I have tried building ET for the current released version. I am on a macbook pro running Yosemite. The build script is:
#!/bin/sh rm -rf configs/sim echo "done removing configs/sim" simfactory/bin/sim build --optionlist=./myoptionlist.cfg --thornlist=./ cospluseinsteintkit.th >build$1.log 2>&1
The build goes along fine apparently until the final executable. I copy below the part after which the build chokes:
Creating cactus_sim in /Users/comerduncan/Cactus/exe from EinsteinAnalysis/ADMAnalysis EinsteinBase/ADMBase EinsteinBase/ADMCoupling EinsteinBase/ADMMacros AEIThorns/ADMMass AEIThorns/AEILocalInterp EinsteinAnalysis/AHFinder EinsteinAnalysis/AHFinderDirect ExternalLibraries/BLAS CactusBase/Boundary Cosmology/CT_Analytic Cosmology/CT_MultiLevel EinsteinAnalysis/CalcK Carpet/Carpet Carpet/CarpetEvolutionMask Carpet/CarpetIOASCII Carpet/CarpetIOBasic Carpet/CarpetIOHDF5 Carpet/CarpetIOScalar Carpet/CarpetIntegrateTest Carpet/CarpetInterp Carpet/CarpetInterp2 Carpet/CarpetLib Carpet/CarpetMask Carpet/CarpetProlongateTest Carpet/CarpetReduce Carpet/CarpetRegrid Carpet/CarpetRegrid2 Carpet/CarpetRegridTest Carpet/CarpetSlab Carpet/CarpetTracker CactusBase/CartGrid3D CactusNumerical/Cartoon2D EinsteinBase/Constants CactusBase/CoordBase EinsteinBase/CoordGauge Carpet/CycleClock CactusExamples/DemoInterp CactusNumerical/Dissipation EinsteinInitialData/DistortedBHIVP EinsteinAnalysis/EHFinder EinsteinBase/EOS_Base EinsteinEOS/EOS_Hybrid EinsteinEOS/EOS_IdealFluid EinsteinEOS/EOS_Omni EinsteinEOS/EOS_Polytrope EinsteinExact/EinsteinExact_Test CactusElliptic/EllBase CactusElliptic/EllSOR EinsteinInitialData/Exact EinsteinAnalysis/Extract ExternalLibraries/FFTW3 CactusExamples/FleshInfo CactusUtils/Formaline CactusBase/Fortran EinsteinEvolve/GRHydro EinsteinEvolve/GRHydro_InitData ExternalLibraries/GSL EinsteinExact/GaugeWave KrancNumericalTools/GenericFD ExternalLibraries/HDF5 CactusConnect/HTTPD CactusConnect/HTTPDExtra CactusExamples/HelloWorld Carpet/HighOrderWaveTest EinsteinBase/HydroBase EinsteinAnalysis/Hydro_Analysis EinsteinInitialData/Hydro_InitExcision EinsteinInitialData/IDAnalyticBH EinsteinInitialData/IDAxiBrillBH EinsteinInitialData/IDAxiOddBrillBH EinsteinInitialData/IDBrillData EinsteinInitialData/IDConstraintViolate EinsteinInitialData/IDFileADM EinsteinInitialData/IDLinearWaves CactusWave/IDScalarWave CactusWave/IDScalarWaveC CactusWave/IDScalarWaveCXX CactusWave/IDScalarWaveElliptic CactusExamples/IDWaveMoL CactusBase/IOASCII CactusBase/IOBasic CactusPUGHIO/IOHDF5 CactusPUGHIO/IOHDF5Util CactusIO/IOJpeg CactusBase/IOUtil CactusBase/InitBase CactusNumerical/InterpToArray EinsteinExact/KerrSchild ExternalLibraries/LAPACK ExternalLibraries/LORENE CactusNumerical/LocalInterp CactusNumerical/LocalInterp2 CactusNumerical/LocalReduce Carpet/LoopControl McLachlan/ML_ADMConstraints McLachlan/ML_ADMQuantities McLachlan/ML_BSSN McLachlan/ML_BSSN_Helper McLachlan/ML_BSSN_Test McLachlan/ML_CCZ4 McLachlan/ML_CCZ4_Helper McLachlan/ML_CCZ4_Test McLachlan/ML_WaveToy McLachlan/ML_WaveToy_Test ExternalLibraries/MPI CactusUtils/MemSpeed EinsteinInitialData/Meudon_Bin_BH EinsteinInitialData/Meudon_Bin_NS EinsteinInitialData/Meudon_Mag_NS EinsteinExact/Minkowski CactusNumerical/MoL EinsteinExact/ModifiedSchwarzschildBL EinsteinAnalysis/Multipole CactusUtils/NaNCatcher CactusUtils/NaNChecker