cython code for exact and prodc_with_seperateTheta
Major updatae: incorporating specifing missing marks
Major updatae: incorporating specifing missing marks
bug fix
newer version for general tree structure
Change dtype to numpy.longdouble for better precision.
Add simple gaussian emissions
Add 'indep' mode for completely separate non-tree HMM chains
Add functionality for missing marks
Add better options for conversion and warm restarts
Add mode for exact inference in tree model using GMTK
WIP: Initial stab at a separate theta model...
Add separate theta mode to parser
Merge github.com:yuanfenw/tree-hmm

Conflicts:
	histone_tree_hmm.py
	vb_mf.pyx
	vb_prodc.pyx
update .gitignore
fix do_parallel
fix loopy_bp
Use treehmm package and improved setup.py