I'm M1 user and coding on python 3.9.10 up to now.
I try updating lib. with homebrew, especially for python 3.9.12 and HDF5. Also I reinstalled h5py. Here I tried.
brew update & upgrade
brew reinstall hdf5
export HDF5_DIR=/opt/homebrew/Cellar/hdf5/1.13.0/
pip install h5py --upgrade --no-dependencies --force
All upgrade was done. However, I met such an error message when I tried codes, which has no error based on previous build environments.
> import h5py
> File "/opt/homebrew/lib/python3.9/site-packages/h5py/__init__.py", line 25, in <module>
> from . import _errors
> ImportError: dlopen(/opt/homebrew/lib/python3.9/site-packages/h5py/_errors.cpython-39- darwin.so, 0x0002): Library not loaded: /opt/homebrew/opt/hdf5/lib/libhdf5.300.dylib
> Referenced from: /opt/homebrew/lib/python3.9/site-packages/h5py/_errors.cpython-39-darwin.so
> Reason: tried: '/opt/homebrew/opt/hdf5/lib/libhdf5.300.dylib' (no such file), '/usr/local/lib/libhdf5.300.dylib' (no such file), '/usr/lib/libhdf5.300.dylib' (no such file), '/opt/homebrew/Cellar/hdf5/1.12.1_1/lib/libhdf5.300.dylib' (no such file), '/usr/local/lib/libhdf5.300.dylib' (no such file), '/usr/lib/libhdf5.300.dylib' (no such file)
As shown above, hdf5_dir is fixed on 1.12.1_1 after brew upgrade, even I already installed 1.13.0 which didn't make a problem until trying brew upgrade.
Please, help me if anyone know what makes the problem and how to solve it.
Thanks in advance.
The following worked for me. First, uninstall h5py and hdf5 (also deleted my pip cache, but not sure how relevant this is). Then just run
> brew install hdf5
> export HDF5_DIR="$(brew --prefix hdf5)"
> pip install --no-binary=h5py h5py