fix: recognize dotfiles (.env, .gitignore) in file path extraction and triage

README.md

@@ -430,8 +430,11 @@ thresholds:
 
 # Embedding configuration
 embeddings:
-  provider: local                          # type: "local" | "openai"
+  provider: local                          # type: "local" | "openai" | "ollama"
   openai_api_key: sk-...                   # type: string — only needed if provider is "openai"
+  ollama_base_url: http://localhost:11434   # type: string — only needed if provider is "ollama"
+  ollama_model: nomic-embed-text           # type: string — Ollama model name (default: nomic-embed-text)
+  ollama_dimensions: 768                   # type: number — embedding dimensions (default: 768)
 ```
 
 ### `.preflight/triage.yml`
@@ -495,7 +498,9 @@ Manual contract definitions that supplement auto-extraction:
 | `CLAUDE_PROJECT_DIR` | Project root to monitor | **Required** |
 | `OPENAI_API_KEY` | OpenAI key for embeddings | Uses local Xenova |
 | `PREFLIGHT_RELATED` | Comma-separated related project paths | None |
-| `EMBEDDING_PROVIDER` | `local` or `openai` | `local` |
+| `EMBEDDING_PROVIDER` | `local`, `openai`, or `ollama` | `local` |
+| `OLLAMA_BASE_URL` | Ollama server URL | `http://localhost:11434` |
+| `OLLAMA_MODEL` | Ollama embedding model | `nomic-embed-text` |
 | `PROMPT_DISCIPLINE_PROFILE` | `minimal`, `standard`, or `full` | `standard` |
 
 Environment variables are **fallbacks** — `.preflight/` config takes precedence when present.

src/lib/embeddings.ts

@@ -26,9 +26,9 @@
 
 // --- Local Provider (Xenova/transformers) ---
 
 let extractor: any = null;
 
 async function getExtractor(): Promise<any> {
   if (!extractor) {
     extractor = await pipeline("feature-extraction", "Xenova/all-MiniLM-L6-v2");
   }
@@ -92,7 +92,7 @@
 
       const data = await resp.json();
       // Sort by index to preserve order
       const sorted = data.data.sort((a: any, b: any) => a.index - b.index);
       for (const item of sorted) {
         results.push(item.embedding);
       }
@@ -102,17 +102,76 @@
   }
 }
 
+// --- Ollama Provider ---
+
+class OllamaEmbeddingProvider implements EmbeddingProvider {
+  dimensions: number;
+  private baseUrl: string;
+  private model: string;
+
+  constructor(options?: { baseUrl?: string; model?: string; dimensions?: number }) {
+    this.baseUrl = (options?.baseUrl ?? "http://localhost:11434").replace(/\/+$/, "");
+    this.model = options?.model ?? "nomic-embed-text";
+    // Default dimensions for nomic-embed-text; override via config if using a different model
+    this.dimensions = options?.dimensions ?? 768;
+  }
+
+  async embed(text: string): Promise<number[]> {
+    const processed = preprocessText(text);
+    const resp = await fetch(`${this.baseUrl}/api/embed`, {
+      method: "POST",
+      headers: { "Content-Type": "application/json" },
+      body: JSON.stringify({ model: this.model, input: processed }),
+    });
+
+    if (!resp.ok) {
+      const err = await resp.text();
+      throw new Error(`Ollama embeddings error ${resp.status}: ${err}`);
+    }
+
+    const data = await resp.json();
+    return data.embeddings[0];
+  }
+
+  async embedBatch(texts: string[]): Promise<number[][]> {
+    const processed = texts.map(preprocessText);
+    const resp = await fetch(`${this.baseUrl}/api/embed`, {
+      method: "POST",
+      headers: { "Content-Type": "application/json" },
+      body: JSON.stringify({ model: this.model, input: processed }),
+    });
+
+    if (!resp.ok) {
+      const err = await resp.text();
+      throw new Error(`Ollama embeddings error ${resp.status}: ${err}`);
+    }
+
+    const data = await resp.json();
+    return data.embeddings;
+  }
+}
+
 // --- Factory ---
 
 export interface EmbeddingConfig {
-  provider: "local" | "openai";
+  provider: "local" | "openai" | "ollama";
   apiKey?: string;
+  ollamaBaseUrl?: string;
+  ollamaModel?: string;
+  ollamaDimensions?: number;
 }
 
 export function createEmbeddingProvider(config: EmbeddingConfig): EmbeddingProvider {
   if (config.provider === "openai") {
     if (!config.apiKey) throw new Error("OpenAI API key required for openai embedding provider");
     return new OpenAIEmbeddingProvider(config.apiKey);
   }
+  if (config.provider === "ollama") {
+    return new OllamaEmbeddingProvider({
+      baseUrl: config.ollamaBaseUrl,
+      model: config.ollamaModel,
+      dimensions: config.ollamaDimensions,
+    });
+  }
   return new LocalEmbeddingProvider();
 }

src/lib/preflight-helpers.ts

@@ -0,0 +1,74 @@
+/**
+ * Pure helper functions for the preflight_check unified entry point.
