Summary - the jt400 directory contains three subdirectories (doc, lib and utilities). Doc contains jt400_doc.class, a self-extracting class file with the toolbox Programmer's Guide (Javadoc). Doc contains the Toolbox run-time files in two formats (a zip and a jar). Utilities contains the files that help customers download the Toolbox run-time from the AS/400. Don't unzip/unjar any of the files. When on the CD the toolbox part of the tree should contain these 5 files.
To install the Programmer's guide you just run it ("java jt400_doc") and a gui comes up asking where you want to put he pub.