RELEASE: Finalize Semantic Restructuring v0.1.0

- Folders: literate->harness, src->library, system->environment, scripts->interfaces.
- Synchronized all :tangle paths and system definitions.
- Hardened .gitignore for binary and log artifacts.
- Consolidated all documentation into docs/.

.gitignore

@@ -6,3 +6,6 @@ opencortex-server
 \#*#
 opencortex-tui
 test_input.txt
+opencortex-server
+environment/logs/
+library/gen/