EinsteinEvolve/NewRad CactusUtils/Nice EinsteinInitialData/NoExcision CactusUtils/NoMPI CactusNumerical/Noise CactusNumerical/Norms PITTNullCode/NullConstr PITTNullCode/NullDecomp PITTNullCode/NullEvolve PITTNullCode/NullExact PITTNullCode/NullGrid PITTNullCode/NullInterp PITTNullCode/NullNews PITTNullCode/NullPsiInt PITTNullCode/NullSHRExtract PITTNullCode/NullVars ExternalLibraries/OpenSSL EinsteinAnalysis/Outflow ExternalLibraries/PAPI CactusPUGH/PUGH CactusPUGH/PUGHInterp CactusPUGH/PUGHReduce CactusPUGH/PUGHSlab CactusNumerical/Periodic LSUThorns/PeriodicCarpet CactusExamples/Poisson AEIThorns/PunctureTracker LSUThorns/QuasiLocalMeasures Carpet/ReductionTest Carpet/ReductionTest2 Carpet/ReductionTest3 CactusNumerical/ReflectionSymmetry Carpet/RegridSyncTest EinsteinInitialData/RotatingDBHIVP CactusNumerical/RotatingSymmetry180 CactusNumerical/RotatingSymmetry90 CactusExamples/SampleBoundary CactusExamples/SampleIO EinsteinUtils/SetMask_SphericalSurface EinsteinExact/ShiftedGaugeWave CactusNumerical/Slab CactusNumerical/SlabTest CactusConnect/Socket CactusNumerical/SpaceMask PITTNullCode/SphericalHarmonicDecomp PITTNullCode/SphericalHarmonicRecon CactusNumerical/SphericalSurface EinsteinBase/StaticConformal LSUThorns/SummationByParts CactusBase/SymBase AEIThorns/SystemStatistics CactusUtils/SystemTopology CactusElliptic/TATelliptic EinsteinUtils/TGRtensor EinsteinInitialData/TOVSolver CactusUtils/TerminationTrigger CactusTest/TestArrays Carpet/TestCarpetGridInfo CactusTest/TestComplex CactusTest/TestCoordinates CactusTest/TestFortranCrayPointers CactusTest/TestFortranDependencies1 CactusTest/TestFortranDependencies2 CactusTest/TestFpointerNULL CactusTest/TestFreeF90 CactusTest/TestGlobalReduce CactusTest/TestInclude1 CactusTest/TestInclude2 CactusNumerical/TestLocalInterp2 CactusNumerical/TestLocalReduce CactusTest/TestLoop Carpet/TestLoopControl CactusTest/TestMath CactusTest/TestMoL CactusTest/TestPar CactusTest/TestReduce CactusTest/TestSchedule CactusTest/TestStrings CactusTest/TestTable CactusTest/TestTimers CactusTest/TestTypes CactusBase/Time CactusExamples/TimerInfo CactusUtils/TimerReport Carpet/Timers EinsteinBase/TmunuBase AEIThorns/Trigger EinsteinInitialData/TwoPunctures EinsteinExact/Vaidya2 LSUThorns/Vectors CactusWave/WaveBinarySource CactusExamples/WaveMoL CactusExamples/WaveToy1DF77 CactusExamples/WaveToy2DF77 CactusWave/WaveToyC CactusWave/WaveToyCXX CactusWave/WaveToyExtra CactusWave/WaveToyF77 CactusWave/WaveToyF90 CactusWave/WaveToyFreeF90 EinsteinAnalysis/WeylScal4 ExternalLibraries/hwloc ExternalLibraries/libjpeg ExternalLibraries/zlib Formaline: Creating git master repository... Formaline: Pushing source tree to master git repository... Undefined symbols for architecture x86_64: "MPI::Win::Free()", referenced from: vtable for MPI::Win in libthorn_PeriodicCarpet.a(periodic.cc.o) vtable for MPI::Win in libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o) vtable for MPI::Win in libthorn_Carpet.a(helpers.cc.o) vtable for MPI::Win in libthorn_CarpetEvolutionMask.a(evolution_mask.cc.o) vtable for MPI::Win in libthorn_CarpetIOASCII.a(ioascii.cc.o) vtable for MPI::Win in libthorn_CarpetIOBasic.a(iobasic.cc.o) vtable for MPI::Win in libthorn_CarpetIOHDF5.a(Input.cc.o) ... "MPI::Comm::Comm()", referenced from: MPI::Intercomm::Merge(bool) const