Changed build number to 584
Added options to MAFFTAlign to automatically insert commands for
suggested alignment methods.
Cleaned up multi-file FASTA import so that it adds taxa all at once then
fills them.
Minor source cleanup and commenting
Fixed bugs in new FASTA importing system whereby some taxa were
inadvertently deleted.
prefs
Merge branch 'master' of https://github.com/MesquiteProject/MesquiteCore
into MesquiteProject-master

Conflicts:
	Source/mesquite/align/MAFFTAlign/MAFFTAlign.java
	Source/mesquite/lib/MesquiteModule.java
Resurrecting files lost in @#$%^&* merge
Revert "Resurrecting files lost in @#$%^&* merge"

This reverts commit e5b5bee7807d8af68c1ad3553aed371e4248b2b5.
Revert 0b71dd8..8686e8c

This rolls back to commit 0b71dd8b9aa2261b33a3763d758b90f9d44a4e58.
Merging changes ca. 25 Dec that had been pushed to MesquiteProject
Added URL help system to ExternalSequenceAligner and MAFFTAlign.
Data matrix window, menu split to Matrix and Display
Division of matrix menus to Matrix and Display
Display subclasses of DataWindowAssistantI and CategDataEditorInit
Refinements to tree window menu division
Guest menu request
Merge pull request #6 from wmaddisn/wayne.2013.12.31

Wayne.2013.12.31
Fixing tree window title reset when tree block changed
Cleaning up some remnant Debugg.println
In ConsensusTree, changed tree.setName so only included number of trees
if that value was >0
Allowed fixed taxon distance of 0 in SquareLineTree
Added SplitFrequences, a NumberForNode that measures frequency of each
clade in a tree across the trees from a TreeSource