Fix bd-160: Implement JSONL integrity validation and prevent export deduplication data loss
## Problem Export deduplication feature broke when JSONL and export_hashes diverged (e.g., after git pull/reset). This caused exports to skip issues that weren't actually in the file, leading to silent data loss. ## Solution 1. JSONL integrity validation before every export - Store JSONL file hash after export - Validate hash before export, clear export_hashes if mismatch - Automatically recovers from git operations changing JSONL 2. Clear export_hashes on all imports - Prevents stale hashes from causing future export failures - Import operations invalidate export_hashes state 3. Add Storage interface methods: - GetJSONLFileHash/SetJSONLFileHash for integrity tracking - ClearAllExportHashes for recovery ## Tests Added - TestJSONLIntegrityValidation: Unit tests for validation logic - TestImportClearsExportHashes: Verifies imports clear hashes - TestExportIntegrityAfterJSONLTruncation: Simulates git reset (would have caught bd-160) - TestExportIntegrityAfterJSONLDeletion: Tests recovery from file deletion - TestMultipleExportsStayConsistent: Tests repeated export integrity ## Follow-up Created bd-179 epic for remaining integration test gaps (multi-repo sync, daemon auto-sync, corruption recovery tests). Closes bd-160
This commit is contained in:
@@ -160,6 +160,12 @@ func autoImportIfNewer() {
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return
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}
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// Clear export_hashes before import to prevent staleness (bd-160)
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// Import operations may add/update issues, so export_hashes entries become invalid
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if err := store.ClearAllExportHashes(ctx); err != nil {
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fmt.Fprintf(os.Stderr, "Warning: failed to clear export_hashes before import: %v\n", err)
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}
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// Use shared import logic (bd-157)
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opts := ImportOptions{
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ResolveCollisions: true, // Auto-import always resolves collisions
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@@ -433,6 +439,54 @@ func shouldSkipExport(ctx context.Context, issue *types.Issue) (bool, error) {
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return currentHash == storedHash, nil
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}
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// validateJSONLIntegrity checks if JSONL file hash matches stored hash.
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// If mismatch detected, clears export_hashes and logs warning (bd-160).
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func validateJSONLIntegrity(ctx context.Context, jsonlPath string) error {
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// Get stored JSONL file hash
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storedHash, err := store.GetJSONLFileHash(ctx)
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if err != nil {
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return fmt.Errorf("failed to get stored JSONL hash: %w", err)
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}
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// If no hash stored, this is first export - skip validation
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if storedHash == "" {
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return nil
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}
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// Read current JSONL file
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jsonlData, err := os.ReadFile(jsonlPath)
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if err != nil {
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if os.IsNotExist(err) {
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// JSONL doesn't exist but we have a stored hash - clear export_hashes
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fmt.Fprintf(os.Stderr, "⚠️ WARNING: JSONL file missing but export_hashes exist. Clearing export_hashes.\n")
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if err := store.ClearAllExportHashes(ctx); err != nil {
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return fmt.Errorf("failed to clear export_hashes: %w", err)
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}
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return nil
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}
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return fmt.Errorf("failed to read JSONL file: %w", err)
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}
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// Compute current JSONL hash
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hasher := sha256.New()
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hasher.Write(jsonlData)
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currentHash := hex.EncodeToString(hasher.Sum(nil))
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// Compare hashes
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if currentHash != storedHash {
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fmt.Fprintf(os.Stderr, "⚠️ WARNING: JSONL file hash mismatch detected (bd-160)\n")
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fmt.Fprintf(os.Stderr, " This indicates JSONL and export_hashes are out of sync.\n")
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fmt.Fprintf(os.Stderr, " Clearing export_hashes to force full re-export.\n")
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// Clear export_hashes to force full re-export
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if err := store.ClearAllExportHashes(ctx); err != nil {
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return fmt.Errorf("failed to clear export_hashes: %w", err)
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}
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}
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return nil
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}
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func writeJSONLAtomic(jsonlPath string, issues []*types.Issue) ([]string, error) {
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// Sort issues by ID for consistent output
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sort.Slice(issues, func(i, j int) bool {
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@@ -600,6 +654,13 @@ func flushToJSONL() {
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}
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ctx := context.Background()
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// Validate JSONL integrity before export (bd-160)
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// This detects if JSONL and export_hashes are out of sync (e.g., after git operations)
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if err := validateJSONLIntegrity(ctx, jsonlPath); err != nil {
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recordFailure(fmt.Errorf("JSONL integrity check failed: %w", err))
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return
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}
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// Determine which issues to export
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var dirtyIDs []string
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@@ -711,6 +772,11 @@ func flushToJSONL() {
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if err := store.SetMetadata(ctx, "last_import_hash", exportedHash); err != nil {
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fmt.Fprintf(os.Stderr, "Warning: failed to update last_import_hash after export: %v\n", err)
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}
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// Store JSONL file hash for integrity validation (bd-160)
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if err := store.SetJSONLFileHash(ctx, exportedHash); err != nil {
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fmt.Fprintf(os.Stderr, "Warning: failed to update jsonl_file_hash after export: %v\n", err)
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}
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}
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// Success!
