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/components/plotly/PlotlyConvergencePlot.tsx

@@ -19,8 +19,12 @@ interface Trial {
   params: Record<string, number>;
   user_attrs?: Record<string, any>;
   source?: 'FEA' | 'NN' | 'V10_FEA';
+  constraint_satisfied?: boolean;
 }
 
+// Penalty threshold - objectives above this are considered failed/penalty trials
+const PENALTY_THRESHOLD = 100000;
+
 interface PlotlyConvergencePlotProps {
   trials: Trial[];
   objectiveIndex?: number;
@@ -58,6 +62,15 @@ export function PlotlyConvergencePlot({
       const val = t.values?.[objectiveIndex] ?? t.user_attrs?.[objectiveName] ?? null;
       if (val === null || !isFinite(val)) return;
 
+      // Filter out failed/penalty trials:
+      // 1. Objective above penalty threshold (e.g., 1000000 = solver failure)
+      // 2. constraint_satisfied explicitly false
+      // 3. user_attrs indicates pruned/failed
+      const isPenalty = val >= PENALTY_THRESHOLD;
+      const isFailed = t.constraint_satisfied === false;
+      const isPruned = t.user_attrs?.pruned === true || t.user_attrs?.fail_reason;
+      if (isPenalty || isFailed || isPruned) return;
+
       const source = t.source || t.user_attrs?.source || 'FEA';
       const hoverText = `Trial #${t.trial_number}<br>${objectiveName}: ${val.toFixed(4)}<br>Source: ${source}`;