Problem report for Slicer 4.13.0-2021-09-13 linux-amd64: When I’m trying to create h5 file in scripted module using h5py package, Slicer 4.13 crashes without any error (even in attached debugger). File appears in filesystem without content (0 bytes). Does not occur on Slicer 4.11.

I was able to reproduce the issue. It seems that HDF5 that is shipped with ITK-5.2 conflicts with HDF in h5py. gdb traceback result Program terminated with signal SIGSEGV, Segmentation fault. #0 0x00007f6c491e0e54 in itk_H5F_get_intent () from /home/perklab/Slicer/Slicer-4.13.0-2021-09-10-linux-a…

Slicer crashes when creating h5 file

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szymswiat (Szymon Światczyński) September 18, 2021, 6:51pm 3

My OS: Ubuntu 20.04.3 LTS (Focal Fossa)
Kernel version: 5.9.0-050900-generic

Just type in console:

import h5py
f = h5py.File('new_file.h5', 'w')

The problem of itk.ImageFileReader

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Slicer crashes when creating h5 file

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