Testprogram Implementation

The main characteristics of the testprogram I've created have already been dealt with. There are many relatively small implementational issues that also weigh quite heavily on the outcome of the testing and aren't part of the overall design. I'll quickly scan through the most interesting here. Many of the problems I've encountered are, I believe, not only applicable to our problem, but can be encountered in all sorts of programs. On the other hand, not all the choices I've made can be considered wise when seen afterwards. Both the strongpoints and the worst weaknesses can be instructive for future development. I also want note that all sourcecode is made publicly available at $http://atoms.sourceforge.net/$ under the GNU General Public License.