beads/crew/fang f3224278a8 fix: use lightweight molecule discovery in bd mol progress ...

Replace findInProgressMolecules (which loads full subgraphs) with
findInProgressMoleculeIDs (which only returns IDs). This ensures
auto-discovery is efficient for mega-molecules.

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

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

2025-12-31 13:04:19 -08:00

..

doctor

fix: prevent .beads/redirect from being committed (GH#814)

2025-12-30 18:29:03 -08:00

setup

fix: resolve lint errors blocking CI

2025-12-29 15:58:24 -08:00

templates/hooks

chore: bump version to 0.42.0

2025-12-30 21:21:46 -08:00

testdata

…

.gitattributes

…

@AGENTS.md

…

activity_test.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

activity.go

refactor: remove Gas Town references from codebase

2025-12-30 14:13:32 -08:00

admin_aliases.go

docs: Document deprecation timeline and add removal warnings (bd-pndo)

2025-12-28 16:40:43 -08:00

admin.go

…

agent_test.go

feat: add bd agent state command for ZFC-compliant state reporting (bd-uxlb)

2025-12-28 01:56:53 -08:00

agent.go

feat: add structured labels for agent beads (bd-g7eq)

2025-12-29 21:15:46 -08:00

AGENTS.md

…

audit.go

…

autoflush.go

refactor: Break up 280-line flushToJSONLWithState into focused helpers (bd-9hc9)

2025-12-28 16:23:45 -08:00

autoimport_test.go

…

autoimport.go

Add debug logging for YAML parse errors in autoimport (bd-mql4)

2025-12-30 16:51:14 -08:00

autostart_test.go

…

cleanup.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

cli_coverage_show_test.go

…

cli_fast_test.go

…

close.go

Add 'last touched' issue tracking for update/close without ID

2025-12-30 16:58:10 -08:00

comments_test.go

…

comments.go

docs: Document deprecation timeline and add removal warnings (bd-pndo)

2025-12-28 16:40:43 -08:00

compact_rpc.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

compact_test.go

…

compact_tombstone.go

fix: bd admin compact --older-than=0 now expires all tombstones

2025-12-30 00:00:25 -08:00

compact.go

fix: bd admin compact --older-than=0 now expires all tombstones

2025-12-30 00:00:25 -08:00

config_test.go

…

config.go

fix: Show warning when config.yaml overrides database config (bd-20j)

2025-12-29 14:03:39 -08:00

context.go

Refactor: Introduce CommandContext to consolidate global variables (bd-qobn)

2025-12-30 16:29:28 -08:00

cook_test.go

…

cook.go

feat: implement Step.Condition evaluation in bd cook (bd-7zka.1)

2025-12-31 00:33:11 -08:00

count.go

…

create_form_test.go

…

create_form.go

…

create_test.go

…

create.go

Add 'last touched' issue tracking for update/close without ID

2025-12-30 16:58:10 -08:00

daemon_autoimport_test.go

…

daemon_autostart_unit_test.go

feat: auto-bypass daemon for wisp operations (bd-ta4r)

2025-12-28 02:11:13 -08:00

daemon_autostart.go

fix: eliminate 5+ second delays from stale daemon.lock files (bd-htwx)

2025-12-31 13:03:49 -08:00

daemon_basics_test.go

…

daemon_config.go

…

daemon_crash_test.go

…

daemon_debouncer_test.go

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daemon_debouncer.go

…

daemon_event_loop.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

daemon_health_freebsd.go

…

daemon_health_solaris.go

fix: add illumos/solaris support for disk space check (#798)

2025-12-29 14:43:00 -08:00

daemon_health_unix.go

fix: add illumos/solaris support for disk space check (#798)

2025-12-29 14:43:00 -08:00

daemon_health_wasm.go

…

daemon_health_windows.go

…

daemon_integration_test.go

…

daemon_lifecycle.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

daemon_local_test.go

…

daemon_lock_test.go

…

daemon_lock_unix.go

…

daemon_lock_wasm.go

…

daemon_lock_windows.go

…

daemon_lock.go

…

daemon_logger.go

chore: remove deprecated setupDaemonLoggerLegacy function (bd-2dwo)

2025-12-30 00:27:12 -08:00

daemon_parent_test.go

…

daemon_rotation_test.go

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daemon_server.go

…

daemon_sync_branch_test.go

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daemon_sync_branch.go

fix: bd sync fails to copy local changes TO beads-sync worktree (#810)