in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Intracomm::Split(int, int) const in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Intracomm::Create(MPI::Group const&) const in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Graphcomm::Clone() const in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Cartcomm::Clone() const in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Intracomm::Clone() const in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Intracomm::Create_graph(int, int const*, int const*, bool) const in libthorn_PeriodicCarpet.a(periodic.cc.o) ... "MPI::Datatype::Free()", referenced from: vtable for MPI::Datatype in libthorn_PeriodicCarpet.a(periodic.cc.o) vtable for MPI::Datatype in libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o) vtable for MPI::Datatype in libthorn_Carpet.a(helpers.cc.o) vtable for MPI::Datatype in libthorn_CarpetEvolutionMask.a(evolution_mask.cc.o) vtable for MPI::Datatype in libthorn_CarpetIOASCII.a(ioascii.cc.o) vtable for MPI::Datatype in libthorn_CarpetIOBasic.a(iobasic.cc.o) vtable for MPI::Datatype in libthorn_CarpetIOHDF5.a(Input.cc.o) ... "_ompi_mpi_cxx_op_intercept", referenced from: MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_PeriodicCarpet.a(periodic.cc.o) MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o) MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_Carpet.a(helpers.cc.o) MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_CarpetEvolutionMask.a(evolution_mask.cc.o) MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_CarpetIOASCII.a(ioascii.cc.o) MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_CarpetIOBasic.a(iobasic.cc.o) MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool) in libthorn_CarpetIOHDF5.a(Input.cc.o) ... ld: symbol(s) not found for architecture x86_64 collect2: error: ld returned 1 exit status make[1]: *** [/Users/comerduncan/Cactus/exe/cactus_sim] Error 1 make[1]: *** Waiting for unfinished jobs.... Formaline: Pushing to local repository /Users/comerduncan/Cactus/../CactusSourceJar.git... Formaline: Optimising git repository (slow only the first time)... make: *** [sim] Error 2
Is there likely a problem with openmpi again?? Here is some info about the current ports:
port installed | grep openmpi Warning: port definitions are more than two weeks old, consider updating them by running 'port selfupdate'. openmpi @1.7.5_3 openmpi-default @1.7.5_3+gcc49 (active) openmpi-default @1.7.5_4+gcc49 openmpi-gcc49 @1.7.5_3+fortran (active) openmpi-gcc49 @1.7.5_4+fortran
Note that I had elected to activate openmpi-gcc49 @1.7.5_3+fortran (active) rather than openmpi-gcc49 @1.7.5_4+fortran because with _4 the build crashed.
For gcc49 there is:
gcc49 @4.9.2_1 gcc49 @4.9.2_2 (active) mpich-default @3.1.3_0+gcc49 mpich-default @3.1.4_0+gcc49 openmpi-default @1.7.5_3+gcc49 (active) openmpi-default @1.7.5_4+gcc49 openmpi-gcc49 @1.7.5_3+fortran (active) openmpi-gcc49 @1.7.5_4+fortran
I am also using the macports hdf5 patched:
port installed | grep hdf5
hdf5 @1.8.13_0+cxx+gcc46 hdf5 @1.8.14_0+cxx+gcc46 hdf5 @1.8.14_0+cxx+fortran+gfortran hdf5 @1.8.15-patch1_0+cxx+fortran+gfortran (active)
Can I get some further help on resolving this? I have not updated macports in a few weeks as I did not want to possibly pollute what did work a while back.
Thanks.
Comer