(part of the
when there is tip-dating
tipdate_taxa_to_xml_tree( inference_model, id = "deprecated", tipdates_filename = "deprecated" )
a Bayesian phylogenetic inference model. An inference model is the complete model setup in which a site model, clock model, tree prior and more are specified. Use create_inference_model to create an inference model. Use check_inference_model to check if an inference model is valid. Use rename_inference_model_filenames to rename the files in an inference model.
an alignment's IDs.
An ID can be extracted from its FASTA filename
name of the file containing the tip dates. This file is assumed to have two columns, separated by a tab. The first column contains the taxa names, the second column contains the date.
the random phylogeny as XML text