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Steve Yegge
2025-12-25 19:38:08 -08:00
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{"id":"bd-1dez.5","title":"bd mol search: Find formulas using GitHub API","description":"Search for formulas in the Mol Mall using GitHub's search API.\n\n## Usage\n```bash\nbd mol search \"code review\" # Free text search\nbd mol search --topic molecule # By GitHub topic\nbd mol search --org anthropics # By organization\nbd mol search --stars \"\u003e10\" # By popularity\n```\n\n## Implementation\n1. Use GitHub Search API: `/search/repositories`\n2. Filter by topic:mol-formula or naming convention\n3. Parse results, show name/description/stars/version\n4. Support pagination for large result sets\n\n## Output\n```\nNAME STARS DESCRIPTION\ngithub.com/anthropics/mol-code-review 42 AI-assisted code review workflow\ngithub.com/gastown/mol-polecat-work 12 Standard polecat work lifecycle\n```\n\n## Discovery Convention\nRepos should have:\n- Topic: `mol-formula` or `beads-molecule`\n- Name starting with `mol-`\n- formula.json in root\n","status":"open","priority":3,"issue_type":"task","created_at":"2025-12-25T12:06:40.019394-08:00","updated_at":"2025-12-25T12:06:40.019394-08:00","dependencies":[{"issue_id":"bd-1dez.5","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:06:40.01989-08:00","created_by":"daemon"}]}
{"id":"bd-1dez.6","title":"bd mol publish: Push formula to GitHub repo","description":"Publish a formula to a GitHub repository for sharing.\n\n## Usage\n```bash\n# Create new repo and publish\nbd mol publish mol-my-workflow --repo github.com/myorg/mol-my-workflow\n\n# Update existing repo\nbd mol publish mol-my-workflow --repo github.com/myorg/mol-my-workflow --tag v1.1.0\n```\n\n## Implementation\n1. Export proto to formula.json (if not already a file)\n2. Validate formula structure\n3. Create GitHub repo if --create flag (uses `gh repo create`)\n4. Copy formula.json to repo\n5. Generate README.md from formula description\n6. Commit and push\n7. Create git tag if --tag specified\n8. Add mol-formula topic to repo\n\n## Flags\n- `--repo \u003curl\u003e` - Target GitHub repo (required)\n- `--tag \u003cversion\u003e` - Create version tag\n- `--create` - Create repo if doesn't exist\n- `--private` - Create as private repo\n\n## Workflow\n```bash\n# Full publish flow\nbd mol distill my-epic --name my-workflow\nbd mol promote bd-proto-xxx --as my-workflow\nbd mol publish mol-my-workflow --repo github.com/me/mol-my-workflow --create --tag v1.0.0\n```\n","status":"open","priority":3,"issue_type":"task","created_at":"2025-12-25T12:06:41.419764-08:00","updated_at":"2025-12-25T12:06:41.419764-08:00","dependencies":[{"issue_id":"bd-1dez.6","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:06:41.420209-08:00","created_by":"daemon"}]}
{"id":"bd-1dez.7","title":"Formula versioning: Version field and git tag integration","description":"Add versioning support to formulas for tracking updates.\n\n## Formula Version Field\n```json\n{\n \"formula\": \"mol-code-review\",\n \"version\": \"1.2.0\",\n \"min_bd_version\": \"0.25.0\",\n ...\n}\n```\n\n## Version Semantics\n- Use semver: MAJOR.MINOR.PATCH\n- MAJOR: Breaking changes to step structure\n- MINOR: New optional steps or variables\n- PATCH: Documentation, bug fixes\n\n## Git Tag Integration\n- `bd mol install repo@v1.2.0` fetches that tag\n- `bd mol install repo` fetches latest tag (or main if no tags)\n- `bd mol publish --tag v1.2.0` creates tag\n\n## Proto Version Tracking\nLocal proto should store:\n```\nsource_repo: github.com/anthropics/mol-code-review\nsource_version: v1.2.0\ninstalled_at: 2025-12-25T12:00:00Z\n```\n\nThis enables `bd mol update` to check for newer versions.\n","status":"open","priority":2,"issue_type":"task","created_at":"2025-12-25T12:06:42.674849-08:00","updated_at":"2025-12-25T12:06:42.674849-08:00","dependencies":[{"issue_id":"bd-1dez.7","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:06:42.67694-08:00","created_by":"daemon"}]}
