Updated JNLP
Made DialogStructures a singleton, but not a static class
Made DialogChains a singleton, but not a static class
Fixed label setting in case of 3D structure alignment
Made output of sequence alignment serializable
Explicit setting of charset of UTF-8
Made DialogAngles a singleton, but not a static class
Made DialogManager a singleton, but not a static class
Removed unused methods
Made some classes final
Merge branch 'release-1.0' into develop