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3a9749279a32bd4af4c92d93d27286b7a57a3e51
beads/cmd/bd
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Steve Yegge 3a9749279a fix(sync): protect locally exported issues from sanitization (bd-3ee1) 
The sync sanitize process was incorrectly removing newly created issues
when they happened to have IDs matching entries in the deletions manifest.
This could occur with hash-based IDs when content is similar to previously
deleted issues.

The fix adds protection for issues that were in the left snapshot (local
export before pull). These represent local work and should not be removed
by sanitize, even if they match entries in the deletions manifest.

Changes:
- Load left snapshot in sanitizeJSONLWithDeletions() to build protection set
- Add protection check before removing issues from JSONL
- Add ProtectedCount/ProtectedIDs to SanitizeResult for tracking
- Log protected issues during sync for visibility
- Add comprehensive test coverage for the fix

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2025-12-14 00:55:55 -08:00
..
doctor
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
setup
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
templates
fix: improve JSONL-only mode detection and error messages (GH #534)
2025-12-13 12:50:33 -08:00
testdata
…
autoflush.go
fix(memory): implement GetReadyWork/GetBlockedIssues + child counters
2025-12-13 23:22:10 -08:00
autoimport_test.go
fix: use proper YAML parsing for no-db mode detection (bd-r6k2)
2025-12-07 21:09:32 +11:00
autoimport.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
autostart_test.go
…
clean_security_test.go
test: Add security and error handling tests for lint warnings
2025-11-21 19:30:48 -05:00
clean.go
bd-6xd: Standardize on issues.jsonl as canonical filename
2025-11-26 22:02:59 -08:00
cleanup.go
fix(cleanup): resolve CHECK constraint failure and add tombstone pruning
2025-12-14 00:37:54 -08:00
cli_fast_test.go
feat: Add label operations to bd update command
2025-11-21 22:17:26 -05:00
comments_test.go
test: Refactor P1 test files to use shared DB pattern (bd-1rh)
2025-11-21 15:51:07 -05:00
comments.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
compact_test.go
feat(tombstones): add migrate-tombstones command and compact pruning
2025-12-07 21:34:35 +11:00
compact.go
fix(cleanup): resolve CHECK constraint failure and add tombstone pruning
2025-12-14 00:37:54 -08:00
config_test.go
…
config.go
feat(bd-1pj6): Add custom status states via config
2025-11-28 23:19:21 -08:00
count.go
feat: Add 'bd count' command for counting and grouping issues
2025-11-21 19:21:05 -05:00
create_test.go
test: Refactor P1 test files to use shared DB pattern (bd-1rh)
2025-11-21 15:51:07 -05:00
create.go
feat: add --estimate flag to bd create/update commands (GH #443)
2025-12-03 15:55:35 -08:00
daemon_autoimport_test.go
…
daemon_autostart.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
daemon_config.go
refactor: remove deprecated global daemon support
2025-11-24 23:39:54 -08:00
daemon_crash_test.go
…
daemon_debouncer_test.go
fix: CI test failures on Windows
2025-11-26 20:59:07 -08:00
daemon_debouncer.go
…
daemon_event_loop.go
refactor: rename last_import_hash to jsonl_content_hash (bd-39o)
2025-11-28 23:14:12 -08:00
daemon_health_unix.go
fix(ci): more changes to fix failing CI (#415)
2025-11-29 22:24:29 -08:00
daemon_health_wasm.go
feat: implement health checks in daemon event loop (bd-gqo)
2025-11-28 23:10:44 -08:00
daemon_health_windows.go
feat: implement health checks in daemon event loop (bd-gqo)
2025-11-28 23:10:44 -08:00
daemon_lifecycle.go
feat(daemon): add --foreground flag for systemd/supervisord integration
2025-12-01 21:09:00 -08:00
