Binchicken

What's Changed
* Update dependencies by AroneyS in https://github.com/AroneyS/binchicken/pull/111
* Fix filter bam naming bug by AroneyS in https://github.com/AroneyS/binchicken/pull/112 (Thanks Andy Leu)
* Fix tmpdir by AroneyS in https://github.com/AroneyS/binchicken/pull/114
* Harden evaluate by AroneyS in https://github.com/AroneyS/binchicken/pull/116
* Add coverage to evaluate by AroneyS in https://github.com/AroneyS/binchicken/pull/117
* Update Aviary by AroneyS in https://github.com/AroneyS/binchicken/pull/115


**Full Changelog**: https://github.com/AroneyS/binchicken/compare/v0.10.4...v0.10.5

What's Changed
* Add doctave-based docs by AroneyS in https://github.com/AroneyS/binchicken/pull/101
* bin: Improve help msgs. by wwood in https://github.com/AroneyS/binchicken/pull/102
* Improve snakemake retry behaviour by AroneyS in https://github.com/AroneyS/binchicken/pull/105
* Reduce `update` required inputs by AroneyS in https://github.com/AroneyS/binchicken/pull/106
* fix COASSEMBLY_SAMPLES causing lengths to get out of sync by AroneyS in https://github.com/AroneyS/binchicken/pull/107
* Improve Aviary running by AroneyS in https://github.com/AroneyS/binchicken/pull/108
* Notify if any sample skipped by AroneyS in https://github.com/AroneyS/binchicken/pull/109
* Update improvements by AroneyS in https://github.com/AroneyS/binchicken/pull/110

New Contributors
* wwood made their first contribution in https://github.com/AroneyS/binchicken/pull/102

**Full Changelog**: https://github.com/AroneyS/binchicken/compare/v0.10.3...v0.10.4

What's Changed
* Add links and citation by AroneyS in https://github.com/AroneyS/binchicken/pull/100


**Full Changelog**: https://github.com/AroneyS/binchicken/compare/v0.10.2...v0.10.3

Fix pypi upload

- New release for Zenodo
- Increase memory for rules with retries

**Full Changelog**: https://github.com/AroneyS/binchicken/compare/v0.10.0...v0.10.1

What's Changed
* Quality of life improvements by AroneyS in https://github.com/AroneyS/binchicken/pull/86
* Rename `--aviary-[gtdbtk, checkm2]-dir` args to `--aviary-[gtdbtk, checkm2]-db`
* Add database env variables to `ibis build` (SingleM, CheckM2, GTDBtk)
* Minimise standard workflow arguments
* Removed `--no-genomes` argument and made that the default
* Set max size to 50Gbp unless single-assembly
* Add Aviary build to Ibis build by AroneyS in https://github.com/AroneyS/binchicken/pull/89
* Snakefile improvements by AroneyS in https://github.com/AroneyS/binchicken/pull/93
* Update dependencies by AroneyS in https://github.com/AroneyS/binchicken/pull/94
* Improve genome loading by AroneyS in https://github.com/AroneyS/binchicken/pull/95
* Change name to binchicken by AroneyS in https://github.com/AroneyS/binchicken/pull/96

Breaking changes
* Name change to binchicken
* `--coassemble-output` now refers to `--output` dir from coassemble command instead of referring to the `coassemble` subfolder within that output dir
* Rename `--aviary-[gtdbtk, checkm2]-dir` args to `--aviary-[gtdbtk, checkm2]-db`
* Removed `--no-genomes` argument and made that the default
* Set max size to 50Gbp unless single-assembly


**Full Changelog**: https://github.com/AroneyS/binchicken/compare/v0.9.6...v0.10.0