(2)The radio boxes define the way Autojar handles dynamic loading. They correspond to the CLI options -d and -a (see Reflection).

(3)The first checkbox controls whether or not classes from extension directories are copied to the output as well (option -e). This is normally not necessary, provided that the user's JRE extensions are the same as yours. Without this option you can still explicitly require certain extension classes to be included.
If the second box is checked, the class path will be used as filepath (see file lookup).

In the following fields, either a file path can be entered directly, or a file selection dialog can be started by clicking on "...".

(4)The path of the output archive. This specification is mandatory. If it ends with .jar, a MANIFEST entry will be added automatically.

(5)If an own manifest file is specified here, Autojar will merge its content with the MANIFEST file of the generated archive. If it contains a Main-Class entry, this class will automatically copied to the output, as always including directly or indirectly referenced classes.

(6)Here a text file containing a list of class names (one per line) may be specified. This is not essential, as class names are normally entered directly, but it allows for preparing a lengthy class list independent of Eclipse.