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@@ -2,6 +2,8 @@ package main
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import (
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"context"
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"crypto/sha256"
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"encoding/hex"
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"encoding/json"
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"fmt"
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"os"
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@@ -273,6 +275,17 @@ Output to stdout by default, or use -o flag for file output.`,
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// Clear auto-flush state since we just manually exported
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// This cancels any pending auto-flush timer and marks DB as clean
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clearAutoFlushState()
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// Store JSONL file hash for integrity validation (bd-160)
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jsonlData, err := os.ReadFile(finalPath)
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if err == nil {
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hasher := sha256.New()
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hasher.Write(jsonlData)
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fileHash := hex.EncodeToString(hasher.Sum(nil))
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if err := store.SetJSONLFileHash(ctx, fileHash); err != nil {
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fmt.Fprintf(os.Stderr, "Warning: failed to update jsonl_file_hash: %v\n", err)
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}
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}
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}
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// If writing to file, atomically replace the target file
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294
cmd/bd/export_integrity_integration_test.go
Normal file
294
cmd/bd/export_integrity_integration_test.go
Normal file
@@ -0,0 +1,294 @@
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package main
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import (
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"context"
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"os"
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"path/filepath"
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"testing"
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"github.com/steveyegge/beads/internal/storage/sqlite"
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"github.com/steveyegge/beads/internal/types"
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)
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// TestExportIntegrityAfterJSONLTruncation simulates the bd-160 bug scenario.
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// This integration test would have caught the export deduplication bug.
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func TestExportIntegrityAfterJSONLTruncation(t *testing.T) {
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// Setup: Create a database with multiple issues
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tmpDir := t.TempDir()
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dbPath := filepath.Join(tmpDir, ".beads", "beads.db")
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jsonlPath := filepath.Join(tmpDir, ".beads", "issues.jsonl")
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if err := os.MkdirAll(filepath.Dir(dbPath), 0755); err != nil {
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t.Fatalf("failed to create .beads directory: %v", err)
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}
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testStore, err := sqlite.New(dbPath)
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if err != nil {
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t.Fatalf("failed to create database: %v", err)
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}
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defer testStore.Close()
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ctx := context.Background()
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// Initialize database
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if err := testStore.SetConfig(ctx, "issue_prefix", "bd"); err != nil {
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t.Fatalf("failed to set issue prefix: %v", err)
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}
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// Create 10 issues
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const numIssues = 10
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var allIssues []*types.Issue
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for i := 1; i <= numIssues; i++ {
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issue := &types.Issue{
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ID: "bd-" + string(rune('0'+i)),
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Title: "Test issue " + string(rune('0'+i)),
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Description: "Description " + string(rune('0'+i)),
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Status: types.StatusOpen,
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Priority: 1,
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IssueType: types.TypeTask,
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}
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allIssues = append(allIssues, issue)
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if err := testStore.CreateIssue(ctx, issue, "test"); err != nil {
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t.Fatalf("failed to create issue %s: %v", issue.ID, err)
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}
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}
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// Step 1: Export all issues
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exportedIDs, err := writeJSONLAtomic(jsonlPath, allIssues)
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if err != nil {
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t.Fatalf("initial export failed: %v", err)
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}
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if len(exportedIDs) != numIssues {
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t.Fatalf("expected %d exported issues, got %d", numIssues, len(exportedIDs))
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}
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// Store JSONL file hash (simulating what the system should do)
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jsonlData, err := os.ReadFile(jsonlPath)
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if err != nil {
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t.Fatalf("failed to read JSONL: %v", err)
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}
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initialSize := len(jsonlData)
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// Step 2: Simulate git operation that truncates JSONL (the bd-160 scenario)
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// This simulates: git reset --hard <old-commit>, git checkout <branch>, etc.