daemon_local_test.go
feat(daemon): add --local flag for git-free daemon operation (#433)
2025-12-01 17:37:56 -08:00
daemon_lock_test.go
…
daemon_lock_unix.go
…
daemon_lock_wasm.go
…
daemon_lock_windows.go
…
daemon_lock.go
…
daemon_logger.go
Increase daemon log rotation limits for production use
2025-11-23 21:33:00 -08:00
daemon_parent_test.go
Fix integration test compilation errors in cmd/bd
2025-12-11 07:11:15 -05:00
daemon_rotation_test.go
Increase daemon log rotation limits for production use
2025-11-23 21:33:00 -08:00
daemon_server.go
refactor: remove deprecated global daemon support
2025-11-24 23:39:54 -08:00
daemon_sync_branch_test.go
Update pre-commit hook regression test for proper isolation
2025-12-11 07:11:42 -05:00
daemon_sync_branch.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
daemon_sync_test.go
refactor: rename last_import_hash to jsonl_content_hash (bd-39o)
2025-11-28 23:14:12 -08:00
daemon_sync.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
daemon_test.go
Fix integration test compilation errors in cmd/bd
2025-12-11 07:11:15 -05:00
daemon_unix_test.go
feat: Complete GH #353 follow-up phases (bd-9nw, bd-u3t, bd-e0o)
2025-11-21 19:32:45 -05:00
daemon_unix.go
feat: Complete GH #353 follow-up phases (bd-9nw, bd-u3t, bd-e0o)
2025-11-21 19:32:45 -05:00
daemon_wasm.go
…
daemon_watcher_platform_test.go
…
daemon_watcher_test.go
…
daemon_watcher.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
daemon_windows.go
…
daemon.go
feat(daemon): add --foreground flag for systemd/supervisord integration
2025-12-01 21:09:00 -08:00
daemons_test.go
…
daemons.go
…
delete_recording_test.go
bd sync: 2025-11-25 11:46:06
2025-11-25 11:46:06 -08:00
delete_test.go
…
delete.go
Enable daemon RPC support for delete operations to trigger auto-sync, Fix for issue #527 (#528)
2025-12-12 13:19:31 -08:00
deleted.go
feat(deletions): complete deletions manifest epic with integration tests
2025-11-25 16:36:46 -08:00
deletion_propagation_test.go
bd sync: 2025-11-25 12:03:21
2025-11-25 12:03:21 -08:00
deletion_tracking_test.go
fix(multi-repo): filter issues by prefix when flushing from non-primary repos (GH #437)
2025-12-01 21:17:56 -08:00
deletion_tracking.go
…
dep_test.go
bd sync: 2025-11-25 19:32:04
2025-11-25 19:32:05 -08:00
dep.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
detect_pollution.go
feat: Complete command set standardization (bd-au0)
2025-11-23 20:33:31 -08:00
direct_mode_test.go
fix(test): Complete rootCtx initialization fix for all hanging tests (issue #355)
2025-11-21 23:09:47 -08:00
direct_mode.go
fix: improve JSONL-only mode detection and error messages (GH #534)
2025-12-13 12:50:33 -08:00
docs.md
docs: Add comprehensive documentation for version reporting changes
2025-12-13 10:04:01 +11:00
doctor_test.go
fix(doctor): detect sync-branch hook incompatibility (#532)
2025-12-13 18:05:49 -08:00
doctor.go
fix(doctor): detect sync-branch hook incompatibility (#532)
2025-12-13 18:05:49 -08:00
duplicates_test.go
Implement auto-merge functionality for duplicates command
2025-11-27 22:39:13 -08:00
duplicates.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
epic_test.go
test: Refactor epic_test.go to use shared DB pattern (P2)
2025-11-21 16:14:30 -05:00
epic.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
errors.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
export_import_test.go
test(export): add test for tombstone inclusion in JSONL export (bd-yk8w)
2025-12-07 21:14:13 +11:00
export_integrity_integration_test.go
fix: replace string(rune()) with strconv.Itoa in tests (bd-fmc)
2025-12-02 22:41:07 -08:00
export_mtime_test.go
…
export_staleness_test.go
…
export_test.go
…
export.go
chore: sync changes from beads-sync
