[Amir]

Hi @Hugo, @JN
Thanks for your answer. I tried to install the libopengl0 package as you recommended, But it couldn’t locate the package:

E: Unable to locate package libopengl0

I have python 2.7 on my Linux. should I upgrade it to python 3 for this version of the Sofa?
Many Thanks
Amir

[Amir]

Dear @ Hugo
Thanks. it was very helpful. another question is for using the hyperelastic modeling do I need a Flexible plugin? because I found the Ogden model in that plugin. and in the binary version is it possible to add this plugin?
Thanks

[Amir]

Hi @Hugo
Thanks for your help. can you address me some examples in the Sofa?
Thanks
Amir

[Amir]

Dear @jnbrunet

Thanks for your advice. it works and the problem is solved.
Best Regards
AMir

[Amir]

Dear @Hugo
I didn’t get it what you mean? removing SofaComponentCommon from Cmakelist and delete Cmake cache and recompile and rebuild again? if that is what you mean I did it again and the error is the same.I always recompile SOFA+Softrobot together

Many thanks for your support
Amir

[Amir]

Dear @Hugo
Thank you, As you told I added the SofaComponentCommon but after compile, the error is not solved:

 -- Build files have t written to: /home/amir/sofa/build
[13/15] Linking CXX shared library lib/libSoftRobots.so.1.0
FAILED: : && /usr/bin/g++ -fPIC -Wall -W -O3 -DNDEBUG -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2  -Wl,--no-undefined -lc -shared -Wl,-soname,libSoftRobots.so.1.0 -o lib/libSoftRobots.so.1.0 external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/initSoftRobots.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/behavior/SoftRobotsBaseConstraint.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/behavior/SoftRobotsConstraint.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/constraint/CableConstraint.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/constraint/PartialRigidificationConstraint.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/constraint/SurfacePressureConstraint.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/constraint/UnilateralPlaneConstraint.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/constraint/model/CableModel.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/constraint/model/SurfacePressureModel.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/AnimationEditor.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/DataVariationLimiter.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/InteractiveControl.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/modules/Network.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/modules/SplitFloat.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/modules/Serial.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/controller/SerialPortBridgeGeneric.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/engine/CenterOfMass.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/engine/VolumeFromTriangles.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/engine/VolumeFromTetrahedrons.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/forcefield/PREquivalentStiffnessForceField.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/forcefield/PartialRigidificationForceField.cpp.o external_directories/plugins/CMakeFiles/SoftRobots.dir/src/SoftRobots/component/forcefield/PipeForceField.cpp.o  -Wl,-rpath,/home/amir/Qt/5.14.2/gcc_64/lib:/home/amir/sofa/build/lib:  -lSofaComponentCommon  /home/amir/Qt/5.14.2/gcc_64/lib/libQt5Network.so.5.14.2  lib/libSofaPython.so.0.1  /home/amir/Qt/5.14.2/gcc_64/lib/libQt5Core.so.5.14.2  lib/libSofaGuiCommon.so.20.06.99  lib/libSofaComponentAll.so.1.0  lib/libSofaBase.so.20.06.99  lib/libSofaCommon.so.20.06.99  lib/libSofaEngine.so.20.06.99  lib/libSofaExplicitOdeSolver.so.20.06.99  lib/libSofaAdvanced.so.20.06.99  