StatSVN - Directory src/dr/app/beauti/components/discrete/

Lines of Code

src/dr/app/beauti/components/discrete/ Lines of Code

Developers

Author	Changes	Lines of Code	Lines per Change
Totals	24 (100.0%)	866 (100.0%)	36.0
rambaut	21 (87.5%)	771 (89.0%)	36.7
msuchard	2 (8.3%)	94 (10.9%)	47.0
dong.w.xie	1 (4.2%)	1 (0.1%)	1.0

Most Recent Commits

rambaut 2012-11-16 00:54 Rev.: 5232

Renamed NewTreeLikelihood to BeagleTreeLikelihood

1 lines of code changed in 2 files:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+1 -1)

rambaut 2012-08-08 10:19 Rev.: 5107

Porting 'evaluateLate' interface method from 1.7 branch.

3 lines of code changed in 2 files:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentOptions.java (new)

rambaut 2012-08-04 03:49 Rev.: 5097

Porting fixes from 1.7.3 back into the trunk

49 lines of code changed in 1 file:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+49 -33)

rambaut 2012-05-16 11:28 Rev.: 4966

Fix for issue 611: http://code.google.com/p/beast-mcmc/issues/detail?id=611
Discrete trait rates file now has a proper prefix and is not a hidden file.

2 lines of code changed in 1 file:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+2 -5)

rambaut 2012-02-03 03:10 Rev.: 4632

Cleaned up a the id labels for Discrete patterns.

2 lines of code changed in 1 file:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+2 -2)

rambaut 2011-11-20 07:28 Rev.: 4456

Refactoring of the robust counting and sequence error model into a new tab ('States') which allows these options to be specified on a per partition basis. These options are still not finished yet but the panel can be hidden using the constant at the top of BeautiFrame.

14 lines of code changed in 4 files:

src/dr/app/beauti/components/discrete: DiscreteSubstModelType.java (+8 -8), DiscreteTraitsComponentGenerator.java (+3 -3), DiscreteTraitsComponentOptions.java (+3 -3)

rambaut 2011-11-15 01:28 Rev.: 4420

Fixed issue with generation of replicate substitution models when multiple discrete traits are used

6 lines of code changed in 1 file:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+6 -2)

rambaut 2011-11-15 00:50 Rev.: 4418

Fixed a few issues with BSSVS generation. Also robust counting. Also unified the RECONSTRUCTION_TAG_NAME for the BEAGLE and non-BEAGLE versions of ASTL.

21 lines of code changed in 1 file:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+21 -1)

dong.w.xie 2011-10-10 14:24 Rev.: 4346

trunk: solve Issue 510: BEAUti uncheck *BEAST but cannot reverse to normal BEAST properly

1 lines of code changed in 1 file:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentOptions.java (+1 -1)

msuchard 2011-10-08 21:01 Rev.: 4343

BEAUti generates discrete trait XMLs that run.

94 lines of code changed in 2 files:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+65 -28), DiscreteTraitsComponentOptions.java (+29 -5)

rambaut 2011-09-20 20:40 Rev.: 4324

More 1.7 work

40 lines of code changed in 2 files:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentGenerator.java (+37 -23), DiscreteTraitsComponentOptions.java (+3 -12)

rambaut 2011-09-16 04:23 Rev.: 4317

Fixing up discrete/continuous trait generation..

102 lines of code changed in 3 files:

src/dr/app/beauti/components/discrete: DiscreteSubstModelType.java (+20), DiscreteTraitsComponentGenerator.java (-5), DiscreteTraitsComponentOptions.java (+82 -16)

rambaut 2011-09-16 03:04 Rev.: 4316

Continuous traits nearly working. Separated discrete traits out into a 'component' but will have broken things probably. Fixing up now.

531 lines of code changed in 3 files:

src/dr/app/beauti/components/discrete: DiscreteTraitsComponentFactory.java (new 36), DiscreteTraitsComponentGenerator.java (+444), DiscreteTraitsComponentOptions.java (+51)