Web Application for high-quality, interactive and semi-automated microbial cell segmentation utilizing the Omero data management backend. The application is based on the Ionic and Anglar frameworks.

Hint: For a production setup see https://github.com/hip-satomi/ObiWan-Microbi.git

1. Install Node.js and npm (https://nodejs.org/en/)

2. Clone this repository

git clone https://github.com/hip-satomi/SegUI.git
cd SegUI

3. Install all dependencies

npm install

4. Launch the development server

ionic serve

To automatically login you can specify the username, password and redirect url as parameters. For example, your segTrackUI instance runs at localhost and you want to immeditely jump to segment image sequence (omero:Image) 201, use

http://localhost/login?u=<username>&p=<password>&r=/seg-track;imageSetId=201

where you replace username and password by your specific credentials.

Note: username and password will occur in your browser history!

SegUI is only functionable with an OMERO server as data backend. Furthermore, the ionic server is not recommended for deployment. Please use a secure web server, for example, nginx.