{"id":"bd-1dez.8","title":"Installation tracking: .beads/installed.json","description":"Track installed formulas for update checking and provenance.\n\n## File Format\n```json\n{\n \"mol-code-review\": {\n \"source\": \"github.com/anthropics/mol-code-review\",\n \"version\": \"v1.2.0\",\n \"installed_at\": \"2025-12-25T12:00:00Z\",\n \"formula_hash\": \"abc123...\"\n },\n \"mol-polecat-work\": {\n \"source\": \"local\",\n \"version\": \"1\",\n \"installed_at\": \"2025-12-24T10:00:00Z\"\n }\n}\n```\n\n## Commands That Update This\n- `bd mol install` - Adds entry\n- `bd mol update` - Updates version/timestamp\n- `bd cook` - Adds entry with source:local\n- `bd mol uninstall` - Removes entry (new command)\n\n## Usage\n```bash\nbd mol list --installed # Shows installed with source/version\nbd mol outdated # Shows formulas with available updates\n```\n\n## Sync Behavior\n- installed.json is gitignored (local state)\n- Only formulas/ directory is synced\n- Each clone tracks its own installations\n","status":"in_progress","priority":2,"issue_type":"task","created_at":"2025-12-25T12:06:43.934727-08:00","updated_at":"2025-12-25T19:32:18.968758-08:00","dependencies":[{"issue_id":"bd-1dez.8","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:06:43.937653-08:00","created_by":"daemon"}]}
{"id":"bd-1dez.8","title":"Installation tracking: .beads/installed.json","description":"Track installed formulas for update checking and provenance.\n\n## File Format\n```json\n{\n \"mol-code-review\": {\n \"source\": \"github.com/anthropics/mol-code-review\",\n \"version\": \"v1.2.0\",\n \"installed_at\": \"2025-12-25T12:00:00Z\",\n \"formula_hash\": \"abc123...\"\n },\n \"mol-polecat-work\": {\n \"source\": \"local\",\n \"version\": \"1\",\n \"installed_at\": \"2025-12-24T10:00:00Z\"\n }\n}\n```\n\n## Commands That Update This\n- `bd mol install` - Adds entry\n- `bd mol update` - Updates version/timestamp\n- `bd cook` - Adds entry with source:local\n- `bd mol uninstall` - Removes entry (new command)\n\n## Usage\n```bash\nbd mol list --installed # Shows installed with source/version\nbd mol outdated # Shows formulas with available updates\n```\n\n## Sync Behavior\n- installed.json is gitignored (local state)\n- Only formulas/ directory is synced\n- Each clone tracks its own installations\n","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-25T12:06:43.934727-08:00","updated_at":"2025-12-25T19:38:04.14827-08:00","closed_at":"2025-12-25T19:38:04.14827-08:00","close_reason":"Implemented installation tracking with .beads/installed.json. Added: bd mol install, bd mol uninstall, bd mol outdated, bd mol list --installed. Updated bd cook to track local formulas.","dependencies":[{"issue_id":"bd-1dez.8","depends_on_id":"bd-1dez","type":"parent-child","created_at":"2025-12-25T12:06:43.937653-08:00","created_by":"daemon"}]}
{"id":"bd-1slh","title":"Investigate charmbracelet-based TUI for beads","description":"Now that we've merged the create-form command (PR #603) which uses charmbracelet/huh, investigate whether beads should have a more comprehensive TUI.\n\nConsiderations:\n- Should this be in core or a separate binary (bd-tui)?\n- What functionality would benefit from a TUI? (list view, issue details, search, bulk operations)\n- Plugin/extension architecture vs build tags vs separate binary\n- Dependency cost vs user experience tradeoff\n- Target audience: humans who want interactive workflows vs CLI/scripting users\n\nRelated: PR #603 added charmbracelet/huh dependency for create-form command.","notes":"Foundation is in place (lipgloss, huh), but not a priority right now","status":"deferred","priority":3,"issue_type":"feature","created_at":"2025-12-17T14:20:51.503563-08:00","updated_at":"2025-12-20T23:31:34.354023-08:00"}
{"id":"bd-1tw","title":"Fix G104 errors unhandled in internal/storage/sqlite/queries.go:1186","description":"Linting issue: G104: Errors unhandled (gosec) at internal/storage/sqlite/queries.go:1186:2. Error: rows.Close()","status":"tombstone","priority":0,"issue_type":"bug","created_at":"2025-12-07T15:35:13.051671889-07:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"bug"}
