Add pin.go and unpin.go to cmd/bd/ for managing pinned issues.
- bd pin <id> sets Pinned=true on an issue
- bd unpin <id> sets Pinned=false on an issue
Also adds Pinned field support to RPC UpdateArgs for daemon mode.
🤝 Slit
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
CRITICAL: Fixed dependency resurrection bug that caused removed/orphaned
dependencies to keep coming back after sync.
Root cause: mergeDependencies() was doing a union (additive only) and
completely ignored the base parameter. This meant any dependency present
in either left or right would be included, even if it was intentionally
removed.
Fix: Proper 3-way merge where REMOVALS ARE AUTHORITATIVE:
- If dep was in base and removed by left OR right → stays removed
- If dep wasn't in base and added by left OR right → included
- If dep was in base and both still have it → included
This fixes months of issues with orphaned parent-child relationships
being resurrected during git sync operations.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Add pinned status for beads that should stay open indefinitely:
- Add StatusPinned constant and update IsValid()
- Add PinnedIssues count to Statistics struct
- Protect pinned issues from bd close (requires --force)
- Show pinned count in bd stats output
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Restore the subgraph parameter in renderGraph (previously marked as
unused with _) and use it to display meaningful dependency information:
- Add computeDependencyCounts() to calculate blocks/blocked-by counts
- Add renderNodeBoxWithDeps() to render nodes with dependency info
- Show "blocks:N" when an issue blocks N other issues
- Show "needs:N" when an issue depends on N other issues
- Add dependency summary showing total blocking relationships
This makes the graph visualization more informative by showing how
issues relate to each other in the dependency chain.
Tests added:
- TestComputeDependencyCounts: verifies dependency counting logic
- TestRenderNodeBoxWithDeps: verifies box rendering with dep info
Co-authored-by: Charles P. Cross <cpdata@users.noreply.github.com>
The bd init and quickstart commands displayed outdated ID format
examples showing sequential IDs (prefix-1, prefix-2, ...) but beads
has used content-based hash IDs since bd-8e05.
Updated output now correctly shows:
Issues will be named: prefix-<hash> (e.g., prefix-a3f2dd)
This matches the actual GenerateHashID implementation in
internal/types/id_generator.go which generates 6-8 char hex hashes.
test(init): update test expectations to match hash-based ID format
Tests were checking for the old sequential format (prefix-1, prefix-2)
but the code now outputs hash-based format (prefix-<hash>).
Co-authored-by: cc-vps <crcatala+vps@gmail.com>
Add TypeMergeRequest as a valid issue type for tracking merge queue
entries. This enables the refinery to track merge requests with
structured metadata (branch, target, source_issue, worker, rig).
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
When bd detects it's running in a fork (origin != steveyegge/beads),
automatically add .beads/issues.jsonl to .git/info/exclude.
This prevents contributors from accidentally including issue database
changes in their PRs. The exclusion is:
- Per-clone (doesn't modify tracked files
- One-time setup (checks if already excluded)
- Silent (only logs in debug mode)
Maintainers (origin = steveyegge/beads) are not affected.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
EOF
)
Add comprehensive tests for the new graph.go functions to meet
coverage threshold after rebase introduced 405 new lines:
- TestTruncateTitle: tests rune-safe title truncation
- TestPadRight: tests rune-safe string padding
- TestRenderNodeBox: tests ASCII box rendering for all status types
- TestComputeLayout: tests topological layout computation with
dependencies
These tests cover the pure utility functions and basic graph layout
logic, bringing coverage from 44.7% to 45.1%.
The subgraph parameter was passed to renderGraph but not used in the
function body, causing an unparam lint error. Replace with _ to
indicate intentional non-use.
Fix two CI failures that were blocking main:
1. Lint error in cmd/bd/onboard.go:126
- Unchecked fmt.Fprintf return value
- Fixed by explicitly ignoring with _, _
2. Test failures in internal/storage/sqlite
- TestCreateIssues/duplicate_ID_error was passing but
TestCreateIssuesRollback/rollback_on_conflict_with_existing_ID failed
- Root cause: CreateIssues used INSERT OR IGNORE which silently
ignored duplicate IDs instead of returning an error
- Fixed by adding duplicate ID detection in EnsureIDs():
a) Check for duplicates within the batch
b) Check for conflicts with existing database IDs
Both fixes are minimal and targeted to unblock CI.
The graph command now shows issues connected via any dependency type
(blocks, parent-child, etc.), not just parent-child relationships.
This makes bd graph useful for epics where children are connected via
blocks dependencies rather than hierarchical parent-child.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
New command to visualize issue dependency graphs:
- Layered layout (Sugiyama-style) shows execution order
- Status coloring (open/in_progress/blocked/closed)
- Works with epics to show full subgraph
- Layer 0 = ready tasks (no blockers)
Usage: bd graph <issue-id>
Part of bd-r6a workflow system redesign.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
bd onboard now outputs a ~10 line snippet for AGENTS.md that points to
"bd prime" for full workflow context. This replaces the previous ~200
line static content that:
- Bloated AGENTS.md with instructions that loaded every session
- Got stale when bd was upgraded
- Wasted tokens when beads was not actively being used
The new approach:
- AGENTS.md gets minimal pointer (~20 tokens vs ~2000)
- bd prime provides dynamic, always-current workflow details
- Hooks auto-inject bd prime at session start
Also removes the --output flag for BD_GUIDE.md generation (obsolete).
