katylettuce / beast-mcmc

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BEAUti duplicates leafHeight parameters in multiple partition XMLs #734

Closed GoogleCodeExporter closed 9 years ago

GoogleCodeExporter commented 9 years ago
What steps will reproduce the problem?
1. Load in two or more data partitions in BEAUti with imprecise dates (e.g. 
only year or only year and month) and unlink trees.
2. Set tip date precision for the taxa and select sampling uniformly from 
precision tip date sampling at the bottom.
3. leafHeight parameters are defined in the treeModel of each partition, 
choking BEAST.

What is the expected output? What do you see instead?
leafHeight parameters should be defined once.

What version of the product are you using? On what operating system?
BEAUti 1.8.0 on Mac OS X 10.6.8

Please provide any additional information below.
Changing leafHeight parameters from being definitions to being references in 
all subsequent treeModels seems to solve the issue.

Original issue reported on code.google.com by gytisdu...@gmail.com on 28 May 2014 at 9:34

GoogleCodeExporter commented 9 years ago

Original comment by ramb...@gmail.com on 31 Jul 2014 at 9:28

GoogleCodeExporter commented 9 years ago
Fixed by implementing a JointParameter that synchronises sets of parameters to 
change in unison.

Original comment by ramb...@gmail.com on 8 Aug 2014 at 10:41

GoogleCodeExporter commented 9 years ago
Issue 679 has been merged into this issue.

Original comment by ramb...@gmail.com on 25 Aug 2014 at 1:31