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Is your feature request related to a problem? Please describe.
In cell candidate detection, we set aside two very high integer values (currently SOMA_CENTRE_VALUE as np.uint16.max-1 and THRESHOLD as np.uint16.max-2) to mark pixels as belonging to a cell after 3D and 2D filtering respectively.
This is a problem (see #383), so will switch to np.uint32.
Additionally though, we define this in several places
Is your feature request related to a problem? Please describe.
In cell candidate detection, we set aside two very high integer values (currently SOMA_CENTRE_VALUE as
np.uint16.max-1
and THRESHOLD asnp.uint16.max-2
) to mark pixels as belonging to a cell after 3D and 2D filtering respectively.This is a problem (see #383), so will switch to
np.uint32
.Additionally though, we define this in several places
cellfinder/cellfinder/core/detect/filters/volume/structure_detection.py
Line 164 in 749af84
cellfinder/cellfinder/core/detect/filters/setup_filters.py
Line 24 in 749af84
cellfinder/cellfinder/core/detect/filters/volume/structure_splitting.py
Line 95 in 749af84
Describe the solution you'd like
These important labels should only be defined in one place.
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