Information for topology-changing TopologyMoves now printed at the end.
Merge branch 'structalign' of ssh://github.com/statalign/statalign into structalign_spike
LOCAL move now outputs only non-root topology change rate.
Topology moves now print to console when a non-root move is accepted.
Several changes to improve efficiency of StructAlign, by caching
frequently-used matrices. Gains are quite significant.
Changes to test single P for hmm3.
Merge branch 'structalign' of https://github.com/statalign/statalign.git
into structalign

Conflicts:
	src/statalign/base/Mcmc.java
Alignment move acceptance rates now only count moves that change the
alignment.
Merge branch 'structalign' of ssh://github.com/statalign/statalign into structalign
Fixed rare bug arising when restoring state from combination moves
involving two continuous StructAlign parameters.
Merged upstream changes from structalign.