feat: Dashboard improvements and configuration updates

Dashboard:
- Enhanced terminal components (ClaudeTerminal, GlobalClaudeTerminal)
- Improved MarkdownRenderer for better documentation display
- Updated convergence plots (ConvergencePlot, PlotlyConvergencePlot)
- Refined Home, Analysis, Dashboard, Setup, Results pages
- Added StudyContext improvements
- Updated vite.config for better dev experience

Configuration:
- Updated CLAUDE.md with latest instructions
- Enhanced launch_dashboard.py
- Updated config.py settings

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

atomizer-dashboard/frontend/src/context/StudyContext.tsx

@@ -58,7 +58,9 @@ export const StudyProvider: React.FC<{ children: ReactNode }> = ({ children }) =
   useEffect(() => {
     const init = async () => {
       try {
+        console.log('[StudyContext] Fetching studies...');
         const response = await apiClient.getStudies();
+        console.log('[StudyContext] Got studies:', response.studies.length, response.studies);
         setStudies(response.studies);
 
         // Restore last selected study from localStorage
@@ -70,8 +72,9 @@ export const StudyProvider: React.FC<{ children: ReactNode }> = ({ children }) =
           }
         }
       } catch (error) {
-        console.error('Failed to initialize studies:', error);
+        console.error('[StudyContext] Failed to initialize studies:', error);
       } finally {
+        console.log('[StudyContext] Initialization complete, isLoading=false');
         setIsLoading(false);
         setIsInitialized(true); // Mark as initialized AFTER localStorage restoration
       }