v1.0.0 - 2025-02-27

Lots and lots of changes! Many of these are a result of comments from peer review of code by Tom Monks.

Added

• Virtual environment alternative to conda.
• Bash script to lint repository.
• Lots of new unit tests and functional tests!
• GitHub actions to run tests and lint repository.
• Add MonitoredResource and alternative warm-up results collection.
• Time-weighted statistics - including relevant code (replications.py), documentation (choosing_replications.ipynb), and tests (_replications in tests).
• User-controlled interactive histogram of results in analysis.ipynb.
• Add metrics for unseen patients.

Changed

• Changes to code and environment to accomodate new features (described in 'Added').
• Import simulation as a local package.
• Save all tables and figures.
• Add Tom Monks to author list.
• Expanded README.
• Renaming classes and variables (e.g. Trial to Runner, Defaults to Param).
• Improved log formatting.
• Moved methods (e.g. from analysis.ipynb to simulation/).
• Re-arranged tests into unit tests, back tests and functional tests.

Fixed

• First arrival no longer at time 0.
• Begin interval audit at start of data collection period (rather than start of warm-up period).
• Correct logging message where wrong time was used.
• Add error handling for invalid cores (in model + test) and error message for attempts to log when in parallel.
• Resolved runtime warning with handling for variance 0 in summary_stats().
• Prevent output of standard deviation or confidence intervals from summary_stats() when n<3.
• Add error handling for results processing when there are no arrivals.
• Add error handling for invalid mean in Exponential.