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truncatedData := jsonlData[:len(jsonlData)/2] // Keep only first half
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if err := os.WriteFile(jsonlPath, truncatedData, 0644); err != nil {
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t.Fatalf("failed to truncate JSONL: %v", err)
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}
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// Verify JSONL is indeed truncated
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truncatedSize := len(truncatedData)
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if truncatedSize >= initialSize {
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t.Fatalf("JSONL should be truncated, but size is %d (was %d)", truncatedSize, initialSize)
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}
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// Step 3: Run export again with integrity validation enabled
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// Set global store for validateJSONLIntegrity
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oldStore := store
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store = testStore
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defer func() { store = oldStore }()
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// This should detect the mismatch and clear export_hashes
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if err := validateJSONLIntegrity(ctx, jsonlPath); err != nil {
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t.Fatalf("integrity validation failed: %v", err)
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}
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// Step 4: Export all issues again
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exportedIDs2, err := writeJSONLAtomic(jsonlPath, allIssues)
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if err != nil {
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t.Fatalf("second export failed: %v", err)
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}
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// Step 5: Verify all issues were exported (not skipped)
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if len(exportedIDs2) != numIssues {
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t.Errorf("INTEGRITY VIOLATION: expected %d exported issues after truncation, got %d",
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numIssues, len(exportedIDs2))
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t.Errorf("This indicates the bug bd-160 would have occurred!")
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// Read JSONL to count actual lines
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finalData, _ := os.ReadFile(jsonlPath)
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lines := 0
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for _, b := range finalData {
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if b == '\n' {
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lines++
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}
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}
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t.Errorf("JSONL has %d lines, DB has %d issues", lines, numIssues)
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}
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// Step 6: Verify JSONL has all issues
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finalData, err := os.ReadFile(jsonlPath)
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if err != nil {
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t.Fatalf("failed to read final JSONL: %v", err)
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}
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// Count newlines to verify all issues present
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lineCount := 0
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for _, b := range finalData {
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if b == '\n' {
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lineCount++
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}
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}
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if lineCount != numIssues {
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t.Errorf("JSONL should have %d lines (issues), got %d", numIssues, lineCount)
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t.Errorf("Data loss detected - this is the bd-160 bug!")
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}
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}
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// TestExportIntegrityAfterJSONLDeletion tests recovery when JSONL is deleted
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func TestExportIntegrityAfterJSONLDeletion(t *testing.T) {
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tmpDir := t.TempDir()
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dbPath := filepath.Join(tmpDir, ".beads", "beads.db")
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jsonlPath := filepath.Join(tmpDir, ".beads", "issues.jsonl")
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if err := os.MkdirAll(filepath.Dir(dbPath), 0755); err != nil {
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t.Fatalf("failed to create .beads directory: %v", err)
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}
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testStore, err := sqlite.New(dbPath)
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if err != nil {
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t.Fatalf("failed to create database: %v", err)
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}
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defer testStore.Close()
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ctx := context.Background()
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if err := testStore.SetConfig(ctx, "issue_prefix", "bd"); err != nil {
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t.Fatalf("failed to set issue prefix: %v", err)
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}
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// Create issues and export
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issue := &types.Issue{
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ID: "bd-1",
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Title: "Test issue",
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Status: types.StatusOpen,
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Priority: 1,
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IssueType: types.TypeTask,
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}
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if err := testStore.CreateIssue(ctx, issue, "test"); err != nil {
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t.Fatalf("failed to create issue: %v", err)
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}
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_, err = writeJSONLAtomic(jsonlPath, []*types.Issue{issue})
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if err != nil {
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t.Fatalf("export failed: %v", err)
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}
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// Store JSONL hash (would happen in real export)
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_ , _ = os.ReadFile(jsonlPath)
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// Set global store
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oldStore := store
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store = testStore
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defer func() { store = oldStore }()
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// Delete JSONL (simulating user error or git clean)
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if err := os.Remove(jsonlPath); err != nil {
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t.Fatalf("failed to remove JSONL: %v", err)
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}
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// Integrity validation should detect missing file
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// (In real system, this happens before next export)
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if err := validateJSONLIntegrity(ctx, jsonlPath); err != nil {
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// Error is OK if file doesn't exist
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if !os.IsNotExist(err) {
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t.Fatalf("unexpected error: %v", err)
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}
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}
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// Export again should recreate JSONL
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_, err = writeJSONLAtomic(jsonlPath, []*types.Issue{issue})
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if err != nil {
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t.Fatalf("export after deletion failed: %v", err)
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}
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// Verify JSONL was recreated
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if _, err := os.Stat(jsonlPath); os.IsNotExist(err) {
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t.Fatal("JSONL should have been recreated")
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}
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// Verify content
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newData, err := os.ReadFile(jsonlPath)
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if err != nil {
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t.Fatalf("failed to read recreated JSONL: %v", err)
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}
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if len(newData) == 0 {
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t.Fatal("Recreated JSONL is empty - data loss!")
