updating general thc for e.g. amino acid rate maps
Updated DiscreteState stateIndex assignment.
Correcting basic setup for GeneralTreeHistoryCtmc with RateMap_AminoAcid … nearly working.
Merge branch 'development' of github.com:revbayes/revbayes into development
small correction
moved tipProbs into Abstract
TreeHistoryCtmc
revised PRSP to work with non-binary states
Making changes to core so I can instantiate the pallet of objects in the GUI
Reorganizing the help system. There is too much redundancy between different system (Rev, HTML, etc.). Started the work, still in progress ...
Merge branch 'development' of https://github.com/revbayes/code into help
First working version of the reconciled help.
New help example.
touched a file to test branch commit
Updating the html help generation.
Merge branch 'help' of https://github.com/revbayes/code into help
Nicer help output ...
changes to help
Merge branch 'help' of github.com:revbayes/revbayes into help
removed debugging statement
merged help branch with language-edit