2025-12-30 16:49:50 -08:00

daemon_sync_state.go

…

daemon_sync_test.go

…

daemon_sync.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

daemon_test.go

…

daemon_unix_test.go

…

daemon_unix.go

…

daemon_wasm.go

…

daemon_watcher_platform_test.go

…

daemon_watcher_test.go

…

daemon_watcher.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

daemon_windows.go

…

daemon.go

…

daemons_test.go

…

daemons.go

docs: Document deprecation timeline and add removal warnings (bd-pndo)

2025-12-28 16:40:43 -08:00

defer.go

…

delete_rpc_test.go

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delete_test.go

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delete.go

fix: add text reference updates to deleteBatchFallback

2025-12-31 12:24:17 -08:00

deletion_tracking_test.go

…

deletion_tracking.go

…

dep_test.go

…

dep.go

feat: add refs field for cross-references with relationship types (bd-irah)

2025-12-30 15:52:33 -08:00

detect_pollution.go

docs: Document deprecation timeline and add removal warnings (bd-pndo)

2025-12-28 16:40:43 -08:00

direct_mode_test.go

…

direct_mode.go

Refactor: Introduce CommandContext to consolidate global variables (bd-qobn)

2025-12-30 16:29:28 -08:00

docs.md

…

doctor_fix.go

fix: prevent .beads/redirect from being committed (GH#814)

2025-12-30 18:29:03 -08:00

doctor_health.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

doctor_pollution.go

fix: Add nolint comments for gosec/errcheck/unparam warnings

2025-12-29 14:39:43 -08:00

doctor_repair_chaos_test.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

doctor_repair_test.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

doctor_test.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

doctor.go

fix: prevent .beads/redirect from being committed (GH#814)

2025-12-30 18:29:03 -08:00

duplicate.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

duplicates_test.go

…

duplicates.go

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edit.go

fix: Add nolint comments for gosec/errcheck/unparam warnings

2025-12-29 14:39:43 -08:00

epic_test.go

…

epic.go

…

errors.go

…

export_import_test.go

Add close_reason to JSONL format documentation and tests (bd-lxzx)

2025-12-30 17:05:48 -08:00

export_integrity_integration_test.go

…

export_mtime_test.go

…

export_obsidian_test.go

feat: add Obsidian Tasks markdown export format (GH#819)

2025-12-31 11:39:17 -08:00

export_obsidian.go

feat: add Obsidian Tasks markdown export format (GH#819)

2025-12-31 11:39:17 -08:00

export_staleness_test.go

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export_test.go

…

export.go

feat: add Obsidian Tasks markdown export format (GH#819)

2025-12-31 11:39:17 -08:00

external_ref_test.go

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flags.go

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flush_manager_test.go

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flush_manager.go

…

fork_protection_test.go

…

fork_protection.go

…

formula.go

refactor: remove Gas Town references from codebase

2025-12-30 14:13:32 -08:00

gate.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

git_sync_test.go

…

git_test_helpers.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

graph_test.go

…

graph.go

…

helpers_test.go

…

hooks_test.go

fix: git hook chaining now works correctly (GH#816)

2025-12-30 20:40:09 -08:00

hooks.go

Add BEADS_NO_AUTO_STAGE opt-out for pre-commit auto-staging (GH#826)

2025-12-31 12:58:54 -08:00

human.go

Add bd human command for focused help menu

2025-12-29 14:33:19 -08:00

import_bug_test.go

…

import_cancellation_test.go

…

import_helpers_test.go

…

import_idempotent_test.go

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import_mtime_test.go

…

import_multipart_id_test.go

…

import_profile_test.go

…

import_shared.go

…

import_uncommitted_test.go

…

import.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

info_test.go

…

info.go

docs: add v0.42.0 changelog and whats-new entries

2025-12-30 21:21:46 -08:00

init_agent.go

refactor: Split init.go from 1928 to 705 lines (bd-xtf5)

2025-12-28 18:43:09 -08:00

init_contributor.go

…

init_git_hooks.go

fix: git hook chaining now works correctly (GH#816)

2025-12-30 20:40:09 -08:00

init_hooks_test.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

init_stealth.go

refactor: Split init.go from 1928 to 705 lines (bd-xtf5)

2025-12-28 18:43:09 -08:00

init_team.go

…

init_templates.go

refactor: Split init.go from 1928 to 705 lines (bd-xtf5)

2025-12-28 18:43:09 -08:00

init_test.go

test: add coverage for GH#807 sync.branch main/master rejection

2025-12-30 18:19:53 -08:00

init.go

fix: prevent sync.branch from being set to main/master (#807)

