Issue with tables and HDF5 python package - pandas

Question

Here is my code:
import os
import pandas as pd
def load_hdf(filename):
"""
Load the first key of an HDF file
"""
hdf = pd.HDFStore(filename,mode = 'r')
keys = hdf.keys()
if not keys:
hdf.close()
return pd.DataFrame()
data_df = hdf.get(keys[0])
hdf.close()
return data_df
And when I do:
load_hdf(os.path.join(PATH, 'crm.hd5'))
I have this error:
HDFStore requires PyTables, "No module named 'tables'" problem importing
When I try:
pip install tables
I have the error:
Using Python 3.7.0 (v3.7.0:1bf9cc5093, Jun 26 2018, 23:26:24)
* USE_PKGCONFIG: False
.. ERROR:: Could not find a local HDF5 installation.
You may need to explicitly state where your local HDF5 headers and library can be found by setting the ``HDF5_DIR`` environment variable or by using the ``--hdf5`` command-line option.
...
Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/2s/sn3gzfwd6_37v0ggqd0n8qy00000gn/T/pip-install-1mx6wjd3/tables/
I already have Pytables, hdf5 in my Anaconda. I have Python 3.7.

Answer 1

I also had pytables installed and could not find a solution. What worked for me is to install the release candidate of HDF5 2.8.0rc1 (as seen here). Seems that the HDF5 version that panda installs is not fully compatible.
So try:
pip install h5py==2.8.0rc1
Hope it helps.