May 2011 Commit Log

Number of Commits:
25
Number of Active Developers:
4
msuchard 2011-05-31 06:47 Rev.: 3993

Playing with complete history logging; honeymoons are meant for bug-fixing

72 lines of code changed in 5 files:

rambaut 2011-05-31 03:50 Rev.: 3992

Added a check that the CompleteHistoryLogger is not giving negative jump times (which it is currently).

4 lines of code changed in 1 file:

dong.w.xie 2011-05-30 17:45 Rev.: 3991

Trunk: add a new tool to LogAnalyser

69 lines of code changed in 4 files:

rambaut 2011-05-28 03:58 Rev.: 3990

The beginnings of a program to process complete jump histories.

167 lines of code changed in 1 file:

dong.w.xie 2011-05-27 14:50 Rev.: 3989

Trunk: fix a bug of BDSS parser, and correct attribute name

10 lines of code changed in 2 files:

dong.w.xie 2011-05-25 16:42 Rev.: 3988

Trunk: fix the trace bug

18 lines of code changed in 2 files:

dong.w.xie 2011-05-24 17:23 Rev.: 3987

Trunk: update get date from tree

370 lines of code changed in 2 files:

dong.w.xie 2011-05-23 18:50 Rev.: 3986

Trunk: update get date from tree

12 lines of code changed in 1 file:

jheled 2011-05-23 12:24 Rev.: 3985

Fix one bug in constrained generation of initial trees. bug was due to creation on 1 taxon tree with height 0.

7 lines of code changed in 2 files:

dong.w.xie 2011-05-23 11:06 Rev.: 3984

Trunk: update calibrations xml to report tree

0 lines of code changed in 18 files:

dong.w.xie 2011-05-20 11:10 Rev.: 3983

Trunk: a tool to get date value from given tree

78 lines of code changed in 1 file:

msuchard 2011-05-20 03:50 Rev.: 3982

Bounds checking on Dirchlet distribution

6 lines of code changed in 2 files:

dong.w.xie 2011-05-19 17:10 Rev.: 3981

Trunk: correct a boundary

1 lines of code changed in 1 file:

msuchard 2011-05-19 08:00 Rev.: 3980

Stationary distribution of Markov-modulated process now factors into the root frequency distribution of the sequence likelihood

156 lines of code changed in 3 files:

msuchard 2011-05-18 09:12 Rev.: 3979

Intermediate work on a Markov-modulated mixture model; returns equal (and correct) sequence likelihoods when mixing rates = 0.

235 lines of code changed in 8 files:

dong.w.xie 2011-05-12 17:22 Rev.: 3978

Trunk: add xml

222 lines of code changed in 1 file:

dong.w.xie 2011-05-11 17:10 Rev.: 3977

Trunk: add two epoch in Tracer Demo reconstruction

46 lines of code changed in 1 file:

msuchard 2011-05-11 05:12 Rev.: 3976

Attempting to standardize citations in BEAUti for a more professional look; am unclear why we did not stick with the Citable interface.

23 lines of code changed in 3 files:

dong.w.xie 2011-05-10 15:30 Rev.: 3975

Trunk: add few xml

462 lines of code changed in 2 files:

dong.w.xie 2011-05-10 14:27 Rev.: 3974

Trunk: fix a critical bug for new Tracer, Issue 459: new Tracer gives different statistics to previous version

17 lines of code changed in 2 files:

dong.w.xie 2011-05-09 20:44 Rev.: 3973

Trunk: update XML

4 lines of code changed in 2 files:

msuchard 2011-05-09 09:29 Rev.: 3972

Re-implemented logging of random local clock indicators in tree log files; this ability was lost when we converted over to tree traits.

98 lines of code changed in 10 files:

msuchard 2011-05-08 06:57 Rev.: 3971

Fixed incorrect calculations when using a BranchSubstitutionModel with MarkovJumps

128 lines of code changed in 6 files:

msuchard 2011-05-08 02:04 Rev.: 3970

Fixed starting state bug (was using Math.double random variable)

2 lines of code changed in 2 files:

msuchard 2011-05-07 05:03 Rev.: 3969

Changed default debugging option for running empirical distribution models

1 lines of code changed in 1 file:

April 2011 »

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