pymepix
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Data conversion with "empty" files is not robust
If quasi empty files get converted to hdf5, the centroiding process crashes:
Exception in thread Thread-10:
Traceback (most recent call last):
File "/usr/lib/python3.7/threading.py", line 917, in _bootstrap_inner
self.run()
File "/usr/lib/python3.7/threading.py", line 865, in run
self._target(*self._args, **self._kwargs)
File "/home/cfelcmi/timepix/pymepix-viewer/pymepixviewer/dialogs/postprocessing.py", line 200, in run_post_processing_threaded
progress_callback=self.updateProgressBar,
File "/home/cfelcmi/timepix/pymepix/pymepix/post_processing.py", line 14, in run_post_processing
file_sampler.run()
File "/home/cfelcmi/timepix/pymepix/pymepix/processing/rawfilesampler.py", line 268, in run
self.push_data()
File "/home/cfelcmi/timepix/pymepix/pymepix/processing/rawfilesampler.py", line 153, in push_data
self.__calculate_and_save_centroids(*result)
File "/home/cfelcmi/timepix/pymepix/pymepix/processing/rawfilesampler.py", line 163, in __calculate_and_save_centroids
centroids = self.centroid_calculator.process(event_data)
File "/home/cfelcmi/timepix/pymepix/pymepix/processing/logic/centroid_calculator.py", line 120, in process
return self.__centroid_chunks_to_centroids(centroids_in_chunks)
File "/home/cfelcmi/timepix/pymepix/pymepix/processing/logic/centroid_calculator.py", line 169, in __centroid_chunks_to_centroids
return np.concatenate(list(chunks), axis=1)
ValueError: zero-dimensional arrays cannot be concatenated
Add a check with if len(chunks) >0
to __centroid_chunks_to_centroids
in centroid_calculator.py
probably already solves the problem.