pd.read_hdf throws 'cannot set WRITABLE flag to True of this array'

Question

When running

pd.read_hdf('myfile.h5')

I get the following traceback error:

[[...some longer traceback]]

~/.local/lib/python3.6/site-packages/pandas/io/pytables.py in read_array(self, key, start, stop) 2487 2488 if isinstance(node, tables.VLArray): -> 2489 ret = node[0][start:stop] 2490 else: 2491 dtype = getattr(attrs, 'value_type', None)

~/.local/lib/python3.6/site-packages/tables/vlarray.py in getitem (self, key)

~/.local/lib/python3.6/site-packages/tables/vlarray.py in read(self, start, stop, step)

tables/hdf5extension.pyx in tables.hdf5extension.VLArray._read_array()

ValueError: cannot set WRITEABLE flag to True of this array

No clue what's going on. I've tried reinstalling tables , pandas everything basically, but doesn't want to read it.

Answer 1

Are you using numpy 1.16? It is incompatible with the latest release of pytables (see https://github.com/PyTables/PyTables/blob/v3.4.4/tables/hdf5extension.pyx#L2155 ) but the pytables team have not yet released a fixed version: https://github.com/PyTables/PyTables/issues/719

The only way I found to fix this is to downgrade numpy.

Answer 2

将 PyTables 升级到版本 > 3.5.1 应该可以解决这个问题。

pip install --upgrade tables

Answer 3

似乎是time-date字符串导致了问题，当我将它们从文本转换为 numpy (pd.to_datetime())并存储表时，问题就消失了，所以也许它与文本数据有关？