lib/libSofaMisc.so.20.06.99  lib/libSofaMiscMapping.so.20.06.99  lib/libSofaMiscExtra.so.20.06.99  lib/libSofaMiscEngine.so.20.06.99  lib/libSofaNonUniformFem.so.20.06.99  lib/libSofaMiscFem.so.20.06.99  lib/libSofaMiscForceField.so.20.06.99  lib/libSofaMiscSolver.so.20.06.99  lib/libSofaMiscTopology.so.20.06.99  /usr/lib/x86_64-linux-gnu/libz.so  lib/libSofaGeneral.so.20.06.99  lib/libSofaConstraint.so.20.06.99  lib/libSofaImplicitOdeSolver.so.20.06.99  lib/libSofaUserInteraction.so.20.06.99  lib/libSofaGeneralRigid.so.20.06.99  lib/libSofaGeneralVisual.so.20.06.99  lib/libSofaBaseVisual.so.20.06.99  lib/libSofaTopologyMapping.so.20.06.99  lib/libSofaBoundaryCondition.so.20.06.99  lib/libSofaEigen2Solver.so.20.06.99  lib/libSofaGraphComponent.so.20.06.99  lib/libSofaBaseUtils.so.20.06.99  lib/libSofaGeneralTopology.so.20.06.99  lib/libSofaGeneralAnimationLoop.so.20.06.99  lib/libSofaGeneralDeformable.so.20.06.99  lib/libSofaGeneralExplicitOdeSolver.so.20.06.99  lib/libSofaGeneralImplicitOdeSolver.so.20.06.99  lib/libSofaGeneralLinearSolver.so.20.06.99  lib/libSofaGeneralObjectInteraction.so.20.06.99  lib/libSofaGeneralSimpleFem.so.20.06.99  lib/libSofaSimpleFem.so.20.06.99  lib/libSofaGeneralEngine.so.20.06.99  lib/libSofaGeneralMeshCollision.so.20.06.99  lib/libSofaValidation.so.20.06.99  lib/libSofaMeshCollision.so.20.06.99  lib/libSofaRigid.so.20.06.99  lib/libSofaBaseMechanics.so.20.06.99  lib/libSofaObjectInteraction.so.20.06.99  lib/libSofaDeformable.so.20.06.99  lib/libSofaBaseTopology.so.20.06.99  lib/libSofaBaseCollision.so.20.06.99  lib/libSofaGeneralLoader.so.20.06.99  /usr/lib/x86_64-linux-gnu/libz.so  lib/libSofaLoader.so.20.06.99  lib/libSofaSimulationTree.so.20.06.99  lib/libSofaDenseSolver.so.20.06.99  lib/libSofaBaseLinearSolver.so.20.06.99  lib/libSofaSimulationCommon.so.20.06.99  lib/libSofaSimulationCore.so.20.06.99  lib/libSofaCore.so.20.06.99  lib/libSofaDefaultType.so.20.06.99  lib/libSofaHelper.so.20.06.99  /usr/lib/x86_64-linux-gnu/libGLU.so  /usr/lib/x86_64-linux-gnu/libGL.so  /usr/lib/x86_64-linux-gnu/libGLEW.so  /usr/lib/x86_64-linux-gnu/libboost_filesystem.so  /usr/lib/x86_64-linux-gnu/libboost_program_options.so  /usr/lib/x86_64-linux-gnu/libboost_thread.so  /usr/lib/x86_64-linux-gnu/libboost_chrono.so  /usr/lib/x86_64-linux-gnu/libboost_system.so  /usr/lib/x86_64-linux-gnu/libboost_date_time.so  /usr/lib/x86_64-linux-gnu/libboost_atomic.so  lib/libgtest.so.2.6.2  -pthread  lib/libnewmat.a  -lpython2.7  -Wl,-rpath-link,/home/amir/sofa/build/lib && :
/usr/bin/ld: cannot find -lSofaComponentCommon
collect2: error: ld returned 1 exit status
ninja: build stopped: subcommand failed.

[Amir]

Dear @Hugo
I add these two addresses to external directory together
/home/user/sofa/STLIB;/home/user/sofa/plugins
and turning plugin_sofapython on

this is the output of Cmake after configuration and generation:

Adding module SofaPreconditioner
Adding module SofaHaptics
Adding module SofaOpenglVisual
Adding plugin CImgPlugin
CImgPlugin: TIFF Image Format enabled
CImgPlugin: JPEG Image Format enabled
CImgPlugin: PNG Image Format enabled
Adding plugin SofaMiscCollision
SofaMiscModule: build all maintained sofa components.
SofaMiscCollision: optional dependency SofaSphFluid not found de-activing: <SpatialGridPointModel>
-- PSL is an experimental feature, use it at your own risk.
Adding application runSofa
Write Plugin list at /home/amir/sofa/build/lib/plugin_list.conf.default
Adding external directory: STLIB (/home/amir/sofa/STLIB)
Install prefix: /home/amir/sofa/build/install
Adding external directory: plugins (/home/amir/sofa/plugins)
Install prefix: /home/amir/sofa/build/install
-- Found dependency : 'STLIB' plugin .
Configuring done
Generating done

it seems everything is ok in Cmake

this is the output after compiling with ninja:

