feat: Add dashboard chat integration and MCP server

Major changes:
- Dashboard: WebSocket-based chat with session management
- Dashboard: New chat components (ChatPane, ChatInput, ModeToggle)
- Dashboard: Enhanced UI with parallel coordinates chart
- MCP Server: New atomizer-tools server for Claude integration
- Extractors: Enhanced Zernike OPD extractor
- Reports: Improved report generator

New studies (configs and scripts only):
- M1 Mirror: Cost reduction campaign studies
- Simple Beam, Simple Bracket, UAV Arm studies

Note: Large iteration data (2_iterations/, best_design_archive/)
excluded via .gitignore - kept on local Gitea only.

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

atomizer-dashboard/frontend/src/components/plotly/PlotlyConvergencePlot.tsx

@@ -7,10 +7,11 @@
  * - FEA vs NN trial differentiation
  * - Hover tooltips with trial details
  * - Range slider for zooming
+ * - Log scale toggle
  * - Export to PNG/SVG
  */
 
-import { useMemo } from 'react';
+import { useMemo, useState } from 'react';
 import Plot from 'react-plotly.js';
 
 interface Trial {
@@ -32,6 +33,7 @@ interface PlotlyConvergencePlotProps {
   direction?: 'minimize' | 'maximize';
   height?: number;
   showRangeSlider?: boolean;
+  showLogScaleToggle?: boolean;
 }
 
 export function PlotlyConvergencePlot({
@@ -40,8 +42,10 @@ export function PlotlyConvergencePlot({
   objectiveName = 'Objective',
   direction = 'minimize',
   height = 400,
-  showRangeSlider = true
+  showRangeSlider = true,
+  showLogScaleToggle = true
 }: PlotlyConvergencePlotProps) {
+  const [useLogScale, setUseLogScale] = useState(false);
 
   // Process trials and calculate best-so-far
   const { feaData, nnData, bestSoFar, allX, allY } = useMemo(() => {
@@ -177,9 +181,10 @@ export function PlotlyConvergencePlot({
       rangeslider: showRangeSlider ? { visible: true } : undefined
     },
     yaxis: {
-      title: objectiveName,
+      title: useLogScale ? `log₁₀(${objectiveName})` : objectiveName,
       gridcolor: '#E5E7EB',
-      zerolinecolor: '#D1D5DB'
+      zerolinecolor: '#D1D5DB',
+      type: useLogScale ? 'log' : 'linear'
     },
     legend: {
       x: 1,
@@ -202,18 +207,35 @@ export function PlotlyConvergencePlot({
 
   return (
     <div className="w-full">
-      {/* Summary stats */}
-      <div className="flex gap-6 justify-center mb-3 text-sm">
-        <div className="text-gray-600">
-          Best: <span className="font-semibold text-green-600">{bestVal.toFixed(4)}</span>
-          <span className="text-gray-400 ml-1">(Trial #{bestTrial})</span>
-        </div>
-        <div className="text-gray-600">
-          Current: <span className="font-semibold">{allY[allY.length - 1].toFixed(4)}</span>
-        </div>
-        <div className="text-gray-600">
-          Trials: <span className="font-semibold">{allX.length}</span>
+      {/* Summary stats and controls */}
+      <div className="flex items-center justify-between mb-3">
+        <div className="flex gap-6 text-sm">
+          <div className="text-gray-600">
+            Best: <span className="font-semibold text-green-600">{bestVal.toFixed(4)}</span>
+            <span className="text-gray-400 ml-1">(Trial #{bestTrial})</span>
+          </div>
+          <div className="text-gray-600">
+            Current: <span className="font-semibold">{allY[allY.length - 1].toFixed(4)}</span>
+          </div>
+          <div className="text-gray-600">
+            Trials: <span className="font-semibold">{allX.length}</span>
+          </div>
         </div>
+
+        {/* Log scale toggle */}
+        {showLogScaleToggle && (
+          <button
+            onClick={() => setUseLogScale(!useLogScale)}
+            className={`px-3 py-1 text-xs rounded transition-colors ${
+              useLogScale
+                ? 'bg-blue-600 text-white'
+                : 'bg-gray-200 text-gray-700 hover:bg-gray-300'
+            }`}
+            title="Toggle logarithmic scale - better for viewing early improvements"
+          >
+            {useLogScale ? 'Log Scale' : 'Linear Scale'}
+          </button>
+        )}
       </div>
 
       <Plot