-```
-cd jalview
-```
-and you'll find most of the Jalview source files under `src`. Some important resource
-files can be found under `resources`. The helper jar libraries can currently be found
-in `j8lib` for Java 1.8 runtime and `j11lib` for Java 11 runtime.
+| dir | contains|
+|-----------|---------|
+| `src` | the Jalview application source `.java` files
+| `resource`| non-java resources used in the Jalview application |
+| `classes` (after compiling) | contains the compiled Java classes for the Jalview application
+| `bin` | used by eclipse for compiled classes
+| `j8lib` | libraries needed to run Jalview under Java 1.8
+| `j11lib` | libraries needed to run Jalivew under Java 11
+| `build` | the gradle build dir
+| `dist` | assembled `.jar` files needed to run Jalview application
+| `examples`| example input files usable by Jalview
+| |
+
+Note that you need a Java 11 JDK to compile Jalview whether your target build is Java 1.8 or Java 11.