[13/13] Linking CXX executable bin/SoftRobots_test
FAILED: : && /usr/bin/g++  -Wall -W -O3 -DNDEBUG -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2  -rdynamic external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/constraint/SurfacePressureConstraintTest.cpp.o external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/constraint/UnilateralPlaneConstraintTest.cpp.o external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/controller/AnimationEditorTest.cpp.o external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/controller/DataVariationLimiterTest.cpp.o external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/controller/SerialPortBridgeGenericTest.cpp.o external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/engine/VolumeFromTrianglesTest.cpp.o external_directories/plugins/tests/CMakeFiles/SoftRobots_test.dir/component/engine/VolumeFromTetrahedronsTest.cpp.o  -o bin/SoftRobots_test  -Wl,-rpath,/home/amir/sofa/build/lib:/home/amir/Qt/5.14.2/gcc_64/lib  lib/libSofaTest.so.0.1  lib/libSofaGTestMain.a  lib/libSoftRobots.so.1.0  -lSofaComponentCommon  lib/libSceneCreator.so.0.1  lib/libSofaSimulationGraph.so.20.06.99  lib/libSofaPython.so.0.1  lib/libSofaGuiCommon.so.20.06.99  lib/libSofaComponentAll.so.1.0  lib/libSofaBase.so.20.06.99  lib/libSofaCommon.so.20.06.99  lib/libSofaEngine.so.20.06.99  lib/libSofaExplicitOdeSolver.so.20.06.99  lib/libSofaGeneral.so.20.06.99  lib/libSofaConstraint.so.20.06.99  lib/libSofaImplicitOdeSolver.so.20.06.99  lib/libSofaUserInteraction.so.20.06.99  lib/libSofaGeneralRigid.so.20.06.99  lib/libSofaGeneralVisual.so.20.06.99  lib/libSofaBaseVisual.so.20.06.99  lib/libSofaGraphComponent.so.20.06.99  lib/libSofaBaseUtils.so.20.06.99  lib/libSofaGeneralAnimationLoop.so.20.06.99  lib/libSofaGeneralDeformable.so.20.06.99  lib/libSofaGeneralExplicitOdeSolver.so.20.06.99  lib/libSofaGeneralImplicitOdeSolver.so.20.06.99  lib/libSofaGeneralLinearSolver.so.20.06.99  lib/libSofaGeneralObjectInteraction.so.20.06.99  lib/libSofaGeneralEngine.so.20.06.99  lib/libSofaValidation.so.20.06.99  lib/libSofaLoader.so.20.06.99  lib/libSofaGeneralLoader.so.20.06.99  /usr/lib/x86_64-linux-gnu/libz.so  lib/libSofaAdvanced.so.20.06.99  lib/libSofaMisc.so.20.06.99  lib/libSofaMiscExtra.so.20.06.99  lib/libSofaGeneralMeshCollision.so.20.06.99  lib/libSofaMeshCollision.so.20.06.99  lib/libSofaBaseCollision.so.20.06.99  lib/libSofaObjectInteraction.so.20.06.99  lib/libSofaTopologyMapping.so.20.06.99  lib/libSofaMiscEngine.so.20.06.99  lib/libSofaNonUniformFem.so.20.06.99  lib/libSofaGeneralSimpleFem.so.20.06.99  lib/libSofaDenseSolver.so.20.06.99  lib/libSofaMiscFem.so.20.06.99  lib/libnewmat.a  lib/libSofaMiscForceField.so.20.06.99  lib/libSofaDeformable.so.20.06.99  lib/libSofaBoundaryCondition.so.20.06.99  lib/libSofaEigen2Solver.so.20.06.99  lib/libSofaBaseLinearSolver.so.20.06.99  lib/libSofaGeneralTopology.so.20.06.99  lib/libSofaMiscSolver.so.20.06.99  lib/libSofaSimulationTree.so.20.06.99  lib/libSofaMiscTopology.so.20.06.99  /usr/lib/x86_64-linux-gnu/libz.so  -lpython2.7  lib/libSofaMiscMapping.so.20.06.99  lib/libSofaRigid.so.20.06.99  lib/libSofaBaseMechanics.so.20.06.99  lib/libSofaSimpleFem.so.20.06.99  lib/libSofaBaseTopology.so.20.06.99  lib/libSofaSimulationCommon.so.20.06.99  lib/libSofaSimulationCore.so.20.06.99  lib/libSofaCore.so.20.06.99  lib/libSofaDefaultType.so.20.06.99  lib/libSofaHelper.so.20.06.99  lib/libgtest.so.2.6.2  /usr/lib/x86_64-linux-gnu/libGLU.so  /usr/lib/x86_64-linux-gnu/libGL.so  /usr/lib/x86_64-linux-gnu/libGLEW.so  /usr/lib/x86_64-linux-gnu/libboost_filesystem.so  /usr/lib/x86_64-linux-gnu/libboost_program_options.so  /usr/lib/x86_64-linux-gnu/libboost_thread.so  /usr/lib/x86_64-linux-gnu/libboost_chrono.so  /usr/lib/x86_64-linux-gnu/libboost_system.so  /usr/lib/x86_64-linux-gnu/libboost_date_time.so  /usr/lib/x86_64-linux-gnu/libboost_atomic.so  -pthread  /home/amir/Qt/5.14.2/gcc_64/lib/libQt5Network.so.5.14.2  /home/amir/Qt/5.14.2/gcc_64/lib/libQt5Core.so.5.14.2  -Wl,-rpath-link,/home/amir/sofa/build/lib && :
/usr/bin/ld: cannot find -lSofaComponentCommon
collect2: error: ld returned 1 exit status
ninja: build stopped: subcommand failed.

