Anyone having installation errors like this? Version 3.1, Mac OS Sierra

[ghentr]

I have a problem that manifests itself two ways: 

   1) After installing, when I try to run a model, I get this message:

from terminaltables import AsciiTable

ImportError: No module named 'terminaltables'

2) Trying to trace this to its source, it seems like it might be a problem with the required gcc installation, which is also throwing errors (discovered upon deleting gprMax and attempting to reinstall it);  conda env create -f conda_env.yml eventually yields:

 Failed building wheel for mpi4py

  Running setup.py clean for mpi4py

Failed to build mpi4py

Installing collected packages: mpi4py, terminaltables, tqdm

  Running setup.py install for mpi4py ... error

    Complete output from command /anaconda/envs/gprMax/bin/python -u -c "import setuptools, tokenize;__file__='/private/var/folders/y9/jpm29xkx63g31pnzv1h196w00000gn/T/pip-build-lwm1jt3j/mpi4py/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /var/folders/y9/jpm29xkx63g31pnzv1h196w00000gn/T/pip-5i5peq2r-record/install-record.txt --single-version-externally-managed --compile:

.....

    MPI configuration: [mpi] from 'mpi.cfg'

    checking for library 'lmpe' ...

    gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/anaconda/envs/gprMax/include -arch x86_64 -c _configtest.c -o _configtest.o

    gcc -flat_namespace -undefined suppress -arch x86_64 _configtest.o -llmpe -o _configtest

    ld: library not found for -llmpe

    clang: error: linker command failed with exit code 1 (use -v to see invocation)

    failure.

  ....

(and a bunch more manifestations of this same thing)

....

 gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -I/anaconda/envs/gprMax/include -arch x86_64 -I/anaconda/envs/gprMax/include/python3.5m -c _configtest.c -o _configtest.o

    _configtest.c:2:10: fatal error: 'mpi.h' file not found

    #include <mpi.h>

             ^

    1 error generated.

    failure.

    removing: _configtest.c _configtest.o

    error: Cannot compile MPI programs. Check your configuration!!!

    

    ----------------------------------------

Command "/anaconda/envs/gprMax/bin/python -u -c "import setuptools, tokenize;__file__='/private/var/folders/y9/jpm29xkx63g31pnzv1h196w00000gn/T/pip-build-lwm1jt3j/mpi4py/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /var/folders/y9/jpm29xkx63g31pnzv1h196w00000gn/T/pip-5i5peq2r-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /private/var/folders/y9/jpm29xkx63g31pnzv1h196w00000gn/T/pip-build-lwm1jt3j/mpi4py/

CondaValueError: pip returned an error.

Any takers?

Thanks.

[Craig Warren]

Hi ghentr,

Welcome to the forum!

The problem you are experiencing is because the Python package mpi4py is not being installed properly, and because of that the subsequent packages terminaltables and tqdm never get installed. This all happens as part of creating the conda environment. mpi4py depends on having an underlying MPI installation - usually OpenMPI - and I suspect you don't have this which is why it is failing. You can install OpenMPI with homebrew -

brew install openmpi

then try creating the condo environment again

conda env create -f conda_env.yml

Alternatively if you don't think you'll ever use the MPI functionality (see User Guide - http://docs.gprmax.com/en/latest/openmp_mpi.html#mpi) you can edit the condo_env.yml file and remove the mpi4py line.

Kind regards,

Craig

[ghentr]

Thanks, Craig; problem solved!