-- Info: Using LUA2C
-- Info: Using LAPACK (Include: , Lib: /System/Library/Frameworks/Accelerate.framework)
-- Info: Using BLAS (Include: , Lib: /System/Library/Frameworks/Accelerate.framework)
-- Boost version: 1.58.0
-- Info: Including Boost from /Users/zhi/ug5/externals/BoostForUG4
-- Info: COMPILE_INFO enabled. Causes relinking on each run of make.
-- 
-- Info: Enabled plugins:
--       ConvectionDiffusion, ProMesh, 
-- Info: Disabled plugins:
--       LuaShell, 
-- 
-- Hint: To enable/disable a plugin 'PLUGIN_NAME' use the cmake option: -DPLUGIN_NAME=ON/OFF
-- Info: Additional options for the ProMesh plugin:
-- Info:   DEBUG_PATH   Specify a path to which debug output may be written. Only for development builds.
-- 
-- Info: SHELLTYPE: linenoise (options are: linenoise, readline, simple)
-- 
-- Configuring done
-- Generating done
-- Build files have been written to: /Users/zhi/ug5

This gives error message:

make
[  0%] Built target updateCompileInfo
Scanning dependencies of target CompileInfo
[  0%] Building CXX object ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/__/__/__/compile_info_vars.cpp.o
[  0%] Linking CXX shared library ../../../lib/libCompileInfo.dylib
[  0%] Built target CompileInfo
[  0%] Linking CXX shared library ../lib/libug4.dylib
[ 92%] Built target ug4
[ 92%] Linking CXX shared library ../../../bin/plugins/libConvectionDiffusion.dylib
[ 94%] Built target ConvectionDiffusion
Scanning dependencies of target ProMesh
[ 94%] Building CXX object ugcore/plugins/ProMesh/CMakeFiles/ProMesh.dir/register_selection_tools.cpp.o
[ 94%] Linking CXX shared library ../../../bin/plugins/libProMesh.dylib
Undefined symbols for architecture x86_64:
  "void ug::SelectElementsByIndex<ug::Edge>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
  "void ug::SelectElementsByIndex<ug::Face>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
  "void ug::SelectElementsByIndex<ug::Vertex>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
  "void ug::SelectElementsByIndex<ug::Volume>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make[2]: *** [bin/plugins/libProMesh.dylib] Error 1
make[1]: *** [ugcore/plugins/ProMesh/CMakeFiles/ProMesh.dir/all] Error 2
make: *** [all] Error 2

Thank you!

stephanmg commented 5 years ago

Try make VERBOSE=1 and see if you get additional information.

