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simexm's Issues

Error when sometimes running simulation

I get this error when running the simulation:
cd examples; python run_sim.py; cd .. Performing labeling simulation... Performing expansion simulation... Performing optics simulation... Traceback (most recent call last): File "run_sim.py", line 148, in <module> sim_volume = optical_unit.resolve_volume(expanded_volume, expanded_dim, labeling_unit.get_fluors_used()) File "SimExm/src/simulation/models/optics.pyx", line 112, in SimExm.src.simulation.models.optics.ConfocalUnit.resolve_volume (src/simulation/models/optics.c:4138) File "SimExm/src/simulation/models/optics.pyx", line 125, in SimExm.src.simulation.models.optics.ConfocalUnit.resolve_volume (src/simulation/models/optics.c:3937) File "SimExm/src/simulation/models/optics.pyx", line 174, in SimExm.src.simulation.models.optics.ConfocalUnit.resolve_channel (src/simulation/models/optics.c:5064) File "SimExm/src/simulation/models/optics.pyx", line 423, in SimExm.src.simulation.models.optics.ConfocalUnit.normalize (src/simulation/models/optics.c:9940) ZeroDivisionError: float division

This error only occurs some of the time when I "make run" but not always. How do I fix this?

Dividing by 0 error still happening

When I run the simulator, I am getting this error:

Traceback (most recent call last):
  File "run_sim.py", line 148, in <module>
    sim_volume = optical_unit.resolve_volume(expanded_volume, expanded_dim, labeling_unit.get_fluors_used())
  File "SimExm/src/simulation/models/optics.pyx", line 112, in SimExm.src.simulation.models.optics.ConfocalUnit.resolve_volume (src/simulation/models/optics.c:4138)
  File "SimExm/src/simulation/models/optics.pyx", line 125, in SimExm.src.simulation.models.optics.ConfocalUnit.resolve_volume (src/simulation/models/optics.c:3937)
  File "SimExm/src/simulation/models/optics.pyx", line 174, in SimExm.src.simulation.models.optics.ConfocalUnit.resolve_channel (src/simulation/models/optics.c:5064)
  File "SimExm/src/simulation/models/optics.pyx", line 423, in SimExm.src.simulation.models.optics.ConfocalUnit.normalize (src/simulation/models/optics.c:9940)
ZeroDivisionError: float division

What could be the issue?

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