python - Close an open h5py data file -


in our lab store our data in hdf5 files trough python package h5py.

at beginning of experiment create hdf5 file , store array after array of array of data in file (among other things). when experiment fails or interrupted file not correctly closed. because our experiments run ipython reference data object remains (somewhere) in memory.

is there way scan open h5py data objects , close them?

this how done (i not figure out how check closed-ness of file without exceptions, maybe find):

import gc obj in gc.get_objects():   # browse through objects     if isinstance(obj, h5py.file):   # hdf5 files         try:             obj.close()         except:             pass # closed

another idea:

dpending how use files, using context manager , with keyword this?

with h5py.file("some_path.h5") f:    f["data1"] = some_data

when program flow exits with-block, file closed regardless of happens, including exceptions etc.


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