Areas of GUI improvement before v2.0.0-alpha

[qin-yu]

Here I summarise and expand discussions with @akreshuk and @lorenzocerrone.

In general, the user interface should have sequential layout and minimal options. Here are some details:

Logic Fix

• [x] Hide watershed result once clustering result is added to the viewer
• [x] Remove Scribble layers from proofreading init
• [x] Update proofreading image selections

Formal Fix

• [x] After prediction it should be proofreading (-> finetuning) -> extra
• [x] Improve widget labels and make the case consistent
  • [x] "Pick a file" in Data
  • [x] "Run clustering" to "Run segmentation" in Main
  • [x] "Pmap/Image" to "Boundary image" everywhere
  • [x] "Save state" to "Save current proofreading snapshot"
  • [x] "Stacked: 2D; 3D" to "Mode: 2D watershed; 3D watershed"
  • [x] "Min-size"
  • [x] "Extract correct labels" to "Freeze correct labels"
• [x] change the name of the interface from "napari" to PlantSeg related
• [x] fix "MutexWS" name/val correspondence
  • #325

Missing widgets

• [x] Add cropping widget
• [x] Add label processing widgets

New Widgets

• [x] create home/docs widget and fix warnings from Qt Main Window
  • #329
• [ ] have a one click solution for nuclei to avoid going back and forth

Widget Refactors

• [ ] Show image dimension before letting users choose between, say, "ZYX" or "CZYX"
• [x] Remove "Lifted Multicut" if we have nuclei-assisted fix or move to aggl. widget
• [ ] Move "Add custom model" to prediction widget
• ~~Move tabs to top (not so Napary)~~