2025-12-30 16:45:51 -08:00

integrity_content_test.go

…

integrity_test.go

…

integrity.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

jira_test.go

Implement Jira issue timestamp comparison for sync (bd-0qx5)

2025-12-30 16:07:31 -08:00

jira.go

Implement Jira issue timestamp comparison for sync (bd-0qx5)

2025-12-30 16:07:31 -08:00

jsonl_integrity_test.go

…

label_test.go

…

label.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

last_touched_test.go

Add 'last touched' issue tracking for update/close without ID

2025-12-30 16:58:10 -08:00

last_touched.go

Add 'last touched' issue tracking for update/close without ID

2025-12-30 16:58:10 -08:00

linear_conflict.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

linear_sync.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

linear_test.go

…

linear.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

list_helpers_test.go

…

list_test.go

Add unit tests to improve cmd/bd CLI coverage (bd-llfl)

2025-12-30 17:14:55 -08:00

list.go

Add BD_AGENT_MODE for ultra-compact output

2025-12-30 16:04:39 -08:00

mail.go

refactor: remove Gas Town references from codebase

2025-12-30 14:13:32 -08:00

main_daemon.go

refactor: remove Gas Town references from codebase

2025-12-30 14:13:32 -08:00

main_errors.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

main_help.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

main_test.go

…

main.go

Fix BD_ACTOR handling in direct mode paths

2025-12-30 16:51:14 -08:00

markdown_test.go

…

markdown.go

…

merge_security_test.go

…

merge.go

…

migrate_hash_ids_test.go

…

migrate_hash_ids.go

feat: integrate migration detection into bd doctor (bd-7l27)

2025-12-30 00:06:42 -08:00

migrate_issues.go

feat: integrate migration detection into bd doctor (bd-7l27)

2025-12-30 00:06:42 -08:00

migrate_sync_test.go

…

migrate_sync.go

refactor: remove Gas Town references from codebase

2025-12-30 14:13:32 -08:00

migrate_test.go

…

migrate_tombstones.go

feat: integrate migration detection into bd doctor (bd-7l27)

2025-12-30 00:06:42 -08:00

migrate.go

feat: integrate migration detection into bd doctor (bd-7l27)

2025-12-30 00:06:42 -08:00

mol_bond.go

feat: implement Step.Condition evaluation in bd cook (bd-7zka.1)

2025-12-31 00:33:11 -08:00

mol_burn.go

feat: bd mol burn now works on mols, not just wisps (bd-l6yk)

2025-12-29 17:10:26 -08:00

mol_current.go

…

mol_distill.go

fix: --var flag now allows commas in values (#786)

2025-12-29 16:17:51 -08:00

mol_progress.go

fix: use lightweight molecule discovery in bd mol progress

2025-12-31 13:04:19 -08:00

mol_show.go

…

mol_squash.go

refactor: remove Gas Town references from codebase

2025-12-30 14:13:32 -08:00

mol_stale.go

feat: add daemon RPC endpoints for config and mol stale (bd-ag35)

2025-12-30 06:59:51 -08:00

mol_test.go

…

mol.go

…

nodb_test.go

Refactor: Introduce CommandContext to consolidate global variables (bd-qobn)

2025-12-30 16:29:28 -08:00

nodb.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

onboard_test.go

…

onboard.go

…

orphans_test.go

test: improve nodb and orphans coverage

2025-12-29 14:17:44 -08:00

orphans.go

test: improve nodb and orphans coverage

2025-12-29 14:17:44 -08:00

output_test.go

…

periodic_remote_sync_test.go

…

pour.go

feat: implement Step.Condition evaluation in bd cook (bd-7zka.1)

2025-12-31 00:33:11 -08:00

preflight_test.go

feat: add nix-hash staleness detection to bd preflight --check (bd-lfak.4)

2025-12-31 00:05:53 -08:00

preflight.go

feat: add version sync check to bd preflight --check (bd-lfak.5)

2025-12-31 00:08:40 -08:00

prime_test.go

…

prime.go

…

quick.go

…

quickstart.go

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readonly_test.go

…

ready_test.go

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ready.go

feat: Add mol_type schema field for molecule type classification (bd-oxgi)

2025-12-28 19:52:51 -08:00

refile.go

fix(refile): address code review feedback

2025-12-31 13:01:20 -08:00

reinit_test.go

…

relate_test.go

…

relate.go

docs: Document deprecation timeline and add removal warnings (bd-pndo)

2025-12-28 16:40:43 -08:00

rename_prefix_repair_test.go

…

rename_prefix_test.go

fix: remove arbitrary 8-char prefix limit from rename-prefix (GH#770)

