chore: recovery checkpoint - v3.0 API successfully recovered

CRITICAL CHECKPOINT - DO NOT PUSH TO GITHUB

Recovery Status:
- Successfully recovered brainy.ts from compiled JavaScript
- All core v3.0 API methods functional (add, get, update, delete, relate, find, etc.)
- Neural subsystem intact (562KB embedded patterns, NLP working)
- Augmentation pipeline operational (20+ augmentations)
- HNSW clustering system complete
- Triple Intelligence compiled (needs constructor fix)
- Test suite validates functionality

Changes preserved:
- 898 files with changes from last 3 days
- 144,475 insertions
- All augmentation improvements
- All test coverage enhancements
- Complete v3.0 feature set

This is a LOCAL checkpoint only - contains recovered work after corruption incident.
Created backup in .backups/brainy-full-20250910-151314.tar.gz

Branch: recovery-checkpoint-20250910-151433
Date: Wed Sep 10 03:18:04 PM PDT 2025

Dockerfile

@@ -0,0 +1,72 @@
+# Multi-stage Dockerfile for Brainy
+# Optimized for production deployment with minimal image size
+
+# Stage 1: Build stage
+FROM node:20-alpine AS builder
+
+# Install build dependencies
+RUN apk add --no-cache python3 make g++
+
+# Set working directory
+WORKDIR /app
+
+# Copy package files
+COPY package*.json ./
+
+# Install all dependencies (including dev dependencies for building)
+RUN npm ci
+
+# Copy source code
+COPY . .
+
+# Build the TypeScript code
+RUN npm run build
+
+# Remove dev dependencies and only keep production ones
+RUN npm prune --production
+
+# Stage 2: Production stage
+FROM node:20-alpine
+
+# Install production dependencies only
+RUN apk add --no-cache tini
+
+# Create non-root user for security
+RUN addgroup -g 1001 -S nodejs && \
+    adduser -S nodejs -u 1001
+
+# Set working directory
+WORKDIR /app
+
+# Copy package files
+COPY package*.json ./
+
+# Copy built application from builder stage
+COPY --from=builder --chown=nodejs:nodejs /app/node_modules ./node_modules
+COPY --from=builder --chown=nodejs:nodejs /app/dist ./dist
+
+# Copy necessary static files
+COPY --chown=nodejs:nodejs README.md LICENSE ./
+
+# Create data directory for file-based storage
+RUN mkdir -p /app/data && chown -R nodejs:nodejs /app/data
+
+# Switch to non-root user
+USER nodejs
+
+# Expose default port (can be overridden)
+EXPOSE 3000
+
+# Set environment variables for production
+ENV NODE_ENV=production
+ENV BRAINY_STORAGE_PATH=/app/data
+
+# Health check endpoint
+HEALTHCHECK --interval=30s --timeout=3s --start-period=5s --retries=3 \
+  CMD node -e "require('http').get('http://localhost:3000/health', (r) => r.statusCode === 200 ? process.exit(0) : process.exit(1))"
+
+# Use tini to handle signals properly
+ENTRYPOINT ["/sbin/tini", "--"]
+
+# Default command (can be overridden)
+CMD ["node", "dist/index.js"]