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CompEvol / BeastFX

GUIs for BEAST using Java FX to make things more pretty.
GNU Lesser General Public License v2.1
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BEAUti should be able to switch from MCMC to other methods, e.g. MC3, nested sampling #53

Closed rbouckaert closed 1 year ago

rbouckaert commented 1 year ago

The main issue is that the MCMC element in the Standard (and other) templates has id mcmc and there are many connector rules that use this id for connecting operators. Switching to say CoupledMCMC means that these connector rules are ignored, and operators that should be present do not end up in the XML.

The CoupleMCMC object cannot share the mcmc id, since it is the main-id in a subtemplate, and these must be unique in order for BEAUti to be able to identify which template to use.

A hackier solution is to have connector rules check for the target being mcmc and replace the target with the Runnable in BeautiDoc.mcmc. This will work for CoupledMCMC and nested sampling.