2025-12-27 22:24:19 -08:00

rename_prefix.go

fix: remove arbitrary 8-char prefix limit from rename-prefix (GH#770)

2025-12-27 22:24:19 -08:00

reopen_test.go

…

reopen.go

…

repair_deps_test.go

…

repair_orphans_test.go

feat: Add bd repair command for orphaned foreign key refs (hq-2cchm)

2025-12-29 12:43:22 -08:00

repair.go

fix: bd repair - consistent JSON error handling for find operations

2025-12-29 13:16:47 -08:00

repo.go

…

reset_test.go

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reset.go

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restore_test.go

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restore.go

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routed.go

…

sandbox_test.go

…

sandbox_unix.go

…

sandbox_windows.go

…

scripttest_test.go

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search_test.go

…

search.go

…

setup.go

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ship.go

…

show_thread.go

refactor: Split large cmd/bd files to meet 800-line limit (bd-xtf5)

2025-12-28 18:43:09 -08:00

show_unit_helpers_test.go

…

show_unit_helpers.go

Centralize validation patterns with composable validators (bd-jbqx)

2025-12-30 16:00:22 -08:00

show.go

Add 'last touched' issue tracking for update/close without ID

2025-12-30 16:58:10 -08:00

simple_helpers_test.go

…

slot.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

snapshot_manager.go

…

stale_test.go

…

stale.go

…

staleness.go

…

state_test.go

feat: add bd state and bd set-state helper commands (bd-7l67)

2025-12-30 15:57:08 -08:00

state.go

feat: add bd state and bd set-state helper commands (bd-7l67)

2025-12-30 15:57:08 -08:00

status_test.go

…

status.go

…

swarm.go

fix: Add nolint comments for gosec/errcheck/unparam warnings

2025-12-29 14:39:43 -08:00

sync_branch_priority_test.go

fix: bypass gitHasBeadsChanges when using sync-branch (#812)

2025-12-30 18:04:26 -08:00

sync_branch.go

Fix bd sync failing to copy local changes to beads-sync worktree (GH#810)

2025-12-30 18:11:08 -08:00

sync_check.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

sync_export.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

sync_git.go

fix: resolve lint errors blocking CI

2025-12-29 15:58:24 -08:00

sync_helpers_more_test.go

…

sync_import.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

sync_local_only_test.go

…

sync_merge_test.go

…

sync_test.go

Fix bd sync failing to copy local changes to beads-sync worktree (GH#810)

2025-12-30 18:11:08 -08:00

sync.go

fix: bypass external direct-commit when sync.branch is configured (bd-n663)

2025-12-30 21:05:27 -08:00

template_test.go

…

template.go

fix: --var flag now allows commas in values (#786)

2025-12-29 16:17:51 -08:00

test_guard_helpers.go

test: add git helper and guard annotations

2025-12-28 20:48:37 -08:00

test_helpers_test.go

Refactor: Introduce CommandContext to consolidate global variables (bd-qobn)

2025-12-30 16:29:28 -08:00

test_repo_beads_guard_test.go

Refactor: Introduce CommandContext to consolidate global variables (bd-qobn)

2025-12-30 16:29:28 -08:00

test_wait_helper.go

…

thanks.go

…

thread_test.go

…

tips_example_test.go

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tips_test.go

…

tips.go

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undefer.go

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update.go

feat: Add --claim flag to bd update for work queue semantics (gt-il2p7)

2025-12-30 18:09:34 -08:00

upgrade.go

…

utils_unit_test.go

Add unit tests to improve cmd/bd CLI coverage (bd-llfl)

2025-12-30 17:14:55 -08:00

version_test.go

Refactor: Introduce CommandContext to consolidate global variables (bd-qobn)

2025-12-30 16:29:28 -08:00

version_tracking_test.go

Add unit tests to improve cmd/bd CLI coverage (bd-llfl)

2025-12-30 17:14:55 -08:00

version_tracking.go

chore: remove issue ID references from comments and changelogs

2025-12-28 10:05:16 -08:00

version.go

chore: bump version to 0.42.0

2025-12-30 21:21:46 -08:00

where.go

…

wisp.go

feat: implement Step.Condition evaluation in bd cook (bd-7zka.1)

2025-12-31 00:33:11 -08:00

worktree_cmd.go

fix: Add nolint comments for gosec/errcheck/unparam warnings

2025-12-29 14:39:43 -08:00

worktree_daemon_test.go

…

worktree_test.go

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worktree.go

…