[Users] sim build problems

[Roland Haas]

Hello Lorenzo,

Thank you for your email.

Looking at the errors and the fact that it used the clang compiler I
would suspect that the issue is with using clang.

We document how to use gcc on macOS and I would suggest you try this
first.

You can find instructions at the top of the "New user tutorial"
notebook:

https://github.com/nds-org/jupyter-et/blob/master/tutorial-server/notebooks/CactusTutorial.ipynb

in the "Prerequisites" section.

--8<--

On Mac, please first

    Install Xcode from the Apple App Store. In addition agree to Xcode license and install the Xcode Command Line Tools in Terminal

    sudo xcodebuild -license
    sudo xcode-select --install

    when using MacPorts
        install MacPorts for your version of the Mac operating system, if you have not already installed it (https://www.macports.org/install.php).
        Next, please install the following packages, using the commands:

        sudo port -N install pkgconfig gcc11 openmpi-gcc11 fftw-3 gsl jpeg zlib openssl zlib bash subversion ld64
        # required of macOS Monterey, see https://gcc.gnu.org/bugzilla/show_bug.cgi?id=102992
        sudo port -N install hdf5 +fortran +gcc11 +openmpi configure.env="GFORTRAN_UNBUFFERED_ALL=1"
        sudo port select mpi openmpi-gcc11-fortran
        sudo port select gcc mp-gcc11

    when using HomeBrew
        install HomeBrew for your version of the Mac operating system, if you have not already installed it (https://brew.sh/).
        Next, please install the following packages, using the commands:

        brew install fftw gcc gsl hdf5 hwloc jpeg open-mpi openssl zlib pkg-config bash subversion
--8<--

