[Trilinos-Users] building Trilinos with hdf5 for Albany

[Nico Schlömer]

Also, make sure to install HDF5 with *parallel* support.
If you can't do that, you need

-DSEACASExodus_ENABLE_MPI:BOOL=OFF

--Nico

On Fri, Sep 5, 2014 at 8:51 AM, Radu Popescu <i.radu.popescu at gmail.com> wrote:
> Hello Peter,
>
> Maybe the version of HDF5 that you are using is not recent enough. I
> remember that MPI-IO collective operations were introduced to HDF5 during
> the 1.8.X cycle.
> Installing a more recent version could fix this.
>
> Best regards,
> Radu
>
>
> On Wed, Sep 3, 2014 at 8:01 PM, Bosler, Peter Andrew <pabosle at sandia.gov>
> wrote:
>>
>> Good morning,
>>
>> I need to use both Albany’s master branch and its Tpetra branch, so I’m
>> trying to build Trilinos to support Albany on a Mac using gcc49 and OpenMPI,
>> with the required TPLs (Boost, BoostLib, GML, HDF5, SuperLU, and NetCDF).
>> My configure script runs fine and Cmake is able to find all the libraries,
>> but build process keeps getting stuck on an EPetraExt target, with the
>> output below.
>>
>> I’ve double checked that the HDF5 headers are in the Hdf5_INCLUDE_DIRS
>> path set in the configure file; any suggestions on what else I should try?
>>
>> Thank you for your time.
>>
>> Pete Bosler
>>
>>
>> /Users/pabosle/Trilinos/packages/epetraext/src/inout/EpetraExt_HDF5.cpp:
>> In member function 'void EpetraExt::HDF5::Write(const string&, const
>> string&, int, int, int, const void*)':
>>
>> /Users/pabosle/Trilinos/packages/epetraext/src/inout/EpetraExt_HDF5.cpp:1691:51:
>> error: 'H5Pset_dxpl_mpio' was not declared in this scope
>>    H5Pset_dxpl_mpio(plist_id_, H5FD_MPIO_COLLECTIVE);
>>                                                    ^
>> Scanning dependencies of target thyra_nonlinear_test_models
>> [ 70%] Building CXX object
>> packages/epetraext/src/CMakeFiles/epetraext.dir/block/EpetraExt_BlockMultiVector.cpp.o
>> [ 70%] Building CXX object
>> packages/thyra/core/test/nonlinear/models/CMakeFiles/thyra_nonlinear_test_models.dir/Thyra_DiagonalQuadraticResponseOnlyModelEvaluator.cpp.o
>> make[2]: ***
>> [packages/epetraext/src/CMakeFiles/epetraext.dir/inout/EpetraExt_HDF5.cpp.o]
>> Error 1
>> make[2]: *** Waiting for unfinished jobs....
>> Scanning dependencies of target thyraepetra
>> [ 70%] Building CXX object
>> packages/thyra/adapters/epetra/src/CMakeFiles/thyraepetra.dir/Thyra_DiagonalEpetraLinearOpWithSolveFactory.cpp.o
>> [ 70%] Built target stkclassic_util_diag
>> [ 70%] Building CXX object
>> packages/thyra/core/test/nonlinear/models/CMakeFiles/thyra_nonlinear_test_models.dir/Thyra_DiagonalScalarProd.cpp.o
>> [ 70%] Building CXX object
>> packages/thyra/adapters/epetra/src/CMakeFiles/thyraepetra.dir/Thyra_EpetraLinearOp.cpp.o
>> [ 70%] Building CXX object
>> packages/thyra/core/test/nonlinear/models/CMakeFiles/thyra_nonlinear_test_models.dir/Thyra_DummyTestModelEvaluator.cpp.o
>> [ 70%] Building CXX object
>> packages/thyra/core/test/nonlinear/models/CMakeFiles/thyra_nonlinear_test_models.dir/Thyra_Simple2DModelEvaluator.cpp.o
>>
>> /Users/pabosle/Trilinos/packages/epetraext/src/model_evaluator/EpetraExt_ModelEvaluatorScalingTools.cpp:71:6:
>> warning: 'void {anonymous}::assertModelVarScalings(const
>> EpetraExt::ModelEvaluator::InArgs&)' defined but not used
>> [-Wunused-function]
>>  void assertModelVarScalings(
>>       ^
>> [ 70%] Building CXX object
>> packages/thyra/adapters/epetra/src/CMakeFiles/thyraepetra.dir/Thyra_EpetraOperatorViewExtractorStd.cpp.o
>> make[1]: *** [packages/epetraext/src/CMakeFiles/epetraext.dir/all] Error 2
>> make[1]: *** Waiting for unfinished jobs....
>> [ 70%] Building CXX object
>> packages/thyra/adapters/epetra/src/CMakeFiles/thyraepetra.dir/Thyra_EpetraOperatorWrapper.cpp.o
>> [ 70%] Building CXX object
>> packages/thyra/adapters/epetra/src/CMakeFiles/thyraepetra.dir/Thyra_EpetraThyraWrappers.cpp.o
>> [ 70%] Building CXX object
>> packages/thyra/adapters/epetra/src/CMakeFiles/thyraepetra.dir/Thyra_get_Epetra_Operator.cpp.o
>> Linking CXX static library libthyra_nonlinear_test_models.a
>> warning: /opt/local/bin/ranlib: warning for library:
>> libthyra_nonlinear_test_models.a the table of contents is empty (no object
>> file members in the library define global symbols)
>> [ 70%] Built target thyra_nonlinear_test_models
>> Linking CXX static library libthyraepetra.a
>> [ 70%] Built target thyraepetra
>> make: *** [all] Error 2
>>
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>>
>
>
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