Future / to do

• [ ] Document the code better. At least sensible docstrings for the major classes.

• [ ] Correct for shifts between channels. It is assumed that this has been performed by some other tool.

• [ ] Tear out the assert and replace it with a proper sys.exit(-1). For example in places like this:

  assert Confirm.ask("Confirm settings and proceed?")
  

• [ ] When calculating the radial profiles it would be much more memory efficient to load-process-free one image at a time rather than loading everything into RAM.

• [ ] Place temporary files an a separate folder or at least offer a cleanup command to remove all files created by radiantkit.

Refactoring

• [ ] Remove some intermediate classes, for example ImageBase, ParticleBase and possible also Particle.

• [ ] Integrate the RadialDistanceCalculator directly into Nucleus?

• [ ] Rename BoundingElement to BoundingBox etc …

• [ ] rename ND2Reader2 to rkND2reader and CziFile2 to rkCziFile.

• [ ] Merge Series and ChannelList

• [ ] rename Series to FOV (it is a multi channel FOV).

• [ ] consider placing the script in a separate package (some decoupling needed).