Merge branch 'main' of https://github.com/steveyegge/beads

CHANGELOG.md

@@ -83,10 +83,11 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
   - Now always uses content hash for reliable comparison
   - Prevents bd sync from overwriting pulled JSONL and resurrecting deleted issues
 
-- **ZFC (JSONL First Consistency)**: Enforce source of truth semantics (bd-l0r, 1ba068f, 2e4171a, 949ab42)
+- **ZFC (JSONL First Consistency)**: Fix stale DB overwriting JSONL on sync (bd-l0r, 1ba068f, 2e4171a, 949ab42)
-  - bd sync now unconditionally imports JSONL first (source of truth)
+  - bd sync now detects stale DB (>50% divergence from JSONL) and imports first
-  - Simpler JSONL → DB → JSONL flow ensures consistency
+  - After ZFC import, skips export to prevent overwriting JSONL source of truth
-  - Prevents exporting when DB has significantly more issues than JSONL
+  - Fixes bug where DB with 688 issues would overwrite JSONL with 62 issues after pull
+  - JSONL is source of truth after git pull - DB syncs to match, not vice versa
   - Preserves local uncommitted changes while catching stale DB scenarios
 
 - **Merge Conflict Semantics**: Improved resolution policies (bd-pq5k, d4f9a05)

cmd/bd/sync.go

@@ -124,11 +124,13 @@ Use --merge to merge the sync branch back to main branch.`,
 		}
 
 		// Step 1: Export pending changes (but check for stale DB first)
+		skipExport := false // Track if we should skip export due to ZFC import
 		if dryRun {
 			fmt.Println("→ [DRY RUN] Would export pending changes to JSONL")
 		} else {
 			// ZFC safety check (bd-l0r): if DB significantly diverges from JSONL,
 			// force import first to sync with JSONL source of truth
+			// After import, skip export to prevent overwriting JSONL (JSONL is source of truth)
 			if err := ensureStoreActive(); err == nil && store != nil {
 				dbCount, err := countDBIssuesFast(ctx, store)
 				if err == nil {
@@ -142,32 +144,37 @@ Use --merge to merge the sync branch back to main branch.`,
 								fmt.Fprintf(os.Stderr, "Error importing (ZFC): %v\n", err)
 								os.Exit(1)
 							}
+							// Skip export after ZFC import - JSONL is source of truth
+							skipExport = true
+							fmt.Println("→ Skipping export (JSONL is source of truth after ZFC import)")
 						}
 					}
 				}
 			}
 
-			// Pre-export integrity checks
+			if !skipExport {
-			if err := ensureStoreActive(); err == nil && store != nil {
+				// Pre-export integrity checks
-				if err := validatePreExport(ctx, store, jsonlPath); err != nil {
+				if err := ensureStoreActive(); err == nil && store != nil {
-					fmt.Fprintf(os.Stderr, "Pre-export validation failed: %v\n", err)
+					if err := validatePreExport(ctx, store, jsonlPath); err != nil {
-					os.Exit(1)
+						fmt.Fprintf(os.Stderr, "Pre-export validation failed: %v\n", err)
+						os.Exit(1)
+					}
+					if err := checkDuplicateIDs(ctx, store); err != nil {
+						fmt.Fprintf(os.Stderr, "Database corruption detected: %v\n", err)
+						os.Exit(1)
+					}
+					if orphaned, err := checkOrphanedDeps(ctx, store); err != nil {
+						fmt.Fprintf(os.Stderr, "Warning: orphaned dependency check failed: %v\n", err)
+					} else if len(orphaned) > 0 {
+						fmt.Fprintf(os.Stderr, "Warning: found %d orphaned dependencies: %v\n", len(orphaned), orphaned)
+					}
 				}
-				if err := checkDuplicateIDs(ctx, store); err != nil {
-					fmt.Fprintf(os.Stderr, "Database corruption detected: %v\n", err)
-					os.Exit(1)
-				}
-				if orphaned, err := checkOrphanedDeps(ctx, store); err != nil {
-					fmt.Fprintf(os.Stderr, "Warning: orphaned dependency check failed: %v\n", err)
-				} else if len(orphaned) > 0 {
-					fmt.Fprintf(os.Stderr, "Warning: found %d orphaned dependencies: %v\n", len(orphaned), orphaned)
-				}
-			}
 
-			fmt.Println("→ Exporting pending changes to JSONL...")
+				fmt.Println("→ Exporting pending changes to JSONL...")
-			if err := exportToJSONL(ctx, jsonlPath); err != nil {
+				if err := exportToJSONL(ctx, jsonlPath); err != nil {
-				fmt.Fprintf(os.Stderr, "Error exporting: %v\n", err)
+					fmt.Fprintf(os.Stderr, "Error exporting: %v\n", err)
-				os.Exit(1)
+					os.Exit(1)
+				}
 			}
 
 			// Capture left snapshot (pre-pull state) for 3-way merge

cmd/bd/sync_test.go

@@ -2,14 +2,17 @@ package main
 
 import (
 	"context"
+	"fmt"
 	"os"
 	"os/exec"
 	"path/filepath"
 	"strings"
 	"testing"
+	"time"
 