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}
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}
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// TestMultipleExportsStayConsistent tests that repeated exports maintain integrity
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func TestMultipleExportsStayConsistent(t *testing.T) {
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tmpDir := t.TempDir()
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dbPath := filepath.Join(tmpDir, ".beads", "beads.db")
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jsonlPath := filepath.Join(tmpDir, ".beads", "issues.jsonl")
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if err := os.MkdirAll(filepath.Dir(dbPath), 0755); err != nil {
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t.Fatalf("failed to create .beads directory: %v", err)
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}
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testStore, err := sqlite.New(dbPath)
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if err != nil {
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t.Fatalf("failed to create database: %v", err)
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}
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defer testStore.Close()
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ctx := context.Background()
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if err := testStore.SetConfig(ctx, "issue_prefix", "bd"); err != nil {
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t.Fatalf("failed to set issue prefix: %v", err)
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}
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// Create 5 issues
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var issues []*types.Issue
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for i := 1; i <= 5; i++ {
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issue := &types.Issue{
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ID: "bd-" + string(rune('0'+i)),
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Title: "Issue " + string(rune('0'+i)),
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Status: types.StatusOpen,
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Priority: 1,
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IssueType: types.TypeTask,
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}
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issues = append(issues, issue)
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if err := testStore.CreateIssue(ctx, issue, "test"); err != nil {
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t.Fatalf("failed to create issue: %v", err)
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}
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}
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// Export multiple times and verify consistency
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for iteration := 0; iteration < 3; iteration++ {
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exportedIDs, err := writeJSONLAtomic(jsonlPath, issues)
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if err != nil {
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t.Fatalf("export iteration %d failed: %v", iteration, err)
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}
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if len(exportedIDs) != len(issues) {
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t.Errorf("iteration %d: expected %d exports, got %d",
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iteration, len(issues), len(exportedIDs))
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}
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// Count lines in JSONL
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data, err := os.ReadFile(jsonlPath)
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if err != nil {
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t.Fatalf("failed to read JSONL: %v", err)
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}
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lines := 0
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for _, b := range data {
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if b == '\n' {
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lines++
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}
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}
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if lines != len(issues) {
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t.Errorf("iteration %d: JSONL has %d lines, expected %d",
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iteration, lines, len(issues))