hynny commented 5 years ago

Thank you, Stephan. Here it is

make VERBOSE=1
/usr/local/Cellar/cmake/3.10.1/bin/cmake -H/Users/zhi/ug5 -B/Users/zhi/ug5 --check-build-system CMakeFiles/Makefile.cmake 0
/usr/local/Cellar/cmake/3.10.1/bin/cmake -E cmake_progress_start /Users/zhi/ug5/CMakeFiles /Users/zhi/ug5/CMakeFiles/progress.marks
/Library/Developer/CommandLineTools/usr/bin/make -f CMakeFiles/Makefile2 all
/Library/Developer/CommandLineTools/usr/bin/make -f ugcore/ugbase/compile_info/CMakeFiles/updateCompileInfo.dir/build.make ugcore/ugbase/compile_info/CMakeFiles/updateCompileInfo.dir/depend
cd /Users/zhi/ug5 && /usr/local/Cellar/cmake/3.10.1/bin/cmake -E cmake_depends "Unix Makefiles" /Users/zhi/ug5 /Users/zhi/ug5/ugcore/ugbase/compile_info /Users/zhi/ug5 /Users/zhi/ug5/ugcore/ugbase/compile_info /Users/zhi/ug5/ugcore/ugbase/compile_info/CMakeFiles/updateCompileInfo.dir/DependInfo.cmake --color=
/Library/Developer/CommandLineTools/usr/bin/make -f ugcore/ugbase/compile_info/CMakeFiles/updateCompileInfo.dir/build.make ugcore/ugbase/compile_info/CMakeFiles/updateCompileInfo.dir/build
cd /Users/zhi/ug5/ugcore/ugbase/compile_info && bash /Users/zhi/ug5/ugcore/cmake/../../ugcore/scripts/shell/generate_compile_info /Users/zhi/ug5/ugcore/cmake/../.. /Users/zhi/ug5/compile_info_vars.cpp
[  0%] Built target updateCompileInfo
/Library/Developer/CommandLineTools/usr/bin/make -f ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/build.make ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/depend
cd /Users/zhi/ug5 && /usr/local/Cellar/cmake/3.10.1/bin/cmake -E cmake_depends "Unix Makefiles" /Users/zhi/ug5 /Users/zhi/ug5/ugcore/ugbase/compile_info /Users/zhi/ug5 /Users/zhi/ug5/ugcore/ugbase/compile_info /Users/zhi/ug5/ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/DependInfo.cmake --color=
Dependee "/Users/zhi/ug5/compile_info_vars.cpp" is newer than depender "ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/__/__/__/compile_info_vars.cpp.o".
Clearing dependencies in "/Users/zhi/ug5/ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/depend.make".
Scanning dependencies of target CompileInfo
/Library/Developer/CommandLineTools/usr/bin/make -f ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/build.make ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/build
[  0%] Building CXX object ugcore/ugbase/compile_info/CMakeFiles/CompileInfo.dir/__/__/__/compile_info_vars.cpp.o
cd /Users/zhi/ug5/ugcore/ugbase/compile_info && /Library/Developer/CommandLineTools/usr/bin/c++  -DBLAS_AVAILABLE -DBOOST_ALL_NO_LIB -DBOOST_UBLAS_NDEBUG -DCompileInfo_EXPORTS -DLAPACK_AVAILABLE -DUG_ALGEBRA -DUG_BRIDGE -DUG_CPU_1 -DUG_DIM_2 -DUG_DIM_3 -DUG_DISC -DUG_FOR_LUA -DUG_GRID -DUG_PARALLEL -DUG_PLUGINS -DUG_POSIX -DUG_PROFILER_SHINY_CHECK_CONSISTENCY -DUG_TARGET=\"ugshell\" -DUSE_LUA2C -I/Users/zhi/ug5/ugcore/cmake/../../ugcore/ugbase -I/Users/zhi/ug5 -isystem /Users/zhi/ug5/externals/BoostForUG4 -I/usr/local/Cellar/open-mpi/3.0.0_1/include  -Wall -Wno-multichar -Wsign-compare -Wno-unused-local-typedef -Wno-unknown-warning-option -Wno-undefined-var-template -Wno-unneeded-internal-declaration -O3 -DNDEBUG -fPIC   -o CMakeFiles/CompileInfo.dir/__/__/__/compile_info_vars.cpp.o -c /Users/zhi/ug5/compile_info_vars.cpp
[  0%] Linking CXX shared library ../../../lib/libCompileInfo.dylib
cd /Users/zhi/ug5/ugcore/ugbase/compile_info && /usr/local/Cellar/cmake/3.10.1/bin/cmake -E cmake_link_script CMakeFiles/CompileInfo.dir/link.txt --verbose=1
/Library/Developer/CommandLineTools/usr/bin/c++  -Wall -Wno-multichar -Wsign-compare -Wno-unused-local-typedef -Wno-unknown-warning-option -Wno-undefined-var-template -Wno-unneeded-internal-declaration -O3 -DNDEBUG -dynamiclib -Wl,-headerpad_max_install_names  -o ../../../lib/libCompileInfo.dylib -install_name /Users/zhi/ug5/lib/libCompileInfo.dylib CMakeFiles/CompileInfo.dir/__/__/__/compile_info_vars.cpp.o  -L/Users/zhi/ug5/ugcore/cmake/../../lib -Wl,-rpath,/Users/zhi/ug5/ugcore/cmake/../../lib -framework Accelerate -framework Accelerate -ldl /usr/local/Cellar/open-mpi/3.0.0_1/lib/libmpi.dylib 
[  0%] Built target CompileInfo
/Library/Developer/CommandLineTools/usr/bin/make -f ugcore/CMakeFiles/ug4.dir/build.make ugcore/CMakeFiles/ug4.dir/depend
cd /Users/zhi/ug5 && /usr/local/Cellar/cmake/3.10.1/bin/cmake -E cmake_depends "Unix Makefiles" /Users/zhi/ug5 /Users/zhi/ug5/ugcore /Users/zhi/ug5 /Users/zhi/ug5/ugcore /Users/zhi/ug5/ugcore/CMakeFiles/ug4.dir/DependInfo.cmake --color=
/Library/Developer/CommandLineTools/usr/bin/make -f ugcore/CMakeFiles/ug4.dir/build.make ugcore/CMakeFiles/ug4.dir/build
[  0%] Linking CXX shared library ../lib/libug4.dylib
cd /Users/zhi/ug5/ugcore && /usr/local/Cellar/cmake/3.10.1/bin/cmake -E cmake_link_script CMakeFiles/ug4.dir/link.txt --verbose=1
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Undefined symbols for architecture x86_64:
  "void ug::SelectElementsByIndex<ug::Edge>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
  "void ug::SelectElementsByIndex<ug::Face>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
  "void ug::SelectElementsByIndex<ug::Vertex>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
  "void ug::SelectElementsByIndex<ug::Volume>(ug::ISelector&, std::__1::vector<unsigned long, std::__1::allocator<unsigned long> > const&)", referenced from:
      ug::promesh::SelectElementsByIndexRange(ug::promesh::Mesh*, char const*, char const*, char const*, char const*, bool) in selection_tools.cpp.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
make[2]: *** [bin/plugins/libProMesh.dylib] Error 1
make[1]: *** [ugcore/plugins/ProMesh/CMakeFiles/ProMesh.dir/all] Error 2
make: *** [all] Error 2
bsumirak commented 5 years ago

Reproducible. Until fixed, this can be circumvented by building with -DEMBEDDED_PLUGINS=ON.

stephanmg commented 5 years ago

@bsumirak thank you.

hynny commented 5 years ago

@bsumirak problem solved, thank you!