Define core classes

[heavyimage]

Define core classes to be used by our application.

Use OOP conventions, right?

Here's a list of the classes with the imagined fields we'll need:

Image:

• Path to the file
• Image metatdata (grid, image number, date recorded, magnification...)
• Transformations (spatial and image-based)

Slice:

As of Milestone 1.0, A single image.

• Index
• Depth in space
• Descriptive name (so we can display it with something more useful than "Slice 7"?)

Shape:

Drawn on top of Slices to represent contributions of structures on this slice.

• List of points / vectors. Not necessarily contiguous (eg: a fork)
• End fudge distance (positive or negative)

Structure:

An actual 3d structure. The combination of many shapes.

• Start / end depth (better to use depth than index so if more images are added it doesn't change!)
• Collection of included shapes
• Interpolation method for reconstruction (linear, cubic etc)
• Start cap length, end cap length

Project:

A project file. Contains multiple shapes / structures / slices / images

• Species name
• Descriptive Project name (not just species, right? There might be a few reconstructions of the same species...)
• Preferences
• Regex (for now hard coded but useful to store per project or per user if we want to show to other scientists)
• List of Types (Mitochondria / tube type A, tube type B etc), each with a color and whether it is shape-based or single-point based.