+ * Extracted for testability — no side effects, no external dependencies
+ * (except file system checks which are isolated).
+ */
+
+import { existsSync, statSync } from "fs";
+import { resolve } from "path";
+
+/** Extract file paths from prompt text */
+export function extractFilePaths(prompt: string): string[] {
+  // Match standard paths (src/auth/jwt.ts) and dotfiles (.env, .gitignore)
+  const standard = prompt.match(/[\w\-./\\]+\.\w{1,6}/g) || [];
+  const dotfiles = prompt.match(/(?:^|[\s,:(])(\.[a-zA-Z][\w.-]*)/g) || [];
+  const cleaned = dotfiles.map(m => m.replace(/^[\s,:(]+/, ""));
+  return [...new Set([...standard, ...cleaned])];
+}
+
+/** Verify files exist and return status lines. projectDir scopes the check. */
+export function verifyFiles(paths: string[], projectDir: string): string[] {
+  const lines: string[] = [];
+  for (const p of paths) {
+    const abs = resolve(projectDir, p);
+    if (!abs.startsWith(resolve(projectDir))) continue; // path traversal guard
+    if (existsSync(abs)) {
+      const s = statSync(abs);
+      lines.push(`✅ \`${p}\` — ${s.size} bytes, modified ${s.mtime.toISOString().slice(0, 16)}`);
+    } else {
+      lines.push(`❌ \`${p}\` — not found`);
+    }
+  }
+  return lines;
+}
+
+/** Detect ambiguity signals in a prompt */
+export function detectAmbiguity(prompt: string): string[] {
+  const issues: string[] = [];
+  const filePaths = extractFilePaths(prompt);
+  if (/\b(it|them|the thing|that|those|this|these)\b/i.test(prompt)) {
+    issues.push("Contains vague pronouns — clarify what 'it'/'them' refers to");
+  }
+  if (/\b(fix|update|change|refactor|improve)\b/i.test(prompt) && !filePaths.length) {
+    issues.push("Vague verb without specific file targets");
+  }
+  if (prompt.trim().length < 40) {
+    issues.push("Very short prompt — likely missing context");
+  }
+  return issues;
+}
+
+/** Estimate scope complexity from file paths */
+export function estimateComplexity(filePaths: string[]): "SMALL" | "MEDIUM" | "LARGE" {
+  const hasMultipleFiles = filePaths.length > 3;
+  const hasMultipleDirs = new Set(filePaths.map(f => f.split("/")[0])).size > 2;
+  return hasMultipleFiles && hasMultipleDirs ? "LARGE" : filePaths.length > 1 ? "MEDIUM" : "SMALL";
+}
+
+/** Split prompt into sub-tasks for sequencing */
+export function splitSubtasks(prompt: string): { step: string; risk: string }[] {
+  const parts = prompt
+    .split(/\b(?:then|after that|next|finally)\b|(?:,\s*and\s+)|(?:\band\b(?=\s+(?:update|add|remove|create|fix|change|refactor|implement|deploy)))/i)
+    .map(s => s.trim())
+    .filter(s => s.length > 5);
+
+  if (parts.length <= 1) {
+    return [{ step: prompt.slice(0, 100), risk: "🟡 MEDIUM" }];
+  }
+
+  return parts.map(part => {
+    const risk = /schema|migrat|database|config|env|deploy/i.test(part) ? "🔴 HIGH" :
+                 /api|route|endpoint/i.test(part) ? "🟡 MEDIUM" : "🟢 LOW";
+    return { step: part.charAt(0).toUpperCase() + part.slice(1), risk };
+  });
+}

src/lib/triage.ts

@@ -73,7 +73,8 @@ function isTrivialCommand(prompt: string): boolean {
 }
 
 function hasFileRefs(prompt: string): boolean {
-  return FILE_PATH_RE.test(prompt);
+  // Standard paths (src/auth.ts) or standalone dotfiles (.env, .gitignore)
+  return FILE_PATH_RE.test(prompt) || /(?:^|[\s,:(])\.[a-zA-Z][\w.-]*/.test(prompt);
 }
 
 function hasLineNumbers(prompt: string): boolean {

src/tools/preflight-check.ts

@@ -12,31 +12,21 @@ import { getConfig } from "../lib/config.js";
 import { searchSemantic } from "../lib/timeline-db.js";
 import { basename, join } from "path";
 import { loadPatterns, matchPatterns, formatPatternMatches } from "../lib/patterns.js";