2025-12-07 20:57:58 +11:00
flags.go
feat: Add --body flag as alias for --description
2025-11-21 20:08:55 -05:00
flush_manager_test.go
Fix linter issues and test failures
2025-11-22 00:11:45 -08:00
flush_manager.go
Fix linter issues and test failures
2025-11-22 00:11:45 -08:00
git_sync_test.go
…
helpers_test.go
fix: support multi-part prefixes in issue ID extraction (#398)
2025-11-26 17:42:14 -08:00
hooks_test.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
hooks.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
import_bug_test.go
…
import_cancellation_test.go
…
import_idempotent_test.go
fix(test): Complete rootCtx initialization fix for all hanging tests (issue #355)
2025-11-21 23:09:47 -08:00
import_mtime_test.go
…
import_multipart_id_test.go
…
import_profile_test.go
…
import_shared.go
fix(sync): protect local issues from git-history-backfill during sync (#485)
2025-12-12 13:28:48 -08:00
import_uncommitted_test.go
…
import.go
fix(sync): protect local issues from git-history-backfill during sync (#485)
2025-12-12 13:28:48 -08:00
info_test.go
…
info.go
docs: update changelog and info.go for v0.29.0 release
2025-12-03 16:24:24 -08:00
init_contributor.go
feat: configure sync.remote for contributor fork workflows
2025-11-29 23:22:52 -08:00
init_hooks_test.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
init_team.go
fix: Auto-configure sync.branch during bd init (bd-flil)
2025-11-23 19:42:21 -08:00
init_test.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
init.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
integrity_content_test.go
…
integrity_test.go
refactor: rename last_import_hash to jsonl_content_hash (bd-39o)
2025-11-28 23:14:12 -08:00
integrity.go
fix(bd-53c): Add reverse ZFC check to prevent stale DB from corrupting JSONL
2025-11-29 17:01:36 -08:00
jira_test.go
test: add unit tests for Jira integration
2025-11-30 15:35:30 -08:00
jira.go
fix: resolve CI lint errors and Windows test timeout
2025-12-03 17:50:23 -08:00
jsonl_integrity_test.go
…
label_test.go
…
label.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
list_test.go
test: Refactor P1 test files to use shared DB pattern (bd-1rh)
2025-11-21 15:51:07 -05:00
list.go
Add --sort and --reverse flags to bd list command
2025-11-24 20:16:07 -08:00
main_test.go
fix(ci): more changes to fix failing CI (#415)
2025-11-29 22:24:29 -08:00
main.go
fix: bd onboard hangs on Windows (GH #531)
2025-12-13 18:09:34 -08:00
markdown_test.go
…
markdown.go
…
merge_security_test.go
fix: skip /etc/passwd check on Windows in security test (#363)
2025-11-22 16:49:29 -08:00
merge.go
docs(UX): improve daemon and merge documentation (bd-bt6y)
2025-11-28 23:11:24 -08:00
message.go
…
migrate_hash_ids_test.go
…
migrate_hash_ids.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
migrate_issues.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
migrate_sync_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
migrate_sync.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
migrate_test.go
…
migrate_tombstones_test.go
feat(tombstones): add migrate-tombstones command and compact pruning
2025-12-07 21:34:35 +11:00
migrate_tombstones.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
migrate.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
nodb_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
nodb.go
fix: support multi-part prefixes in issue ID extraction (#398)
2025-11-26 17:42:14 -08:00
onboard_test.go
fix: make bd onboard output generic, not beads-specific (#465)
2025-12-05 13:20:51 -08:00
onboard.go
fix: make bd onboard output generic, not beads-specific (#465)
2025-12-05 13:20:51 -08:00
output_test.go
…
prime_test.go
feat(prime): add --stealth flag for flush-only workflow