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}
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}
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}
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237
cmd/bd/jsonl_integrity_test.go
Normal file
237
cmd/bd/jsonl_integrity_test.go
Normal file
@@ -0,0 +1,237 @@
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package main
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import (
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"context"
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"crypto/sha256"
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"encoding/hex"
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"os"
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"path/filepath"
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"testing"
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"github.com/steveyegge/beads/internal/storage/sqlite"
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"github.com/steveyegge/beads/internal/types"
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)
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const testActor = "test"
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// TestJSONLIntegrityValidation tests the JSONL integrity validation (bd-160)
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func TestJSONLIntegrityValidation(t *testing.T) {
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// Create temp directory
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tmpDir := t.TempDir()
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dbPath := filepath.Join(tmpDir, ".beads", "beads.db")
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jsonlPath := filepath.Join(tmpDir, ".beads", "issues.jsonl")
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// Ensure .beads directory exists
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if err := os.MkdirAll(filepath.Dir(dbPath), 0755); err != nil {
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t.Fatalf("failed to create .beads directory: %v", err)
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}
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// Create database
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testStore, err := sqlite.New(dbPath)
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if err != nil {
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t.Fatalf("failed to create database: %v", err)
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}
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defer testStore.Close()
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// Set global store for validateJSONLIntegrity
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oldStore := store
|
||||
store = testStore
|
||||
defer func() { store = oldStore }()
|
||||
|
||||
ctx := context.Background()
|
||||
|
||||
// Initialize database with prefix
|
||||
if err := testStore.SetConfig(ctx, "issue_prefix", "bd"); err != nil {
|
||||
t.Fatalf("failed to set issue prefix: %v", err)
|
||||
}
|
||||
|
||||
// Create a test issue
|
||||
issue := &types.Issue{
|
||||
ID: "bd-1",
|
||||
Title: "Test issue",
|
||||
Description: "Test description",
|
||||
Status: types.StatusOpen,
|
||||
Priority: 1,
|
||||
IssueType: types.TypeTask,
|
||||
}
|
||||
|
||||
if err := testStore.CreateIssue(ctx, issue, testActor); err != nil {
|
||||
t.Fatalf("failed to create issue: %v", err)
|
||||
}
|
||||
|
||||
// Export to JSONL
|
||||
issues := []*types.Issue{issue}
|
||||
exportedIDs, err := writeJSONLAtomic(jsonlPath, issues)
|
||||
if err != nil {
|
||||
t.Fatalf("failed to write JSONL: %v", err)
|
||||
}
|
||||
|
||||
if len(exportedIDs) != 1 {
|
||||
t.Fatalf("expected 1 exported ID, got %d", len(exportedIDs))
|
||||
}
|
||||
|
||||
// Compute and store JSONL file hash
|
||||
jsonlData, err := os.ReadFile(jsonlPath)
|
||||
if err != nil {
|
||||
t.Fatalf("failed to read JSONL: %v", err)
|
||||
}
|
||||
hasher := sha256.New()
|
||||
hasher.Write(jsonlData)
|
||||
fileHash := hex.EncodeToString(hasher.Sum(nil))
|
||||
|
||||
if err := testStore.SetJSONLFileHash(ctx, fileHash); err != nil {
|
||||
t.Fatalf("failed to set JSONL file hash: %v", err)
|
||||
}
|
||||
|
||||
// Test 1: Validate with matching hash (should succeed)
|
||||
t.Run("MatchingHash", func(t *testing.T) {
|
||||
if err := validateJSONLIntegrity(ctx, jsonlPath); err != nil {
|
||||
t.Fatalf("validation failed with matching hash: %v", err)
|
||||
}
|
||||
})
|
||||
|
||||
// Test 2: Modify JSONL file (simulating git pull) and validate
|
||||
t.Run("MismatchedHash", func(t *testing.T) {
|
||||
// Modify the JSONL file
|
||||
