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ff0ecb526e99d0fd1b73fd2efc27f073b3a4a45c
beads/cmd/bd
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Steve Yegge ff0ecb526e fix: daemon delete creates tombstones, export includes tombstones (bd-rp4o) 
Three changes to fix deleted issues resurrecting during bd sync:

1. daemon handleDelete now uses CreateTombstone instead of DeleteIssue
   - internal/rpc/server_issues_epics.go

2. sync.go exportToJSONL now includes IncludeTombstones:true
   - cmd/bd/sync.go

3. server_export_import_auto.go handleExport and auto-export now include
   tombstones in SearchIssues filter
   - internal/rpc/server_export_import_auto.go

Also adds README.md documentation for sync.branch mode (bd-dsdh):
- Explains "always dirty" working tree behavior
- Shell alias tip: gs='git status -- ":!.beads/"'
- When to use bd sync --merge

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

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
2025-12-17 01:15:40 -08:00
..
doctor
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
setup
feat: add Factory.ai (Droid) support to bd setup command (#598)
2025-12-16 13:42:43 -08:00
templates
chore: bump version to 0.30.2
2025-12-16 16:47:43 -08:00
testdata
fix: Update dep_add test to match current show output format
2025-11-04 00:23:25 -08:00
autoflush.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -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
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -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: tombstone/deletion overhaul for bd-4q8
2025-12-16 22:01:31 -08:00
cli_fast_test.go
fix(storage): persist close_reason to issues table on close (#551)
2025-12-14 14:18:01 -08:00
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: add --hard flag to bd cleanup for bypassing tombstone TTL safety
2025-12-16 01:25:57 -08:00
compact.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
config_test.go
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
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 graph links and hooks system (bd-kwro.2-5, bd-kwro.8)
2025-12-16 18:34:48 -08:00
daemon_autoimport_test.go
Optimize test suite: split integration tests, add -short support
2025-11-05 20:39:47 -08:00
daemon_autostart.go
Auto-disable daemon in git worktrees for safety (#567)
2025-12-16 00:06:19 -08:00
daemon_config.go
refactor: remove deprecated global daemon support
2025-11-24 23:39:54 -08:00
daemon_crash_test.go
bd-vcg5: Add daemon crash recovery with panic handler + socket cleanup
2025-11-07 21:17:24 -08:00
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
Merge bd-cddj-nux: GH#519
2025-12-16 01:17:25 -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
Optimize test suite: split integration tests, add -short support
2025-11-05 20:39:47 -08:00
daemon_lock_unix.go
…
daemon_lock_wasm.go
WIP: WASM port - switch to ncruces/go-sqlite3, add WASM stubs
2025-11-02 22:17:08 -08:00
daemon_lock_windows.go
…
daemon_lock.go
Fix daemon orphaning: track parent PID and exit when parent dies
2025-11-07 18:57:43 -08:00
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
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -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
WIP: WASM port - switch to ncruces/go-sqlite3, add WASM stubs
2025-11-02 22:17:08 -08:00
daemon_watcher_platform_test.go
Optimize test suite: split integration tests, add -short support
2025-11-05 20:39:47 -08:00
daemon_watcher_test.go
Optimize test suite: split integration tests, add -short support
2025-11-05 20:39:47 -08:00
daemon_watcher.go
feat: add Git worktree compatibility (PR #478)
2025-12-13 12:50:33 -08:00
daemon_windows.go
…
daemon.go
Merge bd-cddj-nux: GH#519
2025-12-16 01:17:25 -08:00
daemons_test.go
…
daemons.go
fix: address critical resource leaks and error handling issues (#327)
2025-11-20 08:13:06 -08:00
delete_test.go
test: Tag 16 slow integration tests with build tags
2025-11-21 14:40:22 -05:00
delete.go
fix: tombstone/deletion overhaul for bd-4q8
2025-12-16 22:01:31 -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
docs: add detailed comments explaining ID formats and merge deletion logic
2025-12-16 00:17:40 -08:00
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): remove circular error message in --fix mode
2025-12-16 01:08:20 -08:00
doctor.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
duplicate.go
feat: add graph links and hooks system (bd-kwro.2-5, bd-kwro.8)
2025-12-16 18:34:48 -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
test: Tag 16 slow integration tests with build tags
2025-11-21 14:40:22 -05:00
export_staleness_test.go
Fix bd-srwk: Add ID-based staleness detection to bd export
2025-11-07 20:07:59 -08:00
export_test.go
Fix context propagation lifecycle bugs
2025-11-20 21:54:11 -05:00
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
Optimize test suite: split integration tests, add -short support
2025-11-05 20:39:47 -08:00
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
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
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
fix: Fix daemon export leaving JSONL newer than database (issues #301, #321)
