v0.2.5

• Prepare 0.2.5 release
• chore: drop unused setup_logging import
• fix: retain best checkpoint state
• fix: guard zero-read coverage normalization
• chore: require python 3.9+
• Always write embeddings.csv regardless of --keep-intermediate flag
• Update fusion layer architecture
  Full Changelog: v0.2.4...v0.2.5

Full Changelog: v0.2.4...v0.2.5