Simplify Butterfly and Firefly codes

[Emojigit]

This PR simplifies the code of butterflies and fireflies. Changes are listed below:

1. The engine now handles the placement of butterflies and fireflies. An on_construct callback is added to handle node timers.
2. The bug nest now uses the engine tool_capabilities field to handle bug-catching. As a side effect, the capabilities of the bare hands are inherited.

As the typical node placing and digging routines are used, placements are logged and protection violation callbacks are called.

This PR conflicts with #3116. That PR still uses custom code, and this PR replaces those with the engine's routines.

Fixes #2987 by using the engine's routine. Unlike #3116, this PR does not fix ​#3102 as it is another unrelated issue.

This PR is ready for review.

[JoseDouglas26]

This is what I was told when I tried this: #3093 (comment)

[Emojigit]

This is what I was told when I tried this: #3093 (comment)

I started the timer in an on_construct callback.

[JoseDouglas26]

I will close my PR