StatSVN - Directory src/dr/app/phylogeography/tools/

Lines of Code

src/dr/app/phylogeography/tools/ Lines of Code

Developers

Author	Changes	Lines of Code	Lines per Change
Totals	39 (100.0%)	8297 (100.0%)	212.7
rambaut	36 (92.3%)	7844 (94.5%)	217.8
mdhall272@gmail.com	3 (7.7%)	453 (5.5%)	151.0

Most Recent Commits

mdhall272@gmail.com 2013-05-09 00:22 Rev.: 5639

efficiency improvements & other misc small fixes

0 lines of code changed in 2 files:

src/dr/app/phylogeography/tools: RateIndicatorBF.java (-8)

mdhall272@gmail.com 2013-05-07 23:10 Rev.: 5636

With the option -calculaterates this will now calculate mean Q matrix entries for all supported rates and give this in the text and KML files. Please test.

453 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: RateIndicatorBF.java (+453 -154)

rambaut 2011-08-03 05:05 Rev.: 4152

Some additions to the tools for plotting antigenic maps.

23 lines of code changed in 2 files:

src/dr/app/phylogeography/tools: TreeKMLGenerator.java (new)

rambaut 2011-03-03 12:35 Rev.: 3851

Hadn't fixed the problem with tip association to antigenic data. Now I have.

15 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: TreeKMLGenerator.java (+15 -35)

rambaut 2011-03-03 07:56 Rev.: 3848

More MDS work

6 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: TreeKMLGenerator.java (+6 -2)

rambaut 2011-02-24 05:15 Rev.: 3822

Working on MDS

14 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: TreeKMLGenerator.java (+14 -4)

rambaut 2011-02-09 05:18 Rev.: 3792

Pathogen updates

44 lines of code changed in 2 files:

src/dr/app/phylogeography/tools: TreeDensityKML.java (+44 -12)

rambaut 2011-01-20 12:57 Rev.: 3776

Playing with a new visualization of discrete spatial model.

345 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: TreeDensityKML.java (+345)

rambaut 2011-01-11 03:21 Rev.: 3772

Added some data to the KML elements to allow for styling by BF etc. Seems to work now.

8 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: RateIndicatorBF.java (+8 -14)

rambaut 2011-01-11 02:00 Rev.: 3771

Fixes to RateIndicatorBF's output of KML data.

1 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: RateIndicatorBF.java (+1 -1)

rambaut 2011-01-06 05:04 Rev.: 3770

Added some data to the KML elements to allow for styling by BF etc. Compiles but not yet tested.

263 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: RateIndicatorBF.java (+263 -162)

rambaut 2010-12-22 00:04 Rev.: 3763

Minor tweaks to KML generation.

4 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: TreeKMLGenerator.java (+4 -5)

rambaut 2010-12-05 12:38 Rev.: 3739

Minor changes

2 lines of code changed in 1 file:

src/dr/app/phylogeography/tools: TreeKMLGenerator.java (+2 -2)

rambaut 2010-11-16 22:14 Rev.: 3725

Added an alternative Continous Tree KML generator (TreeKMLGenerator).

996 lines of code changed in 3 files:

src/dr/app/phylogeography/tools: ContinuousKML.java (+1 -1), TreeKMLGenerator.java (+995)

rambaut 2010-11-15 22:40 Rev.: 3719

Adding metadata into KML output layers in TimeSlicer

81 lines of code changed in 3 files:

src/dr/app/phylogeography/tools: ContinuousKML.java (+80 -67), ContinuousTreeToKML.java (new)

rambaut 2010-11-12 02:58 Rev.: 3709

Added argument parsing to ContinuousTreeToKML

117 lines of code changed in 3 files:

src/dr/app/phylogeography/tools: ContinuousTreeToKML.java (+111 -32), DiscreteTreeToKML.java (new)

rambaut 2010-11-12 01:46 Rev.: 3707

Created an ANT file for phylogeography stuff.

461 lines of code changed in 3 files:

src/dr/app/phylogeography/tools: BetterDiscreteTreeToKML.java (del), ContinuousTreeToKML.java (+1 -1), DiscreteTreeToKML.java (+460)

rambaut 2010-11-12 00:52 Rev.: 3706

Consolidated phylogeography command-line tools in one place.

2118 lines of code changed in 7 files:

src/dr/app/phylogeography/tools: BetterDiscreteTreeToKML.java (new 28), ContinuousKML.java (+28 -5), ContinuousTreeToKML.java (+28 -6), DiscreteKMLString.java (new), DiscreteRatePriorGenerator.java (new 927), RateIndicatorBF.java (+1079)

rambaut 2010-11-11 23:49 Rev.: 3705

Moved command line KML generating phylogenetic tools over from FigTree repository.

3346 lines of code changed in 4 files:

src/dr/app/phylogeography/tools: BetterDiscreteTreeToKML.java (+437), ContinuousKML.java (+1763), ContinuousTreeToKML.java (+98), DiscreteKMLString.java (+1048)