An instantaneous, collaborative, 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.
For general information on Apollo, go to: http://genomearchitect.org/
Complete Apollo installation and configuration instructions are available at: http://webapollo.readthedocs.org
The Apollo client is implemented as a plugin for JBrowse, for more information on JBrowse, please visit: http://jbrowse.org
Apollo 2.0.1 is now released.
Apollo 2.0.0 is now released! See the announcement.
The quick-start guide shows how to easily get started with Apollo, and further setup steps are shown how to deploy on a production server with customized settings in the setup guide and configuration guide.
You can follow steps in our migration guide to move annotations and data from older versions.
Apollo 2.0 allows you to add multiple data directories to your webapp, and it expects the data directories to be stored outside of the tomcat webapps directory. Use the WA2.0 quick-start guide to learn how to add new data directories for your organisms.
Important Note: All data from a webapps directory will disappear when doing tomcat "undeploy" operations, even if it is a symlink..
To launch Apollo with temporary settings, use the apollo run-local command, which will initialize your server
automatically with an H2 (zero-configuration) database.
apollo run-local 8080
It will also use your custom settings if an apollo-config.groovy file has been setup.
Users can generate a war file (for example target/apollo-1.0.2.war) that will be copied into their tomcat webapps directory for production deployments:
apollo deploy
Note: make sure to create an apollo-config.groovy file following the sample data (e.g. sample-postgres-apollo-config.groovy) to make sure you use your preferred database settings.
apollo devmode
Thanks to YourKit for providing us the use of their YourKit Java Profiler. YourKit supports Open Source.