2025-12-03 18:08:33 -08:00
prime.go
feat(prime): add --stealth flag for flush-only workflow
2025-12-03 18:08:33 -08:00
quickstart.go
…
readonly_test.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
ready_test.go
feat(ready): add --unassigned filter for bd ready
2025-11-30 00:38:57 -08:00
ready.go
feat(tombstone): add P2 code review improvements (bd-saa, bd-1bu, bd-nyt)
2025-12-05 15:48:46 -08:00
reinit_test.go
fix(init): bootstrap from sync-branch when configured (bd-0is)
2025-12-05 14:47:02 -08:00
rename_prefix_repair_test.go
…
rename_prefix_test.go
…
rename_prefix.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
reopen_test.go
…
reopen.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
repair_deps_test.go
…
repair_deps.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
repo.go
…
restore_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
restore.go
…
sandbox_test.go
feat: Complete GH #353 follow-up phases (bd-9nw, bd-u3t, bd-e0o)
2025-11-21 19:32:45 -05:00
sandbox_unix.go
feat: Complete GH #353 follow-up phases (bd-9nw, bd-u3t, bd-e0o)
2025-11-21 19:32:45 -05:00
sandbox_windows.go
feat: Complete GH #353 follow-up phases (bd-9nw, bd-u3t, bd-e0o)
2025-11-21 19:32:45 -05:00
scripttest_test.go
…
search_test.go
feat: Add date and priority filters to bd search (bd-au0.5)
2025-11-21 22:46:12 -05:00
search.go
bd sync: 2025-11-24 21:16:44
2025-11-24 21:16:44 -08:00
setup.go
feat(setup claude): add --stealth flag
2025-12-03 18:10:35 -08:00
show.go
feat: add --estimate flag to bd create/update commands (GH #443)
2025-12-03 15:55:35 -08:00
simple_helpers_test.go
…
snapshot_manager.go
Fix bd-pq5k: merge conflicts now prefer closed>open and deletion>modification
2025-11-23 21:42:43 -08:00
stale_test.go
fix: replace string(rune()) with strconv.Itoa in tests (bd-fmc)
2025-12-02 22:41:07 -08:00
stale.go
…
staleness.go
bd-6xd: Standardize on issues.jsonl as canonical filename
2025-11-26 22:02:59 -08:00
status_test.go
Fix: TestGetAssignedStatus - Missing rootCtx initialization
2025-11-21 23:22:12 -08:00
status.go
bd-6xd: Standardize on issues.jsonl as canonical filename
2025-11-26 22:02:59 -08:00
sync_local_only_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
sync_merge_test.go
Fix: Change default JSONL filename from beads.jsonl to issues.jsonl
2025-11-21 23:34:22 -08:00
sync_test.go
fix(sync): protect locally exported issues from sanitization (bd-3ee1)
2025-12-14 00:55:55 -08:00
sync.go
fix(sync): protect locally exported issues from sanitization (bd-3ee1)
2025-12-14 00:55:55 -08:00
template_security_test.go
…
template_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
template.go
…
test_helpers_test.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
test_wait_helper.go
fix: CI test failures and lint errors
2025-11-24 00:21:01 -08:00
tips_example_test.go
Add tip system infrastructure (bd-d4i)
2025-11-24 10:56:14 -08:00
tips_test.go
bd sync: 2025-11-24 11:28:32
2025-11-24 11:28:32 -08:00
tips.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
upgrade.go
fix: Code review fixes for bd-loka
2025-11-23 17:16:27 -08:00
validate_test.go
fix: add test parallelism and increase Windows CI timeout
2025-12-03 18:30:53 -08:00
validate.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
version_test.go
fix: Add commit and branch to bd version output (github #503)
2025-12-13 10:04:01 +11:00
version_tracking_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
version_tracking.go
fix: store version in gitignored .local_version to prevent notification spam (bd-tok)
2025-12-02 23:38:20 -08:00
version.go
chore: Bump version to 0.29.0
2025-12-03 16:24:46 -08:00
worktree_test.go
…
worktree.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00