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return an Image Class without any properties if upscale > 1#325
Description
DeepTrack Version: 2.0.1
Platform Version: Ubuntu 22.04.3 LTS
Python Version: 3.9.12
If upscale > 1 in Optical Class, then return an Image Class without any properties after calling the store_properties method.
This may be a bug, since I see similar code that uses the properties returned in the Image class with the condition that upscale = 4. But in this similar code, the DeepTrack version remains unknown (<=1.7 since it use Tensorflow).
Code:
from deeptrack.optics import Fluorescence
from deeptrack.scatterers import PointParticle
from deeptrack import Arguments
upscale_para = Arguments(upscale=1)
optics = Fluorescence(
NA=0.7,
wavelength=660e-9,
resolution=1e-6,
magnification=10,
refractive_index_medium=1.33,
upscale=upscale_para.upscale,
padding=(10, 10, 10, 10),
output_region=(0, 0, 64, 64),
aberration=None,
)
scatterer = PointParticle(
intensity=100,
position_unit="pixel",
position=(32, 32),
)
imaged_scatterer = optics(scatterer).bind_arguments(upscale_para)
imaged_scatterer.store_properties()
p1 = imaged_scatterer(upscale=1)
print(p1.properties)
p2 = imaged_scatterer(upscale=2)
print(p2.properties)
p3 = imaged_scatterer(upscale=3)
print(p3.properties)
p4 = imaged_scatterer(upscale=4)
print(p4.properties)
Output:
[{'position': array([32, 32]), 'z': 0.0, 'value': 1.0, 'position_unit': 'pixel', 'upsample': 1, 'voxel_size': array([1.e-07, 1.e-07, 1.e-07]), 'pixel_size': 1e-07, '_position_sampler': (32, 32), 'upsample_axes': (), 'intensity': 100, 'name': 'Fluorescence'}, {'NA': 0.7, 'wavelength': 6.6e-07, 'refractive_index_medium': 1.33, 'magnification': 10, 'resolution': 1e-06, 'padding': [10, 10, 10, 10], 'output_region': [0, 0, 64, 64], 'voxel_size': array([1.e-07, 1.e-07, 1.e-07]), 'pixel_size': 1e-07, 'upscale': 1, 'limits': array([[30, 35],
[30, 35],
[-2, 3]], dtype=int32), 'fields': [], 'aberration': None, 'name': 'Fluorescence'}, {'upscale': 1, 'name': 'Arguments'}, {'name': 'Microscope'}]
[{'upscale': 2, 'name': 'Arguments'}, {'name': 'Microscope'}]
[{'upscale': 3, 'name': 'Arguments'}, {'name': 'Microscope'}]
[{'upscale': 4, 'name': 'Arguments'}, {'name': 'Microscope'}]