ToReinberger
commented
10 months ago the signal from the yalk sac seems to interfere with your analysis. Maybe try to avoid auto-fluorescence or draw the selection box a bit smaller. I try to figure out how to exclude the background noise completely in a later version. Is it also possible to increase the magnification of your movies?
Dear Dr. Reinberger,
I hope this email finds you well. My name is Giovanni Risato, and I am a Post-Doc at the University of Padua, Italy. We are using your software for the analysis of zebrafish hearts for our research. It is very useful programm. We have analysied hundreds of videos without any problems, however, during the last analysis, the problem has emerged. The code returns the following message:
Take max from temporary thresholds: 169 173 7 5 1 Threshold: 190 Exception in thread Thread-1: Traceback (most recent call last): File "C:\Users\user\AppData\Local\Programs\Python\Python39\lib\threading.py", line 950, in _bootstrap_inner self.run() File "C:\Users\user\AppData\Local\Programs\Python\Python39\lib\threading.py", line 888, in run self._target(*self._args, self._kwargs) File "C:\Users\user\Desktop\Programs\pyHeart4Fish_scripts\heart_beat_GUI_only_one_fish_multiprocessing.py", line 270, in start_progress_bar process_other_images_and_plot_hearts(self.img, params_temp) File "C:\Users\user\Desktop\Programs\pyHeart4Fish_scripts\heart_beat_GUI_only_one_fish_multiprocessing.py", line 901, in process_other_images_and_plot_hearts x_min, x_max = int(np.min(heart[1]) 0.80), int(np.max(heart[1]) 1.20) File "<__array_function__ internals>", line 5, in amin File "C:\Users\user\AppData\Local\Programs\Python\Python39\lib\site-packages\numpy\core\fromnumeric.py", line 2879, in amin return _wrapreduction(a, np.minimum, 'min', axis, None, out, File "C:\Users\user\AppData\Local\Programs\Python\Python39\lib\site-packages\numpy\core\fromnumeric.py", line 86, in _wrapreduction return ufunc.reduce(obj, axis, dtype, out, passkwargs) ValueError: zero-size array to reduction operation minimum which has no identity
The software cannot procceed with the analysis and give any results. Thank you in advance for considering our request. If you require some additional information, please do not hesitate to contact me here or by email giovanni.risato@phd.unipd.it
Best regards, Giovanni.