create_loggers_xml {beautier} | R Documentation |
Creates the three logger sections of a BEAST2 XML parameter file
Description
The logger section has these elements:
<logger id="tracelog" [...]> [...] </logger> <logger id="screenlog" [...]> [...] </logger> <logger id="treelog.t:[alignment ID]" [...]> [...] </logger>
Usage
create_loggers_xml(input_filename, inference_model)
Arguments
input_filename |
A FASTA filename.
Use |
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
See Also
Use create_tracelog_xml to create the XML text
of the logger with the tracelog
ID.
Use create_screenlog_xml to create the XML text
of the logger with the screenlog
ID.
Use create_treelog_xml to create the XML text
of the loggers with the treelog
ID.