Giovanni Cardone

Error when setting anisotropy

1

Hi, depending on the size of the stack and the value set for anisotropy, cellpose can fail to complete because during a resizing step one of the dimensions is set...

When launching a segmentation on a stack with the _do_3D_ parameter set to False, the value set for the parameter _min_size_ is ignored, and actually the defaul value of 15...

The character "|" seems not to be allowed anymore in the module comments. Older projects containing this character can still be loaded, but when saved with the new version they...

Error when applying opening/closing with an ellipsoid structuring element

4

Note: the error appears only when specifying the Ball element and for some combinations of radii (e.g. 4,4,1 or 8,8,2) I suspect that this is due to some rounding error...

The function `compute_snr_spots` fails because the type int is not supported anymore in numpy after version 1.24. It should be changed either to np.int64 or np.int32 https://github.com/fish-quant/big-fish/blob/e951ea850b18be4be70c5d0a419ba524c3a59ada/bigfish/detection/utils.py#L582-L583