I deleted and recreated the build directory, then ran the cmake again, and
then did make -j 20 and make install.
No change. The step-32 still fails to compile due to those apparently
missing trilinos wrappers. I did try an older version of Trilinos this
time, 11.8.1, just in case there were issues with the newer version.
I may try to download 8.5.0 and see if that works.
On Monday, May 1, 2017 at 8:03:12 AM UTC-7, Tim Miley wrote:
>
> 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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