Historical documents from the development of nanorunner. These files are preserved for reference but are not actively maintained. The current state of the codebase is the source of truth; if an archive document and the code disagree, trust the code.
archive/
|-- README.md (this file)
|-- audits/ Dated audit reports
`-- plans/ Design plans and implementation specs
2026-04-29-orphans-simplification.md-- code/docs audit identifying transitional CLI shims, duplicated genome resolution logic, and dead worker-pool scaffolding.
Design specifications and implementation plans, paired by date:
2026-02-05-expanded-mocks-design.md/2026-02-05-expanded-mocks-implementation.md-- additional mock community presets.2026-02-05-species-mocks-design.md/2026-02-05-species-mocks-implementation.md-- species name resolution and mock community generation.2026-02-25-simplification-design.md/2026-02-25-simplification-implementation.md-- module simplification pass.