+import {
+  extractFilePaths,
+  verifyFiles as verifyFilesHelper,
+  detectAmbiguity,
+  estimateComplexity,
+  splitSubtasks,
+} from "../lib/preflight-helpers.js";
 
 // ---------------------------------------------------------------------------
 // Helpers
 // ---------------------------------------------------------------------------
 
-/** Extract file paths from prompt text */
-function extractFilePaths(prompt: string): string[] {
-  const matches = prompt.match(/[\w\-./\\]+\.\w{1,6}/g) || [];
-  return [...new Set(matches)];
-}
-
-/** Verify files exist and return stats */
+/** Verify files against PROJECT_DIR */
 function verifyFiles(paths: string[]): string[] {
-  const lines: string[] = [];
-  for (const p of paths) {
-    const abs = resolve(PROJECT_DIR, p);
-    if (!abs.startsWith(resolve(PROJECT_DIR))) continue; // path traversal guard
-    if (existsSync(abs)) {
-      const s = statSync(abs);
-      lines.push(`✅ \`${p}\` — ${s.size} bytes, modified ${s.mtime.toISOString().slice(0, 16)}`);
-    } else {
-      lines.push(`❌ \`${p}\` — not found`);
-    }
-  }
-  return lines;
+  return verifyFilesHelper(paths, PROJECT_DIR);
 }
 
 /** Get related project paths from config + env */
@@ -127,34 +117,16 @@ function buildScopeSection(prompt: string): string[] {
   }
 
   // Estimate complexity
-  const hasMultipleFiles = filePaths.length > 3;
-  const hasMultipleDirs = new Set(filePaths.map(f => f.split("/")[0])).size > 2;
-  const complexity = hasMultipleFiles && hasMultipleDirs ? "LARGE" : filePaths.length > 1 ? "MEDIUM" : "SMALL";
+  const complexity = estimateComplexity(filePaths);
   sections.push(`### Scope: ${complexity}`);
 
   return sections;
 }
 
 /** Build sequence section for multi-step */
 function buildSequenceSection(prompt: string): string[] {
-  // Split prompt into sub-tasks
-  const subtasks: string[] = [];
-
-  // Split on "and", "then", numbered lists, bullet points
-  const parts = prompt
-    .split(/\b(?:then|after that|next|finally)\b|(?:,\s*and\s+)|(?:\band\b(?=\s+(?:update|add|remove|create|fix|change|refactor|implement|deploy)))/i)
-    .map(s => s.trim())
-    .filter(s => s.length > 5);
-
-  if (parts.length > 1) {
-    for (let i = 0; i < parts.length; i++) {
-      const risk = /schema|migrat|database|config|env|deploy/i.test(parts[i]) ? "🔴 HIGH" :
-                   /api|route|endpoint/i.test(parts[i]) ? "🟡 MEDIUM" : "🟢 LOW";
-      subtasks.push(`${i + 1}. ${parts[i].charAt(0).toUpperCase() + parts[i].slice(1)} — Risk: ${risk}`);
-    }
-  } else {
-    subtasks.push(`1. ${prompt.slice(0, 100)} — Risk: 🟡 MEDIUM`);
-  }
+  const tasks = splitSubtasks(prompt);
+  const subtasks = tasks.map((t, i) => `${i + 1}. ${t.step} — Risk: ${t.risk}`);
 
   return [
     `### Execution Plan`,

tests/lib/embeddings.test.ts

@@ -63,4 +63,27 @@ describe("createEmbeddingProvider", () => {
     });
     expect(provider.dimensions).toBe(1536);
   });
+
+  it("returns ollama provider with default 768 dimensions", () => {
+    const provider = createEmbeddingProvider({ provider: "ollama" });
+    expect(provider.dimensions).toBe(768);
+  });
+
+  it("returns ollama provider with custom dimensions", () => {
+    const provider = createEmbeddingProvider({
+      provider: "ollama",
+      ollamaDimensions: 1024,
+    });
+    expect(provider.dimensions).toBe(1024);
+  });
+
+  it("accepts custom ollama base URL and model", () => {
+    const provider = createEmbeddingProvider({
+      provider: "ollama",
+      ollamaBaseUrl: "http://my-server:11434",
+      ollamaModel: "mxbai-embed-large",
+      ollamaDimensions: 1024,
+    });
+    expect(provider.dimensions).toBe(1024);
+  });
 });