[Trilinos-Users] [EXTERNAL] building Trilinos with BUILD_SHARED_LIBS on

Roberts, Nathan V. nvroberts at alcf.anl.gov
Tue Dec 16 13:27:09 MST 2014


Update: I do get as far, and do get the same swig error during my Trilinos build, on the Yosemite machine as I do on the Mountain Lion machine.  Any advice would be greatly appreciated.

Thanks!
Nate

On Dec 16, 2014, at 12:24 PM, "Roberts, Nathan V." <nvroberts at alcf.anl.gov>
 wrote:

> Bill (and Trilinos-Users),
> 
> Thanks for your reply—it looks to me like you were right to suspect Fortran.  On my Mountain Lion (10.8) machine, I'm now getting further than before, but I do now have a swig-related build issue.  The error message is below, and again below that, my current do-configure script.  As you can see, I'm trying to use swig 3.0.2 (the latest release).  I did also try with 2.0.8, but got an error saying that a version > 3.0 was required.  Any ideas on how I might resolve this?
> 
> (I'm still working on getting as far on the Yosemite machine, but indications are that Yosemite is not involved in the earlier issues.)
> 
> Nate
> 
> Assertion failed: (b->refcount > 0), function DohDelete, file DOH/base.c, line 42.
> /bin/sh: line 1: 20863 Abort trap: 6           /Users/nroberts/lib/swig-3.0.2/bin/swig -python -I/Users/nroberts/publicTrilinos/build/release-shared/packages/PyTrilinos/doc/Doxygen -noproxydel -outdir PyTrilinos -c++ -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/PyTrilinos/src -I/Users/nroberts/publicTrilinos/packages/PyTrilinos/src -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/Applications/paraview.app/Contents/Python/numpy/core/include -I/Applications/paraview.app/Contents/Python/mpi4py/include -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/packages/nox/src-loca/src-thyra -I/Users/nroberts/publicTrilinos/packages/nox/src-loca/src-epetra -I/Users/nroberts/publicTrilinos/packages/nox/src-loca/src-epetra/continuation-manager -I/Users/nroberts/publicTrilinos/packages/nox/src-loca/src-lapack 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-I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/classic/src -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/ThreadPool/src -I/Users/nroberts/publicTrilinos/packages/ThreadPool/src -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/aztecoo/src -I/Users/nroberts/publicTrilinos/packages/aztecoo/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/triutils/src -I/Users/nroberts/publicTrilinos/packages/triutils/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/pliris/src -I/Users/nroberts/publicTrilinos/packages/pliris/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/isorropia/src -I/Users/nroberts/publicTrilinos/packages/isorropia/src -I/Users/nroberts/publicTrilinos/packages/isorropia/src/epetra -I/Users/nroberts/publicTrilinos/packages/isorropia/src/epetra/zoltanLib -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetraext/src -I/Users/nroberts/publicTrilinos/packages/epetraext/src -I/Users/nroberts/publicTrilinos/packages/epetraext/src/transform -I/Users/nroberts/publicTrilinos/packages/epetraext/src/inout -I/Users/nroberts/publicTrilinos/packages/epetraext/src/coloring -I/Users/nroberts/publicTrilinos/packages/epetraext/src/model_evaluator -I/Users/nroberts/publicTrilinos/packages/epetraext/src/block -I/Users/nroberts/publicTrilinos/packages/epetraext/src/restrict -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/Users/nroberts/publicTrilinos/build/release-shared/packages/triutils/src -I/Users/nroberts/publicTrilinos/packages/triutils/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/lib/hdf5/include -I/Users/nroberts/publicTrilinos/packages/tpetra/ext -I/Users/nroberts/publicTrilinos/build/release-shared/packages/tpetra/ext -I/Users/nroberts/publicTrilinos/packages/tpetra/inout -I/Users/nroberts/publicTrilinos/build/release-shared/packages/tpetra/inout -I/Users/nroberts/publicTrilinos/packages/tpetra/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/tpetra/src -I/Users/nroberts/publicTrilinos/packages/kokkos/TSQR/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/TSQR/src -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/LinAlg -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/NodeAPI -I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/classic/NodeAPI -I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/classic/src -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/ThreadPool/src -I/Users/nroberts/publicTrilinos/packages/ThreadPool/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/zoltan/src -I/Users/nroberts/publicTrilinos/packages/zoltan/src/include -I/Users/nroberts/publicTrilinos/packages/zoltan/src/all -I/Users/nroberts/publicTrilinos/packages/zoltan/src/coloring -I/Users/nroberts/publicTrilinos/packages/zoltan/src/graph -I/Users/nroberts/publicTrilinos/packages/zoltan/src/ha -I/Users/nroberts/publicTrilinos/packages/zoltan/src/hier -I/Users/nroberts/publicTrilinos/packages/zoltan/src/hsfc -I/Users/nroberts/publicTrilinos/packages/zoltan/src/lb -I/Users/nroberts/publicTrilinos/packages/zoltan/src/matrix -I/Users/nroberts/publicTrilinos/packages/zoltan/src/order -I/Users/nroberts/publicTrilinos/packages/zoltan/src/par -I/Users/nroberts/publicTrilinos/packages/zoltan/src/params -I/Users/nroberts/publicTrilinos/packages/zoltan/src/tpls -I/Users/nroberts/publicTrilinos/packages/zoltan/src/phg -I/Users/nroberts/publicTrilinos/packages/zoltan/src/rcb -I/Users/nroberts/publicTrilinos/packages/zoltan/src/reftree -I/Users/nroberts/publicTrilinos/packages/zoltan/src/simple -I/Users/nroberts/publicTrilinos/packages/zoltan/src/timer -I/Users/nroberts/publicTrilinos/packages/zoltan/src/Utilities/Communication -I/Users/nroberts/publicTrilinos/packages/zoltan/src/Utilities/DDirectory -I/Users/nroberts/publicTrilinos/packages/zoltan/src/Utilities/Timer -I/Users/nroberts/publicTrilinos/packages/zoltan/src/Utilities/shared -I/Users/nroberts/publicTrilinos/packages/zoltan/src/zz -I/usr/include -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetraext/src -I/Users/nroberts/publicTrilinos/packages/epetraext/src -I/Users/nroberts/publicTrilinos/packages/epetraext/src/transform -I/Users/nroberts/publicTrilinos/packages/epetraext/src/inout -I/Users/nroberts/publicTrilinos/packages/epetraext/src/coloring -I/Users/nroberts/publicTrilinos/packages/epetraext/src/model_evaluator -I/Users/nroberts/publicTrilinos/packages/epetraext/src/block -I/Users/nroberts/publicTrilinos/packages/epetraext/src/restrict -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -I/Users/nroberts/publicTrilinos/build/release-shared/packages/triutils/src -I/Users/nroberts/publicTrilinos/packages/triutils/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/lib/hdf5/include -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/packages/tpetra/ext -I/Users/nroberts/publicTrilinos/build/release-shared/packages/tpetra/ext -I/Users/nroberts/publicTrilinos/packages/tpetra/inout -I/Users/nroberts/publicTrilinos/build/release-shared/packages/tpetra/inout -I/Users/nroberts/publicTrilinos/packages/tpetra/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/tpetra/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/publicTrilinos/packages/kokkos/TSQR/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/TSQR/src -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/LinAlg -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/NodeAPI -I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/classic/NodeAPI -I/Users/nroberts/publicTrilinos/build/release-shared/packages/kokkos/classic/src -I/Users/nroberts/publicTrilinos/packages/kokkos/classic/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/ThreadPool/src -I/Users/nroberts/publicTrilinos/packages/ThreadPool/src -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/triutils/src -I/Users/nroberts/publicTrilinos/packages/triutils/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/build/release-shared/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/epetra/src -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -I/Users/nroberts/publicTrilinos/build/release-shared -I/Users/nroberts/publicTrilinos/packages/teuchos/remainder/src -I/Users/nroberts/publicTrilinos/build/release-shared/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/core/src -I/Users/nroberts/publicTrilinos/packages/teuchos/numerics/src -I/Users/nroberts/publicTrilinos/packages/teuchos/comm/src -I/Users/nroberts/publicTrilinos/packages/teuchos/parameterlist/src -o /Users/nroberts/publicTrilinos/build/release-shared/packages/PyTrilinos/src/TpetraPYTHON_wrap.cpp /Users/nroberts/publicTrilinos/packages/PyTrilinos/src/Tpetra.i
> make[2]: *** [packages/PyTrilinos/src/TpetraPYTHON_wrap.cpp] Error 134
> make[1]: *** [packages/PyTrilinos/src/CMakeFiles/Tpetra.dir/all] Error 2
> 
> 
> My do-configure script:
> 
> EXTRA_ARGS=$@
> 
> rm -f CMakeCache.txt
> 
> cmake \
> -D Trilinos_WARNINGS_AS_ERRORS_FLAGS:STRING="" \
> -D TPL_ENABLE_MPI:BOOL=ON \
> -D Trilinos_ENABLE_Fortran:BOOL=OFF \
> -D TPL_ENABLE_MUMPS:STRING=OFF \
> -D MUMPS_LIBRARY_DIRS:FILEPATH=/Users/nroberts/src/MUMPS_4.10.0/lib/ \
> -D MUMPS_LIBRARY_NAMES:STRING="dmumps; pord; mumps_common" \
> -D TPL_MUMPS_INCLUDE_DIRS:FILEPATH=/Users/nroberts/lib/mumps-4.10.0/include \
> -D CMAKE_CXX_COMPILER:FILEPATH=/Users/nroberts/lib/openmpi-1.6.5/bin/mpicxx \
> -D CMAKE_C_COMPILER:FILEPATH=/Users/nroberts/lib/openmpi-1.6.5/bin/mpicc \
> -D CMAKE_Fortran_COMPILER:FILEPATH=/Users/nroberts/lib/openmpi-1.6.5/bin/mpif90 \
> -D SWIG_EXECUTABLE:PATH=/Users/nroberts/lib/swig-3.0.2/bin/swig \
> -D Trilinos_SKIP_FORTRANCINTERFACE_VERIFY_TEST:BOOL=ON \
> -D MPI_BASE_DIR:PATH=/Users/nroberts/lib/openmpi-1.6.5 \
> -D HAVE_GCC_ABI_DEMANGLE:BOOL=ON \
> -D DART_TESTING_TIMEOUT:STRING=600 \
> -D CMAKE_VERBOSE_MAKEFILE:BOOL=TRUE \
> -D BUILD_SHARED_LIBS:BOOL=ON \
> -D Trilinos_ENABLE_Anasazi:BOOL=ON \
> -D Trilinos_ENABLE_Belos:BOOL=ON \
> -D Trilinos_ENABLE_Intrepid:BOOL=ON \
> -D Trilinos_ENABLE_Sacado:BOOL=ON \
> -D Trilinos_ENABLE_Epetra:BOOL=ON \
> -D Trilinos_ENABLE_EpetraExt:BOOL=ON \
> -D Trilinos_ENABLE_Teuchos:BOOL=ON \
> -D Trilinos_ENABLE_Shards:BOOL=ON \
> -D Trilinos_ENABLE_Amesos:BOOL=ON \
> -D Trilinos_ENABLE_PyTrilinos:BOOL=ON \
> -D Trilinos_ENABLE_STK:BOOL=OFF \
> -D Trilinos_ENABLE_Zoltan:BOOL=ON \
> -D Trilinos_ENABLE_ML:BOOL=ON \
> -D Trilinos_ENABLE_TESTS:BOOL=OFF \
> -D TPL_ENABLE_HDF5:STRING=ON \
> -D Trilinos_EXTRA_LINK_FLAGS:STRING="/usr/lib/libz.dylib" \
> -D TPL_ENABLE_Zlib:BOOL=ON \
> -D Zlib_LIBRARY_DIRS:FILEPATH="/usr/lib" \
> -D Zlib_LIBRARY_NAMES:FILEPATH="z" \
> -D HDF5_LIBRARY_DIRS:FILEPATH=/Users/nroberts/lib/hdf5/lib \
> -D HDF5_LIBRARY_NAMES:STRING="hdf5" \
> -D TPL_HDF5_LIBRARIES="/Users/nroberts/lib/hdf5/lib/libhdf5.a;/usr/lib/libz.dylib" \
> -D TPL_HDF5_INCLUDE_DIRS:FILEPATH=/Users/nroberts/lib/hdf5/include \
> -D EpetraExt_USING_HDF5:BOOL=ON \
> -DTPL_ENABLE_Netcdf=OFF \
> -DTPL_ENABLE_GLM=OFF \
> -DTrilinos_ASSERT_MISSING_PACKAGES=OFF \
> -D CMAKE_INSTALL_PREFIX:PATH=/Users/nroberts/lib/trilinos/mpi-release-shared/ \
> $EXTRA_ARGS \
> ../../
> 
> 
> On Dec 14, 2014, at 10:17 PM, Bill Spotz <wfspotz at sandia.gov> wrote:
> 
>> Hi Nathan,
>> 
>> So the underscores have me thinking that this is a Fortran-related issue.  I compile PyTrilinos all the time with shared libraries on, but I also turn Fortran off because getting compiler version numbers to match has been more trouble than it is worth.  Try building with Fortran disabled and see if it clears this up.
