create_treelog_xml: Creates the XML text for the 'logger' tag with ID 'treelog'....

In beautier: 'BEAUti' from R

Creates the XML text for the 'logger' tag with ID 'treelog'. This section has these elements: “' <logger id="treelog.t:test_output_0" spec="Logger" fileName="my_treelog.trees" logEvery="345000" mode="tree" sanitiseHeaders="true" sort="smart"> # nolint indeed long <log id="TreeWithMetaDataLogger.t:test_output_0" spec="beast.evolution.tree.TreeWithMetaDataLogger" tree="@Tree.t:test_output_0"/> # nolint indeed long </logger> “'

Description

Creates the XML text for the 'logger' tag with ID 'treelog'. This section has these elements: “' <logger id="treelog.t:test_output_0" spec="Logger" fileName="my_treelog.trees" logEvery="345000" mode="tree" sanitiseHeaders="true" sort="smart"> # nolint indeed long <log id="TreeWithMetaDataLogger.t:test_output_0" spec="beast.evolution.tree.TreeWithMetaDataLogger" tree="@Tree.t:test_output_0"/> # nolint indeed long </logger> “'

Usage

create_treelog_xml(inference_model)

Arguments

inference_model

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.

Value

lines of XML text

Author(s)

Richèl J.C. Bilderbeek

beautier documentation built on Nov. 2, 2023, 5:08 p.m.