compiling issue

[donggiang]

Hello,

I'm a new user of dealii. I've tried compiling dealii with trilinos. I used the same script that builds trilinos as provided in dealii readme (https://www.dealii.org/developer/external-libs/trilinos.html) except turning off SEACAS package, and Trilinos was built successfully. However, I had issues below. It's super helpful if someone can give any recommendation to resolve it.

Thanks,
Giang

[ 82%] Linking CXX executable ../bin/step-72.release
CMakeFiles/step-53.release.dir/step-53/step-53.cc.o: In function Teuchos::RCPNodeTmpl<Teuchos::TimeMonitorSurrogateImpl, Teuchos::DeallocDelete<Teuchos::TimeMonitorSurrogateImpl> >::throw_invalid_obj_exception(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, void const*, Teuchos::RCPNode const*, void const*) const': step-53.cc:(.text._ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE_[_ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE_]+0x11d): undefined reference to Teuchos::TestForException_break(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&)'
step-53.cc:(.text.ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE[ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE]+0x2b4): undefined reference to Teuchos::demangleName(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' step-53.cc:(.text._ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE_[_ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE_]+0x35d): undefined reference to Teuchos::RCPNodeTracer::getCommonDebugNotesStringabi:cxx11'
step-53.cc:(.text.ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE[ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE]+0x3a9): undefined reference to Teuchos::TestForException_break(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' step-53.cc:(.text._ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE_[_ZNK7Teuchos11RCPNodeTmplINS_24TimeMonitorSurrogateImplENS_13DeallocDeleteIS1_EEE27throw_invalid_obj_exceptionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEPKvPKNS_7RCPNodeESE_]+0x4d2): undefined reference to Teuchos::TestForException_break(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&)'
CMakeFiles/step-53.release.dir/step-53/step-53.cc.o: In function Teuchos::TimeMonitorSurrogateImpl::summarize(std::ostream&)': step-53.cc:(.text._ZN7Teuchos24TimeMonitorSurrogateImpl9summarizeERSo[_ZN7Teuchos24TimeMonitorSurrogateImpl9summarizeERSo]+0x57): undefined reference to Teuchos::TimeMonitor::summarize(std::ostream&, bool, bool, bool, Teuchos::ECounterSetOp, std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&, bool)'
/media/ghuynh/Data1/mechanics/code/library/trilinos_installation_2/lib/libstratimikosamesos2.so: undefined reference to Amesos2::TachoSolver<Tpetra::CrsMatrix<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> >, Tpetra::MultiVector<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > >::TachoSolver(Teuchos::RCP<Tpetra::CrsMatrix<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > const>, Teuchos::RCP<Tpetra::MultiVector<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > >, Teuchos::RCP<Tpetra::MultiVector<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > const>)' ../lib/libdeal_II.so.9.3.1: undefined reference to Teuchos::LabeledObject::getObjectLabelabi:cxx11 const'
../lib/libdeal_II.so.9.3.1: undefined reference to ML_Epetra::SetDefaults(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, Teuchos::ParameterList&, int*, double*, bool)' ../lib/libdeal_II.so.9.3.1: undefined reference to Epetra_Object::ReportError(std::__cxx11::basic_string<char, std::char_traits, std::allocator >, int) const'
../lib/libdeal_II.so.9.3.1: undefined reference to Teuchos::Describable::description[abi:cxx11]() const' ../lib/libdeal_II.so.9.3.1: undefined reference to Teuchos::LabeledObject::setObjectLabel(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&)'
../lib/libdeal_II.so.9.3.1: undefined reference to Teuchos::mpiErrorCodeToString[abi:cxx11](int)' /media/ghuynh/Data1/mechanics/code/library/trilinos_installation_2/lib/libstratimikosamesos2.so: undefined reference to Amesos2::KLU2<Tpetra::CrsMatrix<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> >, Tpetra::MultiVector<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > >::KLU2(Teuchos::RCP<Tpetra::CrsMatrix<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > const>, Teuchos::RCP<Tpetra::MultiVector<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > >, Teuchos::RCP<Tpetra::MultiVector<float, int, long long, Kokkos::Compat::KokkosDeviceWrapperNode<Kokkos::Serial, Kokkos::HostSpace> > const>)'
../lib/libdeal_II.so.9.3.1: undefined reference to `Ifpack::Create(std::__cxx11::basic_string<char, std::char_traits, std::allocator >, Epetra_RowMatrix*, int, bool)'
collect2: error: ld returned 1 exit status

---

[drwells]

All of these link failures have the same problem in common - they reference std::__cxx11::basic_string, which implies that there is an ABI incompatibility. This is probably due to compiling Trilinos with an older (e.g. GCC 4.8) compiler and deal.II with a newer compiler.

Can you check which compiler you used to build Trilinos?

[donggiang]

yes, it happened exactly what you described. And I fixed it. Thank you so much :)).

[drwells]

Happy to help (and I am glad that this was not an issue with deal.II itself)!