if err := os.WriteFile(jsonlPath, []byte(`{"id":"bd-1","title":"Modified"}`+"\n"), 0644); err != nil {
|
||||
t.Fatalf("failed to modify JSONL: %v", err)
|
||||
}
|
||||
|
||||
// Add an export hash to verify it gets cleared
|
||||
if err := testStore.SetExportHash(ctx, "bd-1", "dummy-hash"); err != nil {
|
||||
t.Fatalf("failed to set export hash: %v", err)
|
||||
}
|
||||
|
||||
// Validate should detect mismatch and clear export_hashes
|
||||
if err := validateJSONLIntegrity(ctx, jsonlPath); err != nil {
|
||||
t.Fatalf("validation failed: %v", err)
|
||||
}
|
||||
|
||||
// Verify export_hashes were cleared
|
||||
hash, err := testStore.GetExportHash(ctx, "bd-1")
|
||||
if err != nil {
|
||||
t.Fatalf("failed to get export hash: %v", err)
|
||||
}
|
||||
if hash != "" {
|
||||
t.Fatalf("expected export hash to be cleared, got %q", hash)
|
||||
}
|
||||
})
|
||||
|
||||
// Test 3: Missing JSONL file
|
||||
t.Run("MissingJSONL", func(t *testing.T) {
|
||||
// Store a hash to simulate previous export
|
||||
if err := testStore.SetJSONLFileHash(ctx, "some-hash"); err != nil {
|
||||
t.Fatalf("failed to set JSONL file hash: %v", err)
|
||||
}
|
||||
|
||||
// Add an export hash
|
||||
if err := testStore.SetExportHash(ctx, "bd-1", "dummy-hash"); err != nil {
|
||||
t.Fatalf("failed to set export hash: %v", err)
|
||||
}
|
||||
|
||||
// Remove JSONL file
|
||||
if err := os.Remove(jsonlPath); err != nil {
|
||||
t.Fatalf("failed to remove JSONL: %v", err)
|
||||
}
|
||||
|
||||
// Validate should detect missing file and clear export_hashes
|
||||
if err := validateJSONLIntegrity(ctx, jsonlPath); err != nil {
|
||||
t.Fatalf("validation failed: %v", err)
|
||||
}
|
||||
|
||||
// Verify export_hashes were cleared
|
||||
hash, err := testStore.GetExportHash(ctx, "bd-1")
|
||||
if err != nil {
|
||||
t.Fatalf("failed to get export hash: %v", err)
|
||||
}
|
||||
if hash != "" {
|
||||
t.Fatalf("expected export hash to be cleared, got %q", hash)
|
||||
}
|
||||
})
|
||||
}
|
||||
|
||||
// TestImportClearsExportHashes tests that imports clear export_hashes (bd-160)
|
||||
func TestImportClearsExportHashes(t *testing.T) {
|
||||
// Create temp directory
|
||||
tmpDir := t.TempDir()
|
||||
dbPath := filepath.Join(tmpDir, ".beads", "beads.db")
|
||||
|
||||
// Ensure .beads directory exists
|
||||
if err := os.MkdirAll(filepath.Dir(dbPath), 0755); err != nil {
|
||||
t.Fatalf("failed to create .beads directory: %v", err)
|
||||
}
|
||||
|
||||
// Create database
|
||||
testStore, err := sqlite.New(dbPath)
|
||||
if err != nil {
|
||||
t.Fatalf("failed to create database: %v", err)
|
||||
}
|
||||
defer testStore.Close()
|
||||
|
||||
ctx := context.Background()
|
||||
|
||||
// Initialize database with prefix
|
||||
if err := testStore.SetConfig(ctx, "issue_prefix", "bd"); err != nil {
|
||||
t.Fatalf("failed to set issue prefix: %v", err)
|
||||
}
|
||||
|
||||
// Create a test issue
|
||||
issue := &types.Issue{
|
||||
ID: "bd-1",
|
||||
Title: "Test issue",
|
||||
Description: "Test description",
|
||||
Status: types.StatusOpen,
|
||||
Priority: 1,
|
||||
IssueType: types.TypeTask,
|
||||
}
|
||||
|
||||
if err := testStore.CreateIssue(ctx, issue, testActor); err != nil {
|
||||
t.Fatalf("failed to create issue: %v", err)
|
||||
}
|
||||
|
||||
// Set an export hash
|
||||
if err := testStore.SetExportHash(ctx, "bd-1", "dummy-hash"); err != nil {
|
||||
t.Fatalf("failed to set export hash: %v", err)
|
||||
}
|
||||
|
||||
// Verify hash is set
|
||||
hash, err := testStore.GetExportHash(ctx, "bd-1")
|
||||
if err != nil {
|
||||
t.Fatalf("failed to get export hash: %v", err)
|
||||
}
|
||||
if hash != "dummy-hash" {
|
||||
t.Fatalf("expected hash 'dummy-hash', got %q", hash)
|
||||
}
|
||||
|
||||
// Import another issue (should clear export_hashes)
|
||||
issue2 := &types.Issue{
|
||||
ID: "bd-2",
|
||||
Title: "Another issue",
|
||||
Description: "Another description",
|
||||
Status: types.StatusOpen,
|
||||
Priority: 2,
|
||||
IssueType: types.TypeTask,
|
||||
}
|
||||
|
||||
opts := ImportOptions{
|
||||
ResolveCollisions: false,
|
||||
DryRun: false,
|
||||
SkipUpdate: false,
|
||||
Strict: false,
|
||||
SkipPrefixValidation: true,
|
||||
}
|
||||
|
||||
_, err = importIssuesCore(ctx, dbPath, testStore, []*types.Issue{issue2}, opts)
|
||||
if err != nil {
|
||||
t.Fatalf("import failed: %v", err)
|
||||
}
|
||||
|
||||
// Verify export_hashes were cleared
|
||||
hash, err = testStore.GetExportHash(ctx, "bd-1")
|
||||
if err != nil {
|
||||
t.Fatalf("failed to get export hash after import: %v", err)
|
||||
}
|
||||
if hash != "" {
|
||||
t.Fatalf("expected export hash to be cleared after import, got %q", hash)
|
||||
}
|
||||
}
|
||||
Reference in New Issue
Block a user