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Remove the in-repo libpanto sources and binding projects from pantograph.
Consume libpantograph through the Zig package URL at
code.tjp.lol/libpantograph.git, including the Lua module artifact used by
CLI extensions.
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Replace all references to the "system" layer with "base" to better reflect
its role as the foundational extension/tool layer in panto's hierarchy.
The layer hierarchy now consistently uses: project > user > base.
Includes:
- Update agent README and build.zig documentation
- Refactor tool registry and config module to support layered lookups
- Add TestHarness abstraction for cleaner test setup
- Improve JSON serialization with wire-encoded tool names
- Add glob pattern matching for tool/extension discovery
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- new multi-tool registration via ToolSource
- thread per source-or-standalone-tool
- switched to zig 0.16 Io threading interface
- cli: include `luv` package and run concurrent lua tools via libuv
- one single long-lived lua_State for the whole cli program
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