Hello.
I’m a system administrator trying to build Trilinos for inclusion into the
Deal II software. I asked this question on the Trilinos user group, but
they told me to ask here.
I have built Trilinos 12.10.1 with Deal II 8.4.1.
I used these modules to build Trilinos and these cmake options:
Modules used:
1) gnu/4.7.2 4) p4est/1.1 7) swig/3.0.12
2) openmpi/2.1.0 5) hdf5/1.8.18 8) cmake/3.4.1
3) superlu/5.1.2 6) parmetis/4.0.2
cmake ../trilinos-12.10.1-Source \
-DTrilinos_ENABLE_Sacado=ON \
-DTrilinos_ENABLE_Stratimikos=ON \
-DTrilinos_ENABLE_MueLu=ON \
-DCMAKE_BUILD_TYPE=RELEASE \
-DBLAS_LIBRARY_NAMES:STRING="blas" \
-DLAPACK_LIBRARY_NAMES:STRING="lapack" \
-DCMAKE_VERBOSE_MAKEFILE=FALSE \
-DTrilinos_VERBOSE_CONFIGURE=FALSE \
-DTPL_ENABLE_MPI=ON \
-DBUILD_SHARED_LIBS=ON \
-DCMAKE_INSTALL_PREFIX=/gpfs3/applications/trilinos/12.10.1/$MODULES_MPINAME/$MODULES_MPIVER/$MODULES_CVEN/$MODULES_CVER
\
-DTPL_ENABLE_MKL=OFF \
-DTPL_ENABLE_BLAS=ON \
-DTPL_ENABLE_LAPACK=ON \
-DTPL_BLAS_LIBRARIES='blas' \
-DTPL_LAPACK_LIBRARIES='lapack' \
-DTPL_ENABLE_Matio=OFF \
-DTrilinos_ENABLE_CXX11=ON \
-DBUILD_SHARED_LIBS=OFF
I saw no notable errors, and the software installed without issues. With
Deal II, I used this:
Module used:
1) gnu/4.7.2 4) p4est/1.1 7) swig/3.0.12
2) openmpi/2.1.0 5) hdf5/1.8.18 8) cmake/3.4.1
3) superlu/5.1.2 6) parmetis/4.0.2 9) trilinos/12.10.1
cmake
-DCMAKE_INSTALL_PREFIX=/gpfs3/applications/deal_II/8.4.1/$MODULES_MPINAME/$MODULES_MPIVER/$MODULES_CVEN/$MODULES_CVER
\
-DDEAL_II_WITH_THREADS=OFF \
-DDEAL_II_WITH_MPI=ON \
-DDEAL_II_WITH_PETSC=OFF \
-DDEAL_II_WITH_NETCDF=OFF \
-DP4EST_DIR=/gpfs3/applications/p4est/1.1/$MODULES_MPINAME/$MODULES_MPIVER/$MODULES_CVEN/$MODULES_CVER
\
-DHDF5_DIR=/gpfs3/applications/hdf5/1.8.18/$MODULES_MPINAME/$MODULES_MPIVER/$MODULES_CVEN/$MODULES_CVER
\
-DTRILINOS_DIR=/gpfs3/applications/trilinos/12.10.1/$MODULES_MPINAME/$MODULES_MPIVER/$MODULES_CVEN/$MODULES_CVER
\
-DDEAL_II_COMPONENT_PARAMETER_GUI=ON \
-DDEAL_II_WITH_P4EST=ON \
-DDEAL_II_WITH_TRILINOS=ON \
-DTrilinos_INCLUDE_DIRS=/gpfs3/applications/trilinos/12.10.1/$MODULES_MPINAME/$MODULES_MPIVER/$MODULES_CVEN/$MODULES_CVER/include
\
-DDEAL_II_WITH_CXX11=ON \
../dealii-8.4.1
However, I get this kind of error when trying to build one of the test
files. Specifically, Step-32.
Currently Loaded Modulefiles:
1) gnu/4.7.2 4) deal-ii/8.4.1 7) parmetis/4.0.2
2) openmpi/2.1.0 5) p4est/1.1 8) swig/3.0.12
3) trilinos/12.10.1 6) superlu/5.1.2 9) hdf5/1.8.18
[xxx step-32]$ cmake .
-- Autopilot invoked
###
#
# Project step-32 set up with deal.II-8.4.1 found at
# /gpfs3/applications/deal_II/8.4.1/openmpi/2.1.0/gnu/4.7.2
#
# CMAKE_BUILD_TYPE: Debug
#
# You can now run…
-- Configuring done
-- Generating done
-- Build files have been written to: /home/xxx/step-32
[xxx step-32]$ make
Scanning dependencies of target step-32
Linking CXX executable step-32
CMakeFiles/step-32.dir/step-32.cc.o: In function
`Step32::BoussinesqFlowProblem<
2>::project_temperature_field()':
/home/xxx/step-32/step-32.cc:1768: undefined reference to `void
dealii::ConstraintMatrix::distribute<dealii::TrilinosWrappers::MPI::Vector>(dealii::TrilinosWrappers::MPI::Vector&)
const'
CMakeFiles/step-32.dir/step-32.cc.o: In function
`dealii::Solver<dealii::TrilinosWrappers::MPI::BlockVector>::~Solver()':
/gpfs3/applications/deal_II/8.4.1/openmpi/2.1.0/gnu/4.7.2/include/deal.II/lac/solver.h:325:
undefined reference to
`dealii::GrowingVectorMemory<dealii::TrilinosWrappers::MPI::BlockVector>::~GrowingVectorMemory()'
/gpfs3/applications/deal_II/8.4.1/openmpi/2.1.0/gnu/4.7.2/include/deal.II/lac/solver.h:325:
undefined reference to
`dealii::GrowingVectorMemory<dealii::TrilinosWrappers::MPI::BlockVector>::~GrowingVectorMemory()'
CMakeFiles/step-32.dir/step-32.cc.o: In function
`Step32::BoussinesqFlowProblem<2>::solve()':
/home/xxx/step-32/step-32.cc:3034: undefined reference to `void
dealii::ConstraintMatrix::distribute<dealii::TrilinosWrappers::MPI::BlockVector>(dealii::TrilinosWrappers::MPI::BlockVector&)
const'
/home/xxx/step-32/step-32.cc:3100: undefined reference to `void
dealii::ConstraintMatrix::distribute<dealii::TrilinosWrappers::MPI::Vector>(dealii::TrilinosWrappers::MPI::Vector&)
const'
This is only an excerpt from a long list of errors that look similar. So,
it looks like Trilinos libraries are missing some sort of C++ symbols.
The module looks like this:
set name trilinos
set ver 12.10.1
set root /gpfs3/applications/trilinos
set mpiroot
$root/$ver/$env(MODULES_MPINAME)/$env(MODULES_MPIVER)/$env(MODULES_CVEN)/$env(MODULES_CVER)
prepend-path -d ":" LD_LIBRARY_PATH "${mpiroot}/lib"
prepend-path -d ":" INCLUDE "${mpiroot}/include"
setenv TRILINOS_DIR $mpiroot
Has anyone seen this problem before? I have no idea how to fix the issue.
--
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