>> 
>> Unfortunately, we haven't been able to upgrade to Yosemite at Sandia, so if it is a 10.10-related  problem, I won't be able to reproduce it.
>> 
>> If Fortran is the problem, and you need it enabled, then hopefully I'll be able to reproduce it.
>> 
>> -Bill
>> 
>> On Dec 12, 2014, at 5:23 PM, Roberts, Nathan V. <nvroberts at alcf.anl.gov> wrote:
>> 
>>> Hi all,
>>> 
>>> I generally build Trilinos statically.  However, I’m now interested in experimenting with PyTrilinos—my ultimate interest is in providing a Python interface for Camellia—and it appears that to use this, I need to set 
>>> 
>>> BUILD_SHARED_LIBS:BOOL=ON
>>> 
>>> in my do-configure script.  Having done so, the do-configure completes successfully, but the build itself fails while trying to link Epetra.  The link line and the error message are below.  I include my do-configure script at bottom.  Any assistance is very much appreciated.  (Building on OS X Yosemite.)
>>> 
>>> I have the same issue with both the public git repo and the 11.12.1 release.
>>> 
>>> Thanks,
>>> Nate
>>> 
>>> /Users/nroberts/lib/openmpi-1.8.3/bin/mpicxx  -O3 -DNDEBUG -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.10.sdk -dynamiclib -Wl,-headerpad_max_install_names   -compatibility_version 11.0.0 -current_version 11.12.1 -o libepetra.11.12.1.dylib -install_name /Users/nroberts/trilinos-11.12.1-Source/build/mpi-release-shared/packages/epetra/src/libepetra.11.dylib CMakeFiles/epetra.dir/Epetra_BLAS.cpp.o CMakeFiles/epetra.dir/Epetra_BasicDirectory.cpp.o CMakeFiles/epetra.dir/Epetra_BasicRowMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_BlockMap.cpp.o CMakeFiles/epetra.dir/Epetra_BlockMapData.cpp.o CMakeFiles/epetra.dir/Epetra_C_wrappers.cpp.o CMakeFiles/epetra.dir/Epetra_CompObject.cpp.o CMakeFiles/epetra.dir/Epetra_CrsGraph.cpp.o CMakeFiles/epetra.dir/Epetra_CrsGraphData.cpp.o CMakeFiles/epetra.dir/Epetra_CrsMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_CrsSingletonFilter.cpp.o CMakeFiles/epetra.dir/Epetra_Data.cpp.o CMakeFiles/epetra.dir/Epetra_DistObject.cpp.o CMakeFiles/epetra.dir/Epetra_Export.cpp.o CMakeFiles/epetra.dir/Epetra_FECrsGraph.cpp.o CMakeFiles/epetra.dir/Epetra_FECrsMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_FEVbrMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_FEVector.cpp.o CMakeFiles/epetra.dir/Epetra_Flops.cpp.o CMakeFiles/epetra.dir/Epetra_Fortran_wrappers.cpp.o CMakeFiles/epetra.dir/Epetra_Import.cpp.o CMakeFiles/epetra.dir/Epetra_Import_Util.cpp.o CMakeFiles/epetra.dir/Epetra_IntSerialDenseMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_IntSerialDenseVector.cpp.o CMakeFiles/epetra.dir/Epetra_IntVector.cpp.o CMakeFiles/epetra.dir/Epetra_JadMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_LAPACK.cpp.o CMakeFiles/epetra.dir/Epetra_LinearProblem.cpp.o