The workaround for now is to explicitly direct the AWT packages to run in headless mode so that it can access Java graphics features normally delegated to the graphics host from the command construction (set property flag). This is only needed for tools like those in figure-generation, the DNA Shape tools, the insert size histogram tools, etc that generate images over the course of execution.
java -jar -Djava.awt.headless=true $SCRIPTMANAGER figure-generation merge-heatmap ...
An easy longer term solution might be to switch to headless mode as the main argument parsing recognizes the command as a CLI command with:
System.setProperty("java.awt.headless", "true");
Read More: https://www.oracle.com/technical-resources/articles/javase/headless.html
The workaround for now is to explicitly direct the AWT packages to run in headless mode so that it can access Java graphics features normally delegated to the graphics host from the command construction (set property flag). This is only needed for tools like those in figure-generation, the DNA Shape tools, the insert size histogram tools, etc that generate images over the course of execution.
An easy longer term solution might be to switch to headless mode as the main argument parsing recognizes the command as a CLI command with:
Read More: https://www.oracle.com/technical-resources/articles/javase/headless.html