Instruction to install the hdf5 parallel library on mac (received from Lion Kirscher)
That might be useful for other so I suggest you add this in the README
Remove everything hdf5 and mpi related from conda
$ conda uninstall hdf5 h5py mpi4py
Install mpi and parallel hdf5 somehow - on mac i strongly recommend
ghost
commented
8 years ago
Instruction to install the hdf5 parallel library on mac (received from Lion Kirscher) That might be useful for other so I suggest you add this in the README
Remove everything hdf5 and mpi related from conda
$ conda uninstall hdf5 h5py mpi4py
Install mpi and parallel hdf5 somehow - on mac i strongly recommend
homebrew.
$ brew install open-mpi $ brew tap homebrew/science $ brew install hdf5 --with-mpi
Then - with the pip in the conda (environement)
Will make sure mpi4py is linked against your systems MPI
$ pip install mpi4py
Download h5py and unpack it and make sure the conda env is active
$ python setup.py configure --mpi $ python setup.py build $ python setup.py install
This will then install a parallel h5py version.