Merge branch 'structalign' of https://github.com/statalign/statalign.git
into structalign

Conflicts:
	src/statalign/base/Mcmc.java
	src/statalign/model/ext/ModelExtManager.java
	src/statalign/model/ext/ModelExtension.java
Change TopologyMove to print only the proportion of moves that are
accepted which actually change the topology (i.e. not swaps across the
root).

Increased the default topologyWeightIncrement to 32.
Now have multiple AlignmentMove types, each using its own hmm3
transition parameters.
Changed naming of AlignmentMoves to avoid them matching the same regular
expressions.
Change to default AlignmentMove weights.
Resolving conflicts.