Removed all AFYP_REWRITE_BGM flags
Removed all deprecated BGM-related code

Added _HY_GetSTringGlobalTypes element for HY_BL_BGM that
is required for GetString
This fixed the problem on constructing BGMs.
Introduced some ReportWarning() lines for debugging.

Cut out CholeskyDecompose spam to messages.log

Removed all AFYP_REWRITE_BGM flags
Old bgm.cpp and bgm2.cpp files should be nuked.
Some debugging statements in bayesgraph2.cpp for validating
mixed networks inference (conditional Gaussian nodes)
removed snarky comment made when frustrated and on 2nd glass of wine
Merge pull request #135 from stevenweaver/hyphyqt

closes #112
PAML output format
Merge branch 'hyphyqt' of github.com:veg/hyphy into hyphyqt
PAML output format
Merge branch 'hyphyqt' of github.com:veg/hyphy into hyphyqt
PAML output format
Merge branch 'hyphyqt' of github.com:veg/hyphy into hyphyqt
Added a slot to QTerminal to handle the change in location of current insertion point due to mouse clicks and other events
Remove redundant InitializeDistances from GARD.bf that killed the analyses
Fix Utilities/NJ.bf
reimlpementing CG imputation using Gibbs sampling
Merge pull request #137 from veg/bgm

request to merge bgm (bayesgraph*) bug fixes into qt branch
Merge pull request #138 from stevenweaver/hyphyqt

closes #129
Fixing issue #136
Fixing issue #114 and adding 2 regression tests
Fixing issue #114 and adding 2 regression tests
Refactored fprintf and wrote a unit test with 99% coverage for it
fixed a return statement in strings.cpp