[Amir]

Dear @Guillaume
Dear @Hugo
Thanks for your support. I did the following and the problem is solved.

sudo apt purge cmake
sudo apt-get update
sudo apt-get build-dep cmake-qt-gui
wget https://cmake.org/files/v3.17/cmake-3.17.0.tar.gz
tar -xzf cmake-3.17.0.tar.gz
cd cmake-3.17.0/
./configure –qt-gui
make -j5
bin/cmake-gui

I checked the sudo update-alternatives before but it’s didn’t work for me, I don’t know why.
Many thanks for your fast and supportive response. Let’s learn the SOFA!!:-)

[Amir]

Dear @Hugo
I don’t know how to specify Cmake to run the latest version(3.13).
I try to change the default version to the new one, but after running the older one always run.

[Amir]

dear @Hugo
cmake 3.13 is located in the home directory
/home/cmake3.13
and the others are:
$ sudo apt list cmake -a

Listing… Done
cmake/xenial,now 3.5.2-2ubuntu1~ubuntu16.04.1~ppa1 amd64 [installed,automatic]
cmake/xenial-updates 3.5.1-1ubuntu3 amd64
cmake/xenial 3.5.1-1ubuntu1 amd64
but here it dosnt show the 3.13.

Should I change the home directory?

[Amir]

it says the version is 3.5.2

I installed from source code as fallow:

$ sudo apt purge cmake
$ wget https://github.com/Kitware/CMake/releases/download/v3.16.6/cmake-3.13.6.tar.gz
$ tar -zxvf cmake-3.13.4.tar.gz
$ cd cmake-3.13.4
$ ./bootstrap
$ make
$ sudo make install

[Amir]

Dear @Hugo
I’ve noticed one thing I don’t know it is related or not:
I install Cmake 3.16.6 but when I open it with GUI at the top of the bar it mentioned
3.5.2. I don’t know I uninstall it completely. it is the version of GUI I think when I checked its version.