2025-11-19 05:06:12 -05:00
import_multipart_id_test.go
bd sync: 2025-11-09 14:53:59
2025-11-09 14:53:59 -08:00
import_profile_test.go
test: Tag 16 slow integration tests with build tags
2025-11-21 14:40:22 -05:00
import_shared.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
import_uncommitted_test.go
test: Tag 16 slow integration tests with build tags
2025-11-21 14:40:22 -05:00
import.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
info_test.go
feat: Add bd info --whats-new for agent version awareness (bd-eiz9)
2025-11-08 02:28:54 -08:00
info.go
chore: bump version to 0.30.2
2025-12-16 16:47:43 -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
fix: resolve all golangci-lint errors
2025-12-16 17:50:25 -08:00
integrity_content_test.go
test: Tag 16 slow integration tests with build tags
2025-11-21 14:40:22 -05:00
integrity_test.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
integrity.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -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
fix: resolve P2 sync noise and cleanup issues
2025-12-16 00:56:06 -08:00
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
mail_test.go
feat: complete bd-kwro messaging & knowledge graph epic
2025-12-16 20:36:47 -08:00
mail.go
feat: add graph links and hooks system (bd-kwro.2-5, bd-kwro.8)
2025-12-16 18:34:48 -08:00
main_test.go
fix(ci): more changes to fix failing CI (#415)
2025-11-29 22:24:29 -08:00
main.go
feat: add graph links and hooks system (bd-kwro.2-5, bd-kwro.8)
2025-12-16 18:34:48 -08:00
markdown_test.go
…
markdown.go
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
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
Fix lint errors: handle error return values
2025-11-15 12:52:34 -08:00
migrate_hash_ids_test.go
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
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
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
migrate_tombstones.go
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -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
fix: align bd prime guidance with skill's hybrid TodoWrite approach
2025-12-16 16:11:30 -08:00
quick.go
feat: add silent quick-capture mode (bd q)
2025-12-16 01:08:40 -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
fix(docs): use consistent in_progress status naming (GH#444)
2025-12-16 01:07:33 -08:00
reinit_test.go
fix(init): bootstrap from sync-branch when configured (bd-0is)
2025-12-05 14:47:02 -08:00
relate.go
feat: add graph links and hooks system (bd-kwro.2-5, bd-kwro.8)
2025-12-16 18:34:48 -08:00
rename_prefix_repair_test.go
fix(rename-prefix): use hash IDs instead of sequential in --repair mode
2025-12-15 23:59:21 -08:00
rename_prefix_test.go
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
rename_prefix.go
fix(rename-prefix): use hash IDs instead of sequential in --repair mode
2025-12-15 23:59:21 -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
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
repair_deps.go
feat: add --readonly flag for worker sandboxes (gt-ymo)
2025-12-02 23:44:22 -08:00
repo.go
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
reset_test.go
feat(schema): add messaging fields for bd-kwro epic
2025-12-16 13:06:47 -08:00
reset.go
fix: resolve all golangci-lint errors
2025-12-16 17:50:25 -08:00
restore_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
restore.go
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
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
Optimize test suite performance - 45% reduction in integration tests
2025-11-04 11:25:36 -08:00
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: add Factory.ai (Droid) support to bd setup command (#598)
2025-12-16 13:42:43 -08:00
show.go
feat: add graph links and hooks system (bd-kwro.2-5, bd-kwro.8)
2025-12-16 18:34:48 -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
Context propagation with graceful cancellation (bd-rtp, bd-yb8, bd-2o2)
2025-11-20 21:57:23 -05:00
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
fix(docs): use consistent in_progress status naming (GH#444)
2025-12-16 01:07:33 -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
refactor: remove all deletions.jsonl code (bd-fom)
2025-12-16 14:20:49 -08:00
sync.go
fix: daemon delete creates tombstones, export includes tombstones (bd-rp4o)
2025-12-17 01:15:40 -08:00
template_security_test.go
Add template support for issue creation (bd-164b)
2025-11-03 20:31:11 -08:00
template_test.go
test: replace manual os.Chdir with t.Chdir in tests (#457)
2025-12-04 11:21:43 -08:00
template.go
fix: CI failures - performance thresholds, test eligibility, Nix hash, lint errors
2025-11-03 22:01:37 -08:00
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
thanks.go
feat(cli): add 'bd thanks' command to thank contributors
2025-12-14 12:40:32 -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 0.30.2
2025-12-16 16:47:43 -08:00
worktree_daemon_test.go
Auto-disable daemon in git worktrees for safety (#567)
2025-12-16 00:06:19 -08:00
worktree_test.go
Improve cmd/bd test coverage from 20.2% to 23.3%
2025-11-08 18:22:28 -08:00
worktree.go
Auto-disable daemon in git worktrees for safety (#567)
2025-12-16 00:06:19 -08:00