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JAL-3130 refactored a lot of this. See the JAVA-11-README

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JAL-1988 JAL-3130 Now we're in Java 11 land, using jdeps and jlink have made a pared down Java 11 (44MB) in jalview_java. Run with './jalview_java/bin/java -cp "classes:lib/*:j11lib/*" jalview.bin.Jalview'.

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