How can you increase Total PermGen Memory cap when running atlas-run-standalone?

I am trying to run JIRA version 6.4-OD-12-012 and I bundle some Atlassian connect plugins on load. However, the permgen memory usage (which is capped at 256m) is at 98% so if I want to for example install JIRA Agile, I get java.lang.OutOfMemoryError: PermGen space error.

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Try

atlas-run-standalone --jvmargs '-XX:MaxPermSize=512M'

(or whatever space you think is appropriate)

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