fix: Resolve soft delete and add encrypted config support

- Fix soft delete functionality by filtering out deleted items in search results
- Add support for encrypted configuration storage and retrieval
- Copy test suite and vitest config to ensure all functionality works
- Maintain all core brainy functionality during repository cleanup

tests/test-setup.ts

@@ -0,0 +1,58 @@
+/**
+ * Global test setup - runs before all tests
+ * Configures mock embeddings to prevent model loading timeouts
+ */
+
+import { vi } from 'vitest'
+
+// Mock the embedding module globally
+vi.mock('../src/utils/embedding.js', () => {
+  // Create a deterministic mock embedding function
+  const createMockEmbedding = (dimensions: number = 384) => {
+    return async (input: string | any): Promise<number[]> => {
+      const vector = new Array(dimensions).fill(0)
+      
+      if (typeof input === 'string') {
+        // Use string hash to generate deterministic values
+        let hash = 0
+        for (let i = 0; i < input.length; i++) {
+          hash = ((hash << 5) - hash) + input.charCodeAt(i)
+          hash = hash & hash
+        }
+        
+        // Fill vector with deterministic values
+        for (let i = 0; i < dimensions; i++) {
+          vector[i] = Math.sin(hash * (i + 1)) * 0.5 + 0.5
+        }
+      } else if (Array.isArray(input) && input.every(x => typeof x === 'number')) {
+        // Already a vector, just return it (padded/truncated to dimensions)
+        return input.slice(0, dimensions).concat(new Array(Math.max(0, dimensions - input.length)).fill(0))
+      }
+      
+      return vector
+    }
+  }
+
+  return {
+    defaultEmbeddingFunction: createMockEmbedding(),
+    createEmbeddingFunction: () => createMockEmbedding(),
+    TransformerEmbedding: class {
+      async init() { return this }
+      embed = createMockEmbedding()
+    },
+    UniversalSentenceEncoder: class {
+      async init() { return this }
+      embed = createMockEmbedding()
+    },
+    batchEmbed: async (embedFn: any, inputs: string[]) => {
+      const mockEmbed = createMockEmbedding()
+      return Promise.all(inputs.map(input => mockEmbed(input)))
+    },
+    embeddingFunctions: new Map()
+  }
+})
+
+// Set test environment flag
+globalThis.__BRAINY_TEST_ENV__ = true
+
+console.log('✅ Test setup complete - using mock embeddings')