Yours,
Roland

> Hi,
> I'm trying to build  the EinsteinToolkit running the command:
> 
> ./simfactory/bin/sim build -j2 --thornlist ../einsteintoolkit.th.
> 
> on my mac but the result, after nearly 1h, is the following:
> 
> Undefined symbols for architecture x86_64:
> 
>   "_GOMP_loop_nonmonotonic_dynamic_next", referenced from:
> 
> 
> __ZNK13CarpetInterp219fasterp_setup_gen_tINS_17fasterp_src_loc_tEE11interpolateEPK4_cGHRKSt6vectorIiSaIiEERS6_IPdSaISB_EE._omp_fn.0
> in fasterp.cc.o
> 
> 
> __ZNK13CarpetInterp219fasterp_setup_gen_tINS_22fasterp_eno2_src_loc_tEE11interpolateEPK4_cGHRKSt6vectorIiSaIiEERS6_IPdSaISB_EE._omp_fn.0
> in fasterp.cc.o
> 
> 
> __ZN10NaNChecker10CHECK_DATAIfEEvPKT_iPKdPKNS_17t_nanchecker_infoERiiiiiPKS5_PKcRK16GROUPDYNAMICDATAi._omp_fn.0
> in NaNCheck.cc.o
> 
> 
> __ZN10NaNChecker10CHECK_DATAIdEEvPKT_iPKdPKNS_17t_nanchecker_infoERiiiiiPKS5_PKcRK16GROUPDYNAMICDATAi._omp_fn.0
> in NaNCheck.cc.o
> 
> 
> __ZN10NaNChecker10CHECK_DATAIeEEvPKT_iPKdPKNS_17t_nanchecker_infoERiiiiiPKS5_PKcRK16GROUPDYNAMICDATAi._omp_fn.0
> in NaNCheck.cc.o
> 
>       _SetMatrix_JFD._omp_fn.0 in FuncAndJacobian.c.o
> 
>       _J_times_dv._omp_fn.0 in FuncAndJacobian.c.o
> 
>       ...
> 
>   "_GOMP_loop_nonmonotonic_dynamic_start", referenced from:
> 
> 
> __ZNK13CarpetInterp219fasterp_setup_gen_tINS_17fasterp_src_loc_tEE11interpolateEPK4_cGHRKSt6vectorIiSaIiEERS6_IPdSaISB_EE._omp_fn.0
> in fasterp.cc.o
> 
> 
> __ZNK13CarpetInterp219fasterp_setup_gen_tINS_22fasterp_eno2_src_loc_tEE11interpolateEPK4_cGHRKSt6vectorIiSaIiEERS6_IPdSaISB_EE._omp_fn.0
> in fasterp.cc.o
> 
> 
> __ZN10NaNChecker10CHECK_DATAIfEEvPKT_iPKdPKNS_17t_nanchecker_infoERiiiiiPKS5_PKcRK16GROUPDYNAMICDATAi._omp_fn.0
> in NaNCheck.cc.o
> 
> 
> __ZN10NaNChecker10CHECK_DATAIdEEvPKT_iPKdPKNS_17t_nanchecker_infoERiiiiiPKS5_PKcRK16GROUPDYNAMICDATAi._omp_fn.0
> in NaNCheck.cc.o
> 
> 
> __ZN10NaNChecker10CHECK_DATAIeEEvPKT_iPKdPKNS_17t_nanchecker_infoERiiiiiPKS5_PKcRK16GROUPDYNAMICDATAi._omp_fn.0
> in NaNCheck.cc.o
> 
>       _SetMatrix_JFD._omp_fn.0 in FuncAndJacobian.c.o
> 
>       _J_times_dv._omp_fn.0 in FuncAndJacobian.c.o
> 
>       ...
> 
>   "_GOMP_loop_nonmonotonic_guided_next", referenced from:
> 
>       ___noexcision_mod_MOD_multiply._omp_fn.0 in NoExcision_mod.F90.o
> 
>       ___noexcision_mod_MOD_residual._omp_fn.0 in NoExcision_mod.F90.o
> 
>       ___noexcision_mod_MOD_residual._omp_fn.1 in NoExcision_mod.F90.o
> 
>       ___noexcision_mod_MOD_residual._omp_fn.2 in NoExcision_mod.F90.o
> 
>   "_GOMP_loop_nonmonotonic_guided_start", referenced from:
> 
>       ___noexcision_mod_MOD_multiply._omp_fn.0 in NoExcision_mod.F90.o
> 
>       ___noexcision_mod_MOD_residual._omp_fn.0 in NoExcision_mod.F90.o
> 
>       ___noexcision_mod_MOD_residual._omp_fn.1 in NoExcision_mod.F90.o
> 
>       ___noexcision_mod_MOD_residual._omp_fn.2 in NoExcision_mod.F90.o
> 
>   "_GOMP_parallel", referenced from:
> 
>       _ADMDerivatives_CalcDerivatives in calc_derivs.cc.o
> 
>       _Baikal_zero_rhss in zero_rhss.c.o
> 
>       _Baikal_floor_the_lapse in floor_the_lapse.c.o
> 
>       _Baikal_ADM_to_BSSN in ADM_to_BSSN.c.o
> 
>       _Baikal_BSSN_to_ADM in BSSN_to_ADM.c.o
> 
>       _Baikal_BSSN_Ricci_FD_order_2 in BSSN_Ricci_FD_order_2.c.o
> 
>       _Baikal_BSSN_Ricci_FD_order_4 in BSSN_Ricci_FD_order_4.c.o
> 
>       ...
> 
>   "__gfortran_os_error_at", referenced from:
> 
>       _ahfinder_ in AHFinder.F.o
> 
>       _ahfinder_dis_ in AHFinder_dis.F.o
> 
>       _ahfinder_int_ in AHFinder_int.F.o
> 
>       _linmin_ in AHFinder_pow.F.o
> 
>       _ahfinder_initguess_ in AHFinder_initguess.F.o
> 
>       _ahfinder_gau_ in AHFinder_gau.F.o
> 
>       ___carpet_boxtypes_MOD_splitregionsrecursive in carpet_boxtypes.F90.o
> 
>       ...
> 
> ld: symbol(s) not found for architecture x86_64
> 
> collect2: error: ld returned 1 exit status
> 
> make[1]: *** [/Users/lorenzo/Cactus/exe/cactus_sim] Error 1
> 
> make: *** [sim] Error 2
> 
> 
> Is there a way to make it work?
> 
> 
> I'm using a macbook air (2017) with macOs monterey 12.3 and xcode 13.3.
> 
> 
> the gcc version is the following:
> 
> 
> Apple clang version 13.1.6 (clang-1316.0.21.2)
> 
> Target: x86_64-apple-darwin21.4.0
> 
> Thread model: posix
> 
> InstalledDir:
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
> 
> 
> Best regards,
> 
> Lorenzo.



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