feat: introduce skill management tool for agent-created skills and skills migration to ~/.hermes

- Added a new `skill_manager_tool` to enable agents to create, update, and delete their own skills, enhancing procedural memory capabilities.
- Updated the skills directory structure to support user-created skills in `~/.hermes/skills/`, allowing for better organization and management.
- Enhanced the CLI and documentation to reflect the new skill management functionalities, including detailed instructions on creating and modifying skills.
- Implemented a manifest-based syncing mechanism for bundled skills to ensure user modifications are preserved during updates.

setup-hermes.sh

@@ -240,6 +240,25 @@ if [ -n "$SHELL_CONFIG" ]; then
     fi
 fi
 
+# ============================================================================
+# Seed bundled skills into ~/.hermes/skills/
+# ============================================================================
+
+HERMES_SKILLS_DIR="${HERMES_HOME:-$HOME/.hermes}/skills"
+mkdir -p "$HERMES_SKILLS_DIR"
+
+echo ""
+echo "Syncing bundled skills to ~/.hermes/skills/ ..."
+if "$SCRIPT_DIR/venv/bin/python" "$SCRIPT_DIR/tools/skills_sync.py" 2>/dev/null; then
+    echo -e "${GREEN}✓${NC} Skills synced"
+else
+    # Fallback: copy if sync script fails (missing deps, etc.)
+    if [ -d "$SCRIPT_DIR/skills" ]; then
+        cp -rn "$SCRIPT_DIR/skills/"* "$HERMES_SKILLS_DIR/" 2>/dev/null || true
+        echo -e "${GREEN}✓${NC} Skills copied"
+    fi
+fi
+
 # ============================================================================
 # Done
 # ============================================================================