Fix run dynamics and flow docs

[mrariden]

• Add documentation for flow3D_smooth argument in .eval and CLI
• Fix back dynamics.compute_masks_and_clean -> dynamics.resize_and_compute_masks which was incorrectly changed originally

[mrariden]

Resolves #1385

[mrariden]

Tests passing on

• Mac
• Ubuntu

GUI manual testing:

Image loading

1. Drop image into GUI
2. Load from menu
3. Right/left arrow keys to load next image in folder

Network

1. 'run CPSAM' button works
2. Adjusting parameters & hit return to re-run dynamics
   • Diameter
   • Flow threshold
   • cell probability threshold
   • normalization percentiles
   • niter dynamics
3. User models work

GUI: display

1. Image colors work with drop down and arrow key up/down
2. Display data cycles through flows/cellprob/image/restored with drop down and pg up/down
3. Auto adjust saturation checkbox and sliders work

GUI: mouse/ROIs

1. Right click and draw cell
2. Command/ctrl and click to delete cell
3. Left click and drag to pan
4. Scroll to zoom
5. Number of ROIs updates correctly when add/delete cell
6. Masks/outline can be turned on/off with checkbox and (Z & X)
7. Delete multiple ROIs using region selection works

GUI: menus

1. All File > saving functions work
2. All Edit > functions work
3. Models >
   • Add model and remove model works
   • Train new model, adjusting training params/name works
4. Help menu items appear when clicked

Filtering

1. Sharpen and smooth radius appear correct and make a 'restored' viewer image
2. tile_norm blocksize normalizes images per block
3. Smoothing in 3D works