JalviewJS is JavaScript and HTML5, so no special server configuration is required except ‘CORS’ if you want to make use of JalviewJS’s built in web service clients.

To make it easy, we distribute JalviewJS as a github repository that you can clone into your preferred location under your own site’s docroot.

cd <path to directory where JalviewJS should be installed> git clone https://github.com/jalview/jalview-js.git

For more information and the latest instructions, head over to https://jalview.github.io/jalview-js/