gmod/apollo3server repository overview

⁠Apollo

⁠ Download the latest release⁠

A collaborative, real-time, genome annotation editor. The stack is a Java web application / database backend and a Javascript client that runs in a web browser as a JBrowse plugin.

Cite Apollo using Dunn NA, Unni DR, Diesh C, Munoz-Torres M, Harris NL, Yao E, et al. (2019) Apollo: Democratizing genome annotation. PLoS Comput Biol 15(2): e1006790. https://doi.org/10.1371/journal.pcbi.1006790⁠

Questions / Comments / Community contact can be sent to our Apollo user mailing list⁠ or posted directory to our google group⁠. Old questions are archived on Nabble⁠.

Complete Apollo installation and configuration instructions are available from the Apollo documentation pages⁠

The Apollo client is implemented as a plugin for JBrowse⁠. Additional JBrowse plugins may be found in the JBrowse registry⁠ and configured in apollo-config.groovy.

We provide a Demonstration Apollo⁠ site and an integrated service is provided by UseGalaxy Europe⁠.

The User's Guide⁠ provides guidance on how to use it. Please feel free to update this documentation.

⁠Launch for development (server only)

./grailsw run-app 

OR

./gradlew bootRun 

⁠Run tests

./grailsw test-app

OR

./gradlew test

⁠Run with Docker

 docker build . 
 docker run -it --publish=8888:8080 --publish=7777:7474 <built image>
 

For pre-built:

 docker run -it --publish=8888:8080 --publish=7777:7474 gmod/apollo3server:latest

Connect at http://localhost:8888/⁠ . . . eg. http://localhost:8888/user/loadUsers⁠

You'll need to kill the docker instance here, for the moment.

⁠Thanks to

YourKit supports open source projects with innovative and intelligent tools for monitoring and profiling Java and .NET applications. YourKit is the creator of YourKit Java Profiler⁠, YourKit .NET Profiler⁠, and YourKit YouMonitor⁠.

⁠Note

Under development . . more details to come.