 	"github.com/steveyegge/beads/internal/storage/sqlite"
 	"github.com/steveyegge/beads/internal/syncbranch"
+	"github.com/steveyegge/beads/internal/types"
 )
 
 func TestIsGitRepo_InGitRepo(t *testing.T) {
@@ -431,3 +434,139 @@ func TestHasJSONLConflict_MultipleConflicts(t *testing.T) {
 		t.Error("expected false when multiple files have conflicts (should not auto-resolve)")
 	}
 }
+
+// TestZFCSkipsExportAfterImport tests the bd-l0r fix: after importing JSONL due to
+// stale DB detection, sync should skip export to avoid overwriting the JSONL source of truth.
+func TestZFCSkipsExportAfterImport(t *testing.T) {
+	ctx := context.Background()
+	tmpDir := t.TempDir()
+	oldWd, _ := os.Getwd()
+	defer os.Chdir(oldWd)
+	os.Chdir(tmpDir)
+
+	// Setup beads directory with JSONL
+	beadsDir := filepath.Join(tmpDir, ".beads")
+	os.MkdirAll(beadsDir, 0755)
+	jsonlPath := filepath.Join(beadsDir, "beads.jsonl")
+
+	// Create JSONL with 10 issues (simulating pulled state after cleanup)
+	var jsonlLines []string
+	for i := 1; i <= 10; i++ {
+		line := fmt.Sprintf(`{"id":"bd-%d","title":"JSONL Issue %d","status":"open","issue_type":"task","priority":2,"created_at":"2025-11-24T00:00:00Z","updated_at":"2025-11-24T00:00:00Z"}`, i, i)
+		jsonlLines = append(jsonlLines, line)
+	}
+	os.WriteFile(jsonlPath, []byte(strings.Join(jsonlLines, "\n")+"\n"), 0644)
+
+	// Create SQLite store with 100 stale issues (10x the JSONL count = 900% divergence)
+	dbPath := filepath.Join(beadsDir, "beads.db")
+	testStore, err := sqlite.New(ctx, dbPath)
+	if err != nil {
+		t.Fatalf("failed to create test store: %v", err)
+	}
+	defer testStore.Close()
+
+	// Set issue_prefix to prevent "database not initialized" errors
+	if err := testStore.SetConfig(ctx, "issue_prefix", "bd"); err != nil {
+		t.Fatalf("failed to set issue_prefix: %v", err)
+	}
+
+	// Populate DB with 100 issues (stale, 90 closed)
+	for i := 1; i <= 100; i++ {
+		status := types.StatusOpen
+		var closedAt *time.Time
+		if i > 10 { // First 10 open, rest closed
+			status = types.StatusClosed
+			now := time.Now()
+			closedAt = &now
+		}
+		issue := &types.Issue{
+			Title:     fmt.Sprintf("Old Issue %d", i),
+			Status:    status,
+			ClosedAt:  closedAt,
+			IssueType: types.TypeTask,
+			Priority:  2,
+		}
+		if err := testStore.CreateIssue(ctx, issue, "test-user"); err != nil {
+			t.Fatalf("failed to create issue %d: %v", i, err)
+		}
+	}
+
+	// Verify divergence: (100 - 10) / 10 = 900% > 50% threshold
+	dbCount, _ := countDBIssuesFast(ctx, testStore)
+	jsonlCount, _ := countIssuesInJSONL(jsonlPath)
+	divergence := float64(dbCount-jsonlCount) / float64(jsonlCount)
+
+	if dbCount != 100 {
+		t.Fatalf("DB setup failed: expected 100 issues, got %d", dbCount)
+	}
+	if jsonlCount != 10 {
+		t.Fatalf("JSONL setup failed: expected 10 issues, got %d", jsonlCount)
+	}
+	if divergence <= 0.5 {
+		t.Fatalf("Divergence too low: %.2f%% (expected >50%%)", divergence*100)
+	}
+
+	// Set global store for the test
+	oldStore := store
+	storeMutex.Lock()
+	oldStoreActive := storeActive
+	store = testStore
+	storeActive = true
+	storeMutex.Unlock()
+	defer func() {
+		storeMutex.Lock()
+		store = oldStore
+		storeActive = oldStoreActive
+		storeMutex.Unlock()
+	}()
+
+	// Save JSONL content hash before running sync logic
+	beforeHash, _ := computeJSONLHash(jsonlPath)
+
+	// Simulate the ZFC check and export step from sync.go lines 126-186
+	// This is the code path that should detect divergence and skip export
+	skipExport := false
+
+	// ZFC safety check
+	if err := ensureStoreActive(); err == nil && store != nil {
+		dbCount, err := countDBIssuesFast(ctx, store)
+		if err == nil {
+			jsonlCount, err := countIssuesInJSONL(jsonlPath)
+			if err == nil && jsonlCount > 0 && dbCount > jsonlCount {
+				divergence := float64(dbCount-jsonlCount) / float64(jsonlCount)
+				if divergence > 0.5 {
+					// Import JSONL (this should sync DB to match JSONL's 62 issues)
+					if err := importFromJSONL(ctx, jsonlPath, false); err != nil {
+						t.Fatalf("ZFC import failed: %v", err)
+					}
+					skipExport = true
+				}
+			}
+		}
+	}
+
+	// Verify skipExport was set
+	if !skipExport {
+		t.Error("Expected skipExport=true after ZFC import, but got false")
+	}
+
+	// Verify DB was synced to JSONL (should have 10 issues now, not 100)
+	afterDBCount, _ := countDBIssuesFast(ctx, testStore)
+	if afterDBCount != 10 {
+		t.Errorf("After ZFC import, DB should have 10 issues (matching JSONL), got %d", afterDBCount)
+	}
+
+	// Verify JSONL was NOT modified (no export happened)
+	afterHash, _ := computeJSONLHash(jsonlPath)
+	if beforeHash != afterHash {
+		t.Error("JSONL content changed after ZFC import (export should have been skipped)")
+	}
+
+	// Verify issue count in JSONL is still 10
+	finalJSONLCount, _ := countIssuesInJSONL(jsonlPath)
+	if finalJSONLCount != 10 {
+		t.Errorf("JSONL should still have 10 issues, got %d", finalJSONLCount)
+	}
+
+	t.Logf("✓ ZFC fix verified: DB synced from 100 to 10 issues, JSONL unchanged")
+}