CMakeFiles/epetra.dir/Epetra_LocalMap.cpp.o CMakeFiles/epetra.dir/Epetra_Map.cpp.o CMakeFiles/epetra.dir/Epetra_MapColoring.cpp.o CMakeFiles/epetra.dir/Epetra_MultiVector.cpp.o CMakeFiles/epetra.dir/Epetra_Object.cpp.o CMakeFiles/epetra.dir/Epetra_OffsetIndex.cpp.o CMakeFiles/epetra.dir/Epetra_RowMatrixTransposer.cpp.o CMakeFiles/epetra.dir/Epetra_SerialComm.cpp.o CMakeFiles/epetra.dir/Epetra_SerialCommData.cpp.o CMakeFiles/epetra.dir/Epetra_SerialDenseMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_SerialDenseSVD.cpp.o CMakeFiles/epetra.dir/Epetra_SerialDenseSolver.cpp.o CMakeFiles/epetra.dir/Epetra_SerialDenseVector.cpp.o CMakeFiles/epetra.dir/Epetra_SerialDistributor.cpp.o CMakeFiles/epetra.dir/Epetra_SerialSpdDenseSolver.cpp.o CMakeFiles/epetra.dir/Epetra_SerialSymDenseMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_Time.cpp.o CMakeFiles/epetra.dir/Epetra_Util.cpp.o CMakeFiles/epetra.dir/Epetra_VbrMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_Vector.cpp.o CMakeFiles/epetra.dir/Epetra_LongLongSerialDenseMatrix.cpp.o CMakeFiles/epetra.dir/Epetra_LongLongSerialDenseVector.cpp.o CMakeFiles/epetra.dir/Epetra_LongLongVector.cpp.o CMakeFiles/epetra.dir/Epetra_dcrsmm.f.o CMakeFiles/epetra.dir/Epetra_dcrsmv.f.o CMakeFiles/epetra.dir/Epetra_dcrssm.f.o CMakeFiles/epetra.dir/Epetra_dcrssv.f.o CMakeFiles/epetra.dir/Epetra_MpiComm.cpp.o CMakeFiles/epetra.dir/Epetra_MpiCommData.cpp.o CMakeFiles/epetra.dir/Epetra_MpiDistributor.cpp.o  -L/usr/local/Cellar/gcc/4.9.2/lib/gcc/x86_64-apple-darwin14.0.0/4.9.2  -L/usr/local/Cellar/gcc/4.9.2/lib ../../teuchos/remainder/src/libteuchosremainder.11.12.1.dylib ../../teuchos/numerics/src/libteuchosnumerics.11.12.1.dylib ../../teuchos/comm/src/libteuchoscomm.11.12.1.dylib ../../teuchos/parameterlist/src/libteuchosparameterlist.11.12.1.dylib ../../teuchos/core/src/libteuchoscore.11.12.1.dylib /usr/lib/liblapack.dylib /usr/lib/libblas.dylib -lmpi_usempif08 -lmpi_usempi_ignore_tkr -lmpi_mpifh -lgfortran -lquadmath -lm 
>>> Undefined symbols for architecture x86_64:
>>> "_epetra_dcrsmm__", referenced from:
>>>    Epetra_CrsMatrix::GeneralMM(double**, int, double**, int, int) const in Epetra_CrsMatrix.cpp.o
>>>    Epetra_CrsMatrix::GeneralMTM(double**, int, double**, int, int) const in Epetra_CrsMatrix.cpp.o
>>> "_epetra_dcrsmv__", referenced from:
>>>    Epetra_CrsMatrix::GeneralMTV(double*, double*) const in Epetra_CrsMatrix.cpp.o
>>> "_epetra_dcrssm__", referenced from:
>>>    Epetra_CrsMatrix::GeneralSM(bool, bool, bool, double**, int, double**, int, int) const in Epetra_CrsMatrix.cpp.o
>>> "_epetra_dcrssv__", referenced from:
>>>    Epetra_CrsMatrix::GeneralSV(bool, bool, bool, double*, double*) const in Epetra_CrsMatrix.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)