{"id":"bd-20j","title":"sync branch not match config","description":"./bd sync\n→ Exporting pending changes to JSONL...\n→ No changes to commit\n→ Pulling from sync branch 'gh-386'...\nError pulling from sync branch: failed to create worktree: failed to create worktree parent directory: mkdir /var/home/matt/dev/beads/worktree-db-fail/.git: not a directory\nmatt@blufin-framation ~/d/b/worktree-db-fail (worktree-db-fail) [1]\u003e bd config list\n\nConfiguration:\n auto_compact_enabled = false\n compact_batch_size = 50\n compact_model = claude-3-5-haiku-20241022\n compact_parallel_workers = 5\n compact_tier1_days = 30\n compact_tier1_dep_levels = 2\n compact_tier2_commits = 100\n compact_tier2_days = 90\n compact_tier2_dep_levels = 5\n compaction_enabled = false\n issue_prefix = worktree-db-fail\n sync.branch = worktree-db-fail","status":"open","priority":2,"issue_type":"task","created_at":"2025-12-08T06:49:04.449094018-07:00","updated_at":"2025-12-08T06:49:04.449094018-07:00"}
@@ -208,7 +208,7 @@
{"id":"bd-by0d","title":"Work on beads-ldv: Fix bd graph crashes with nil pointer ...","description":"Work on beads-ldv: Fix bd graph crashes with nil pointer dereference (GH#657). Fix nil pointer in computeDependencyCounts at graph.go:428. When done, submit MR (not PR) to integration branch for Refinery.","status":"closed","priority":2,"issue_type":"task","created_at":"2025-12-19T22:55:27.829359-08:00","updated_at":"2025-12-19T23:28:32.428314-08:00","closed_at":"2025-12-19T23:20:49.038441-08:00","close_reason":"Fixed nil pointer in computeDependencyCounts by passing subgraph instead of nil"}
{"id":"bd-c2xs","title":"Exclude pinned issues from bd blocked","description":"Update bd blocked to exclude pinned issues. Pinned issues are context markers and should not appear in the blocked work list.","status":"closed","priority":1,"issue_type":"task","created_at":"2025-12-18T23:33:44.684242-08:00","updated_at":"2025-12-21T11:29:42.179389-08:00","closed_at":"2025-12-21T11:29:42.179389-08:00","close_reason":"Already implemented in SQLite (line 299) and memory (line 1084). Pinned issues excluded from blocked.","dependencies":[{"issue_id":"bd-c2xs","depends_on_id":"bd-0vg","type":"blocks","created_at":"2025-12-18T23:33:56.521323-08:00","created_by":"daemon"},{"issue_id":"bd-c2xs","depends_on_id":"bd-7h5","type":"blocks","created_at":"2025-12-18T23:34:07.736681-08:00","created_by":"daemon"}]}
{"id":"bd-c3u","title":"Review PR #512: clarify bd ready docs","description":"Review and merge PR #512 from aspiers. This PR clarifies what bd ready does after git pull in README.md. Simple 1-line change. URL: https://github.com/anthropics/beads/pull/512","status":"tombstone","priority":2,"issue_type":"task","created_at":"2025-12-13T08:15:13.405161+11:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"task"}
{"id":"bd-c4wq","title":"Work on gt-8tmz.36: Validate expanded step IDs are unique...","description":"Work on gt-8tmz.36: Validate expanded step IDs are unique. In internal/formula/, add validation during cooking that checks for duplicate step IDs after expansion. When done: 1) bd close gt-8tmz.36, 2) bd sync, 3) git push, 4) gt mq submit","status":"in_progress","priority":2,"issue_type":"task","assignee":"beads/nux","created_at":"2025-12-25T19:26:31.323192-08:00","updated_at":"2025-12-25T19:26:31.406596-08:00"}
{"id":"bd-c4wq","title":"Work on gt-8tmz.36: Validate expanded step IDs are unique...","description":"Work on gt-8tmz.36: Validate expanded step IDs are unique. In internal/formula/, add validation during cooking that checks for duplicate step IDs after expansion. When done: 1) bd close gt-8tmz.36, 2) bd sync, 3) git push, 4) gt mq submit","status":"closed","priority":2,"issue_type":"task","assignee":"beads/nux","created_at":"2025-12-25T19:26:31.323192-08:00","updated_at":"2025-12-25T19:37:49.605774-08:00","closed_at":"2025-12-25T19:37:49.605774-08:00","close_reason":"Implemented ValidateExpandedStepIDs function in internal/formula/types.go with comprehensive tests"}
