Changelog All notable changes to this project will be documented in this file. The format is based on Keep a Changelog, and this project adheres to Semantic Versioning. Types of changes: Added for new features. Changed for changes in existing functionality. Deprecated for soon-to-be removed features. Removed for now removed features. Fixed for any bug fixes. Security in case of vulnerabilities. [0.0.8] - (Unreleased) [0.0.7] - (2024-01-20) Added Heustics for rearrangement move sequence calculations. (#35) Exact methods for rearrangement distance computation. (#37) JOSS article. (#39) Changed Release action that also creates a github release, but only when a tag is added to the commit. (#41) [0.0.6] - (2023-08-09) Added Parsers to and from newick. (#30) Random methods with seed. (#34, #16) Changed Licence to BSD-3-Clause to align with networkx. (#32) [0.0.5] - (2023-07-24) Fixed Automatic pypi release when pushing to release FIX. [0.0.4] - (2023-07-24) Fixed Automatic pypi release when pushing to release. [0.0.3] - (2023-07-22) Added Network properties methods: b2_balance, count_cherries_and_reticulated_cherries and blob_properties. (#11) Tree-child-sequence functions. (#12) Usage of NetworkX referenced in README. (#14) Cherry picking hybridization workflow works again, including tests. (#15) Start documentation using sphinx. (#18) ReadtheDocs config. (#21) CI/CD release. (#22) Changed Cleaned up generators: beta-splitting trees, add_edges, caterpillar, balanced tree, lgt, zods, random tree-child sequence. (#14) Add lots of docstrings for sphinx autosummary. (#18) Fixed Invalid horizontal moves generated by Move.random_move. (#18) Bug in Move.is_type: all moves are of type MoveType.ALL. (#18) Implementation of apply_move for VMIN and VPLU, change the _reticulation_number, also fixes the mcmc network generator. (#18) [0.0.2] - (2023-06-19) Added Release and version tag explanation. (#3) Automated tests. (#4) Changed Run black and isort. (#4) [0.0.1] - (2023-06-18) Changed cleaned up DiNetwork class. cleaned up basic rearrangement methods. cleaned up isomorphism testing. cleand up checking for classes, including some cherry-picking methods. Added Migrated messy old code to this repo. Automorphism count: count_automorphisms. tests for DiNetwork, network classes, rearrangement moves, isomorphism checking, mcmc network generation. configuration of pytest with --cov.