>>> 
>>> do-configure script:
>>> rm -f CMakeCache.txt
>>> 
>>> cmake \
>>> -D Trilinos_WARNINGS_AS_ERRORS_FLAGS:STRING="" \
>>> -D TPL_ENABLE_MPI:BOOL=ON \
>>> -D TPL_ENABLE_MUMPS:STRING=ON \
>>> -D MUMPS_LIBRARY_DIRS:FILEPATH=/Users/nroberts/src/MUMPS_4.9.2/lib/ \
>>> -D MUMPS_LIBRARY_NAMES:STRING="dmumps; pord; mumps_common" \
>>> -D TPL_MUMPS_INCLUDE_DIRS:FILEPATH=/Users/nroberts/lib/mumps-4.9.2/include \
>>> -D CMAKE_CXX_COMPILER:FILEPATH=/Users/nroberts/lib/openmpi-1.8.3/bin/mpicxx \
>>> -D CMAKE_C_COMPILER:FILEPATH=/Users/nroberts/lib/openmpi-1.8.3/bin/mpicc \
>>> -D CMAKE_Fortran_COMPILER:FILEPATH=/Users/nroberts/lib/openmpi-1.8.3/bin/mpif90 \
>>> -D SWIG_EXECUTABLE:PATH=/Users/nroberts/lib/swig-3.0.2/bin/swig \
>>> -D Trilinos_SKIP_FORTRANCINTERFACE_VERIFY_TEST:BOOL=ON \
>>> -D MPI_BASE_DIR:PATH=/Users/nroberts/lib/openmpi-1.8.3 \
>>> -D HAVE_GCC_ABI_DEMANGLE:BOOL=ON \
>>> -D DART_TESTING_TIMEOUT:STRING=600 \
>>> -D CMAKE_VERBOSE_MAKEFILE:BOOL=TRUE \
>>> -D BUILD_SHARED_LIBS:BOOL=ON \
>>> -D Trilinos_ENABLE_Anasazi:BOOL=ON \
>>> -D Trilinos_ENABLE_Belos:BOOL=ON \
>>> -D Trilinos_ENABLE_Intrepid:BOOL=ON \
>>> -D Trilinos_ENABLE_Sacado:BOOL=ON \
>>> -D Trilinos_ENABLE_Epetra:BOOL=ON \
>>> -D Trilinos_ENABLE_EpetraExt:BOOL=ON \
>>> -D Trilinos_ENABLE_Teuchos:BOOL=ON \
>>> -D Trilinos_ENABLE_Shards:BOOL=ON \
>>> -D Trilinos_ENABLE_Amesos:BOOL=ON \
>>> -D Trilinos_ENABLE_PyTrilinos:BOOL=ON \
>>> -D Trilinos_ENABLE_Zoltan:BOOL=ON \
>>> -D Trilinos_ENABLE_ML:BOOL=ON \
>>> -D Trilinos_ENABLE_TESTS:BOOL=OFF
>>> \
>>> -D TPL_ENABLE_HDF5:STRING=ON \
>>> -D Trilinos_EXTRA_LINK_FLAGS:STRING="libz.dylib" \
>>> -D TPL_ENABLE_Zlib:BOOL=ON \
>>> -D HDF5_LIBRARY_DIRS:FILEPATH=/Users/nroberts/lib/hdf5/lib \
>>> -D HDF5_LIBRARY_NAMES:STRING="hdf5" \
>>> -D TPL_HDF5_INCLUDE_DIRS:FILEPATH=/Users/nroberts/lib/hdf5/include \
>>> -D EpetraExt_USING_HDF5:BOOL=ON \
>>> -DTPL_ENABLE_Netcdf=OFF \
>>> -DTPL_ENABLE_GLM=OFF \
>>> -DTrilinos_ASSERT_MISSING_PACKAGES=OFF \
>>> -D CMAKE_INSTALL_PREFIX:PATH=/Users/nroberts/lib/trilinos/mpi-release-shared/ \
>>> $EXTRA_ARGS \
>>> ../../
>>> _______________________________________________
>>> Trilinos-Users mailing list
>>> Trilinos-Users at software.sandia.gov
>>> https://software.sandia.gov/mailman/listinfo/trilinos-users
>> 
>> ** Bill Spotz                                              **
>> ** Sandia National Laboratories  Voice: (505)845-0170      **
>> ** P.O. Box 5800                 Fax:   (505)284-0154      **
>> ** Albuquerque, NM 87185-0370    Email: wfspotz at sandia.gov **
>> 
>> _______________________________________________
>> Trilinos-Users mailing list
>> Trilinos-Users at software.sandia.gov
>> https://software.sandia.gov/mailman/listinfo/trilinos-users
> 
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