- Java 14 or newer
Run gradlew build -x test
The preferred way to run OpenMicroanatomy Server is using Docker; see the wiki for more instructions.
java -jar <jar> [-port <port>]
On your first startup, you'll be prompted to create the initial organization and administrator account.
After the initial setup, stop the server, edit the application.conf which was generated and restart the server.
See the wiki for instructions for setting up the configuration, reverse proxies and more.
The tiler is a sub-process which runs automatically with the server. The tiler converts uploaded slides into smaller tiles.
NOTICE: The tiler fails if no OpenSlide binaries are available. To solve this issue either add the libraries to the same directory as the server.jar or to your JAVA_HOME. These binaries are available at maven/org/openslide/openslide/3.4.1_2 in this repository. Extract the .jar file corresponding to your operating system.
Available at https://edu.qupath.yli-hallila.fi/docs/#/.
This is updated manually and may be out of date. Navigate to http://localhost:<port>/swagger for the latest API docs on a development server.