This is the repo for Gooper, a tool to reconstitute 3d volumes from micrographs (Electron microscope photos) of thin slices of dehydrated protist cells.
This is all to assist Aaron Heiss in his work though we're interested to see if others will find this useful!
* Name subject to name change!
We're going to combine our two prototypes together along with some new application flows developed in some meetings into a standalone electron app.
We're going to be performing distributed development, design and testing using github for code and issue tracking.
To see our vision of what a fully-featured app might look like, check out the sketch files in the design folder.
This application originally began it's life as an entry for the 'Iron out the kinks' challenge at the 2018 AMNH "Hack the Deep" hackathon. There were a few earlier iteartions that can still be accessed on other branches of this repo.
All of the Processing .pde files are located in the processing_mockup directory and can be run independantly of any of the Node/Electron stuff. There is also a set of sample images in the processing_mockup/data directory, which can be used to test the app.
Check out the "3dmode" branch to see a version that includes a 3D view of the curves. At the moment, this branch is incompatible with the Electron app.
This project also includes an Electron app that uses Processing.js
If you want to run the Electron app, run npm install and npm start.
At the moment the Electron app UI is very incomplete, and the only interactable elements are the "Load Images" button and the canvas.