Phables

What's Changed
* Resolves linear phage genomes with DTRs.
* Output files are now organised for each processing step.

**Full Changelog**: https://github.com/Vini2/phables/compare/v1.2.1...v1.2.2

Please report any issues and suggestions under [Phables Issues](https://github.com/Vini2/phables/issues).

What's Changed
* Minor updates to postprocessing rules.
* Minor bug fixes and code refactoring.

**Full Changelog**: https://github.com/Vini2/phables/compare/v1.2.0...v1.2.1

Please report any issues and suggestions under [Phables Issues](https://github.com/Vini2/phables/issues).

What's Changed
* Now `phables` can recover linear phage genomes from complex linear components.
* Added postprocessing steps for resolved genomes.
* Multi-threading for Gurobi MFD solver.
* Minor bug fixes and code refactoring.

**Full Changelog**: https://github.com/Vini2/phables/compare/v1.1.0...v1.2.0

Please report any issues and suggestions under [Phables Issues](https://github.com/Vini2/phables/issues).

* Revert to use `coverm` to calculate mean unitig coverage.
* Update flow decomposition modelling.
* Add functionality to recover singleton linear contigs
* Minor bug fixes and code refactoring.

**Full Changelog**: https://github.com/Vini2/phables/compare/v1.0.0...v1.1.0

Please report any issues and suggestions under [Phables Issues](https://github.com/Vini2/phables/issues).

* This is the first stable release of Phables.
* Replace `coverm` with `minimap2` and `awk` to calculate contig coverage.
* Add more information about the components from which genomes are resolved.
* Fix code to identify terminal repeats.
* Minor bug fixes and code refactoring.

**Full Changelog**: https://github.com/Vini2/phables/compare/v0.2.0...v1.0.0

Please report any issues and suggestions under [Phables Issues](https://github.com/Vini2/phables/issues).

* Updated scan for PHROGs in components.
* Minor bug fixes and code refactoring.
* Please report any issues and suggestions under [Phables Issues](https://github.com/Vini2/phables/issues).