2.1 Implementation
PAReTT (version 1.0.1) was scripted in the Spyder 5 IDE in pure PYTHON and is compatible with versions 3.6 and upward. A full list of dependencies is provided on the GitHub wiki, along with details for download and installation. This includes the use of several well-established PYTHON based libraries such as NumPy (version 1.20.1) and pandas (version 1.2.4) for ease of input and high order moulding of data structures with relative ease (McKinney, 2010; Harris et al. , 2020), as well as Bio (version 1.3.9) for handling trees in the newick format. PAReTT further uses the headless browser functionality implemented in Splinter (version 0.17.0) with the Selenium (version 4.1.5) extensions for the Firefox browser to submit user specified web data to the Time Tree website and retrieve the relevant results. Results are printed in real-time to the shell, while list results are first stored to a ‘dataframe’ object which is written to user specified output file. Some functionality had also been provided to validate data for any errors that may have occurred and preview basic tree files. The script was benchmarked to test for time and memory consumption of individual functions using memory-profiler (version 0.16.0).