test(doctor): add tests to restore coverage above 45%

Add tests for doctor package functions after refactor PR #653:
- version_test.go: CompareVersions, IsValidSemver, ParseVersionParts
- types_test.go: status constants and DoctorCheck struct
- installation_test.go: CheckInstallation, CheckMultipleDatabases, CheckPermissions
- integrity_test.go: CheckIDFormat, CheckDependencyCycles, CheckTombstones, CheckDeletionsManifest
- database_test.go: CheckDatabaseVersion, CheckSchemaCompatibility, CheckDatabaseIntegrity
- daemon_test.go: CheckDaemonStatus
- git_test.go: CheckGitHooks, CheckMergeDriver, CheckSyncBranchConfig

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

cmd/bd/doctor/integrity_test.go

@@ -0,0 +1,134 @@
+package doctor
+
+import (
+	"os"
+	"path/filepath"
+	"testing"
+)
+
+func TestCheckIDFormat(t *testing.T) {
+	t.Run("no beads directory", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		check := CheckIDFormat(tmpDir)
+
+		// Should handle missing .beads gracefully
+		if check.Name != "Issue IDs" {
+			t.Errorf("Name = %q, want %q", check.Name, "Issue IDs")
+		}
+	})
+
+	t.Run("no database file", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		beadsDir := filepath.Join(tmpDir, ".beads")
+		if err := os.Mkdir(beadsDir, 0755); err != nil {
+			t.Fatal(err)
+		}
+
+		check := CheckIDFormat(tmpDir)
+
+		// Should report "will use hash-based IDs" for new install
+		if check.Status != StatusOK {
+			t.Errorf("Status = %q, want %q", check.Status, StatusOK)
+		}
+	})
+}
+
+func TestCheckDependencyCycles(t *testing.T) {
+	t.Run("no beads directory", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		check := CheckDependencyCycles(tmpDir)
+
+		// Should handle missing directory gracefully
+		if check.Name != "Dependency Cycles" {
+			t.Errorf("Name = %q, want %q", check.Name, "Dependency Cycles")
+		}
+	})
+
+	t.Run("no database", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		beadsDir := filepath.Join(tmpDir, ".beads")
+		if err := os.Mkdir(beadsDir, 0755); err != nil {
+			t.Fatal(err)
+		}
+
+		check := CheckDependencyCycles(tmpDir)
+
+		// Should return OK when no database (nothing to check)
+		if check.Status != StatusOK {
+			t.Errorf("Status = %q, want %q", check.Status, StatusOK)
+		}
+	})
+}
+
+func TestCheckTombstones(t *testing.T) {
+	t.Run("no beads directory", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		check := CheckTombstones(tmpDir)
+
+		// Should handle missing directory
+		if check.Name != "Tombstones" {
+			t.Errorf("Name = %q, want %q", check.Name, "Tombstones")
+		}
+	})
+
+	t.Run("empty beads directory", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		beadsDir := filepath.Join(tmpDir, ".beads")
+		if err := os.Mkdir(beadsDir, 0755); err != nil {
+			t.Fatal(err)
+		}
+
+		check := CheckTombstones(tmpDir)
+
+		// Should return OK when no tombstones file
+		if check.Status != StatusOK {
+			t.Errorf("Status = %q, want %q", check.Status, StatusOK)
+		}
+	})
+}
+
+func TestCheckDeletionsManifest(t *testing.T) {
+	t.Run("no beads directory", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		check := CheckDeletionsManifest(tmpDir)
+
+		if check.Name != "Deletions Manifest" {
+			t.Errorf("Name = %q, want %q", check.Name, "Deletions Manifest")
+		}
+	})
+
+	t.Run("no deletions file", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		beadsDir := filepath.Join(tmpDir, ".beads")
+		if err := os.Mkdir(beadsDir, 0755); err != nil {
+			t.Fatal(err)
+		}
+
+		check := CheckDeletionsManifest(tmpDir)
+
+		// Should return OK when no deletions.jsonl (nothing to migrate)
+		if check.Status != StatusOK {
+			t.Errorf("Status = %q, want %q", check.Status, StatusOK)
+		}
+	})
+
+	t.Run("has deletions file", func(t *testing.T) {
+		tmpDir := t.TempDir()
+		beadsDir := filepath.Join(tmpDir, ".beads")
+		if err := os.Mkdir(beadsDir, 0755); err != nil {
+			t.Fatal(err)
+		}
+		// Create a deletions.jsonl file
+		deletionsPath := filepath.Join(beadsDir, "deletions.jsonl")
+		if err := os.WriteFile(deletionsPath, []byte(`{"id":"test-1"}`), 0644); err != nil {
+			t.Fatal(err)
+		}
+
+		check := CheckDeletionsManifest(tmpDir)
+
+		// Should warn about legacy deletions file
+		if check.Status != StatusWarning {
+			t.Errorf("Status = %q, want %q", check.Status, StatusWarning)
+		}
+	})
+}