{"id":"bd-c7y5","title":"Optimization: Tombstones still synced, adding overhead","description":"Tombstoned (deleted) issues are still processed during sync, adding overhead.\n\n## Evidence\n```\nImport complete: 0 created, 0 updated, 407 unchanged, 100 skipped\n```\nThose 100 skipped are tombstones - they're read from JSONL, parsed, then filtered out.\n\n## Current State (Beads repo)\n- 408 total issues\n- 99 tombstones (24% of database)\n- Every sync reads and skips these 99 entries\n\n## Impact\n- Sync time increases with tombstone count\n- JSONL file size grows indefinitely\n- Git history accumulates tombstone churn\n\n## Proposed Solutions\n\n### 1. JSONL Compaction (`bd compact`)\nPeriodically rewrite JSONL without tombstones:\n```bash\nbd compact # Removes tombstones, rewrites issues.jsonl\n```\nTrade-off: Loses delete history, but that's in git anyway.\n\n### 2. Tombstone TTL\nAuto-remove tombstones older than N days during sync:\n```go\nif issue.Deleted \u0026\u0026 time.Since(issue.UpdatedAt) \u003e 7*24*time.Hour {\n // Skip writing to new JSONL\n}\n```\n\n### 3. Archive File\nMove old closed issues to `issues-archive.jsonl`:\n- Not synced regularly\n- Available for historical queries\n- Main JSONL stays small\n\n### 4. Lazy Tombstone Handling \nDon't write tombstones to JSONL at all - just remove the line:\n- Simpler, but loses cross-clone delete propagation\n- Would need different delete propagation mechanism\n\n## Recommendation\nStart with `bd compact` command - simple, explicit, user-controlled.\n\n## Related\n- gt-tnss: Analysis - Beads database size and hygiene strategy\n- gt-ox67: Maintenance - Regular cleanup of closed MR/gate beads","status":"closed","priority":2,"issue_type":"task","assignee":"beads/dag","created_at":"2025-12-23T14:41:16.925212-08:00","updated_at":"2025-12-23T23:50:23.363222-08:00","closed_at":"2025-12-23T23:50:23.363222-08:00","close_reason":"Added bd compact --prune mode for standalone tombstone pruning"}
{"id":"bd-c83r","title":"Prevent multiple daemons from running on the same repo","description":"Multiple bd daemons running on the same repo clone causes race conditions and data corruption risks.\n\n**Problem:**\n- Nothing prevents spawning multiple daemons for the same repository\n- Multiple daemons watching the same files can conflict during sync operations\n- Observed: 4 daemons running simultaneously caused sync race condition\n\n**Solution:**\nImplement daemon singleton enforcement per repo:\n1. Use a lock file (e.g., .beads/.daemon.lock) with PID\n2. On daemon start, check if lock exists and process is alive\n3. If stale lock (dead PID), clean up and acquire lock\n4. If active daemon exists, either:\n - Exit with message 'daemon already running (PID xxx)'\n - Or offer --replace flag to kill existing and take over\n5. Release lock on graceful shutdown\n\n**Edge cases to handle:**\n- Daemon crashes without releasing lock (stale PID detection)\n- Multiple repos in same directory tree (each repo gets own lock)\n- Race between two daemons starting simultaneously (atomic lock acquisition)","status":"tombstone","priority":2,"issue_type":"bug","created_at":"2025-12-13T06:37:23.377131-08:00","updated_at":"2025-12-25T01:21:01.952723-08:00","deleted_at":"2025-12-25T01:21:01.952723-08:00","deleted_by":"batch delete","delete_reason":"batch delete","original_type":"bug"}
{"id":"bd-c8d5","title":"bd mol run: Only creates partial children from proto","description":"When running `bd mol run gt-lwuu --var issue=gt-xxx`, only 2 of 4 proto children are created.\n\n## Expected\nProto gt-lwuu has 4 children:\n- gt-lwuu.1: load-context\n- gt-lwuu.2: implement \n- gt-lwuu.3: self-review\n- gt-lwuu.8: request-shutdown\n\nAll 4 should be instantiated.\n\n## Actual\nOnly 2 children created:\n- load-context\n- implement\n\nself-review and request-shutdown are missing.\n\n## Repro\n```bash\nbd --no-daemon mol run gt-lwuu --var issue=gt-xxx --json\nbd list --parent=\u003ccreated-id\u003e # Only shows 2 children\n```\n\n## Impact\nPolecats spawned with mol-polecat-work get incomplete workflow.","status":"closed","priority":1,"issue_type":"bug","assignee":"beads/dave","created_at":"2025-12-24T23:12:47.923073-08:00","updated_at":"2025-12-24T23:32:20.612316-08:00","closed_at":"2025-12-24T23:32:20.612316-08:00","close_reason":"Fixed"}