Added the printing of expected time to the completion of the analysis to ScreenMonitor. Changed Iteration to Cycle in the printing of MCMC output. First couple of steps in revising the DAG node implementation.
Minor edits of some file.
Reverted changes from “Iteration” to “Cycle” in monitors.
Consolidating RM_AA into RM_General
converted old bg classes to use rate matrix instead of glr
Changed the way TopologyNode write themselves. Now ":" separate comments (instead of "," formerly; thanks to this change NJPlot can represent these trees, but not figtree...), and there is an extra "&" in front of the species name.
Some progress towards a working RootedTripletDistribution. Almost works!
Now the rooted triplet distribution works.
Adding a new file for parameters
Fixes bug with tab-completion when typing partial commmand.
corrections to new ratemap implementation
Merge branch 'aa' into development
add support for Func_FreeBinary w/ new RateMap
add fnFreeBinary to RbRegister
Made changes to GUI
Deleted a file.
add rev wrapper for fnFreeBinary
Merge branch 'development' of github.com:revbayes/revbayes into development
richer aa test model
increase path uniformization maxNumJumps to 500