[Amir]

Thanks @ Hugo
g++ –version
g++ (Ubuntu 7.4.0-1ubuntu1~16.04~ppa1) 7.4.0

gcc –version
gcc (Ubuntu 7.4.0-1ubuntu1~16.04~ppa1) 7.4.0

python
Python 2.7.12 (default, Oct 8 2019, 14:14:10)

[Amir]

Dear @Hugo

this is the log message as you requested:

Install prefix: /home/amir/sofa/build/install
Boost version: 1.58.0
Found the following Boost libraries:
  system
  filesystem
  program_options
  thread
  chrono
  date_time
  atomic
Adding collection SofaComponentAll
SofaTest: optional dependency SofaPython NOT found, Python_test won't be built
Adding module SofaExporter
SofaPython disabled, will not compile python bindings.
Adding module SofaSparseSolver
-- metis was not found, SparseLDLSolver won't be built
-- csparse was found, SparseLUSolver and SparseCholeskySolver will be built
Adding module SofaPreconditioner
Adding module SofaHaptics
Adding module SofaOpenglVisual
Adding plugin CImgPlugin
CImgPlugin: TIFF Image Format enabled
CImgPlugin: JPEG Image Format enabled
CImgPlugin: PNG Image Format enabled
Adding plugin SofaMiscCollision
SofaMiscModule: build all maintained sofa components.
SofaMiscCollision: optional dependency SofaSphFluid not found de-activing: <SpatialGridPointModel>
-- PSL is an experimental feature, use it at your own risk.
Adding application runSofa
Write Plugin list at /home/amir/sofa/build/lib/plugin_list.conf.default
Configuring done
CMake Error in extlibs/gtest/CMakeLists.txt:
  Target "gtest" requires the language dialect "CXX17" (with compiler
  extensions), but CMake does not know the compile flags to use to enable it.

CMake Error in SofaKernel/extlibs/newmat/CMakeLists.txt:
  Target "newmat" requires the language dialect "CXX17" (with compiler
  extensions), but CMake does not know the compile flags to use to enable it.

CMake Error in SofaKernel/extlibs/tinyxml/CMakeLists.txt:
  Target "tinyxml" requires the language dialect "CXX17" (with compiler
  extensions), but CMake does not know the compile flags to use to enable it.

CMake Error in SofaKernel/modules/SofaHelper/CMakeLists.txt:
  Target "SofaHelper" requires the language dialect "CXX17" (with compiler
  extensions), but CMake does not know the compile flags to use to enable it.

CMake Error in SofaKernel/modules/SofaHelper/SofaHelper_test/CMakeLists.txt:
  Target "SofaHelper_test" requires the language dialect "CXX17" (with
  compiler extensions), but CMake does not know the compile flags to use to
  enable it.

CMake Error in SofaKernel/modules/SofaHelper/SofaHelper_test/system/TestPlugin/CMakeLists.txt:
  Target "TestPlugin" requires the language dialect "CXX17" (with compiler
  extensions), but CMake does not know the compile flags to use to enable it.

....

CMake Error in applications/plugins/SofaMiscCollision/CMakeLists.txt:
  Target "SofaMiscCollision" requires the language dialect "CXX17" (with
  compiler extensions), but CMake does not know the compile flags to use to
  enable it.

CMake Error in applications/projects/runSofa/CMakeLists.txt:
  The CXX_STANDARD property on target "runSofa" contained an invalid value:
  "17".

CMake Error in applications/projects/runSofa/runSofa_test/CMakeLists.txt:
  Target "runSofa_test" requires the language dialect "CXX17" (with compiler
  extensions), but CMake does not know the compile flags to use to enable it.

Generating done

Many Thanks
Amir

[Amir]

Hi @Hugo
I installed it in Linux ubuntu 16.04, I had Ros before, so it had Cmake 3.5.2, So I uninstalled the older Cmake first by (sudo apt-get remove Cmake and sudo apt-get autoremove –purge cmake). then start to install the Cmake 3.16.6.
Cmake it seems working well when I run CMake-GUI in the build directory of SOFA.
Cmakes open and after clicking the configuration button. this error appeared then generation didn’t complete, So I can not use make or ninja in the next step. I tried Ninja and Unix Makefile and none of them worked.
I uninstalled the Cmake and installed another version(3.13.4) and try it again, but I received the same error. then I tried to deselect some items in Cmake entries to find the problem, I don’t know I have the right to do it or not, Maybe I shouldn’t do that. is it possible to roll back to before changes?
every time Cmake keeps the caches even after uninstalling it completely. is there any way to remove it completely? Should I reinstall Linux?
Many Thanks
Amir

[Author]

Posts