Target `--full-rerun` to TaxonoPy-specific output files only

[thompsonmj]

It is currently too aggressive and may delete unintended data.

[hlapp]

A rogue agent that got implanted into the code? 😉

[thompsonmj]

Haha, no, just some explosives that could benefit from friendly-fire avoidance ...

[thompsonmj]

To deal with this, options considered include:

• Pattern matching to known TaxonoPy output filenames (e.g. **/*.resolved.*), but this risks tech debt if naming conventions change and possible collateral damage. Simpler now, but could be improved.
• Maintain a record of the exact relevant TaxonoPy output filenames under a directory resulting from a TaxonoPy command. The --full-rerun would only act on contents listed in that file for perfect targeting. Having such a manifest would also be a valuable piece of metadata. Better I think.