Closes bd-gxq
Addresses GH#604
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Tests findRepliesTo() and findReplies() helper functions in cmd/bd/show.go
that traverse message threads via dependencies. Covers:
- 3-message linear thread chain traversal (up and down)
- Thread root finding via repeated findRepliesTo() calls
- Branching threads (one message with multiple replies)
- Empty/standalone messages
- Nonexistent issue IDs
- Verification that only replies-to deps are followed
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Fixes 5 linting issues to allow PR checks to pass:
1. hooks.go: Explicitly ignore error in async goroutine
2. 022_drop_edge_columns.go: Handle deferred PRAGMA error
3. flags.go: Add nosec comment for validated file path
4. create_form.go: Fix American spelling (canceled vs cancelled)
5. create_form.go: Explicitly mark cmd parameter as required by cobra
These are pre-existing issues in the codebase, fixed here to
enable clean CI for the import deduplication fix.
🤖 Generated with Claude Code
This is the final phase of the Edge Schema Consolidation. It removes
the deprecated edge fields (RepliesTo, RelatesTo, DuplicateOf, SupersededBy)
from the Issue struct and all related code.
Changes:
- Remove edge fields from types.Issue struct
- Remove edge field scanning from queries.go and transaction.go
- Update graph_links_test.go to use dependency API exclusively
- Update relate.go to use AddDependency/RemoveDependency
- Update show.go with helper functions for thread traversal via deps
- Update mail_test.go to verify thread links via dependencies
- Add migration 022 to drop columns from issues table
- Fix cycle detection to allow bidirectional relates-to links
- Fix migration 022 to disable foreign keys before table recreation
All edge relationships now use the dependencies table exclusively.
The old Issue fields are fully removed.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Commands relate, unrelate, duplicate, and supersede now properly
use RPC Update when daemonClient is available, instead of always
calling store.UpdateIssue() directly and bypassing the daemon.
Added RelatesTo, DuplicateOf, and SupersededBy fields to UpdateArgs
in the RPC protocol, and updated server_issues_epics.go to handle them.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
The countDBIssuesFast() fallback path used SearchIssues without
IncludeTombstones, returning only live issues (161). Meanwhile
countIssuesInJSONL counts all lines including tombstones (221).
This mismatch caused false "stale DB detected" warnings on every
sync, even when DB and JSONL were in sync.
Fix: Set IncludeTombstones: true in the fallback SearchIssues call.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Removes the legacy YAML-based simple template system that provided
bug/epic/feature templates for --from-template flag on bd create.
Removed:
- cmd/bd/templates/bug.yaml, epic.yaml, feature.yaml
- Template struct and all YAML loading functions in template.go
- --from-template flag from bd create command
- template_security_test.go (tested removed functions)
- YAML template tests from template_test.go
The Beads template system remains (epics with "template" label,
instantiated via bd template instantiate with variable substitution).
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add --assignee flag to `bd template instantiate` for work delegation
- Assigns the root epic to specified agent/user
- Child issues retain their template-defined assignees
- Enables Gas Town orchestration: instantiate + assign in one step
- Add missing --identity flag to `bd mail inbox` for consistency
- All mail subcommands now support --identity override
- Delete obsolete HANDOFF-template-redesign.md (work complete)
- Add test for assignee override behavior
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Remove the external MCP Agent Mail server integration that required
running a separate HTTP server and configuring environment variables.
The native `bd mail` system (stored as git-synced issues) remains
unchanged and is the recommended approach for inter-agent messaging.
Files removed:
- cmd/bd/message.go - Legacy `bd message` command
- integrations/beads-mcp/src/beads_mcp/mail.py, mail_tools.py
- lib/beads_mail_adapter.py - Python adapter library
- examples/go-agent/ - Agent Mail-focused example
- examples/python-agent/agent_with_mail.py, AGENT_MAIL_EXAMPLE.md
- docs/AGENT_MAIL*.md, docs/adr/002-agent-mail-integration.md
- tests/integration/test_agent_race.py, test_mail_failures.py, etc.
- tests/benchmarks/ - Agent Mail benchmarks
Updated documentation to remove Agent Mail references while keeping
native `bd mail` documentation intact.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implements native Beads templates as an alternative to YAML templates:
- Templates are epics with the "template" label and {{variable}} placeholders
- `bd template list` shows both YAML and Beads templates
- `bd template show <id>` displays template structure and variables
- `bd template instantiate <id> --var key=value` clones subgraph with substitution
Key implementation:
- loadTemplateSubgraph: Recursively loads epic and all descendants
- cloneSubgraph: Creates new issues with ID remapping in a transaction
- extractVariables/substituteVariables: {{name}} pattern handling
Closes bd-r6a.2, bd-r6a.4
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Remove the entire YAML-based workflow system in preparation for
redesigning templates as native Beads.
Removed:
- cmd/bd/templates/workflows/*.yaml
- cmd/bd/workflow.go
- internal/types/workflow.go (WorkflowTemplate types)
The new design will use regular Beads with a template label,
and a clone-with-substitution operation for instantiation.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Wire up the existing --no-push flag to a config option so it can be
set as the default, and update bd prime output accordingly.
- Add no-push default to config.go, matching existing pattern
- Check config in sync.go when --no-push flag not explicitly set
- Update bd prime output to omit git push step when enabled
Allows bypassing preflight checks when needed (e.g., testing).
Use with caution - preflight checks exist for safety.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Adds `bd workflow` command group that creates epics with dependent child tasks
from YAML templates. This enables structured multi-step workflows like version
bumps where agents can work through tasks with verification and dependencies.
Commands:
- `bd workflow list` - List available workflow templates
- `bd workflow show <name>` - Show template details and task graph
- `bd workflow create <name> --var key=value` - Instantiate workflow
- `bd workflow status <epic-id>` - Show workflow progress
- `bd workflow verify <task-id>` - Run verification command
Features:
- Variable substitution with {{var}} syntax
- Built-in variables: {{today}}, {{user}}
- Preflight checks before workflow creation
- Hierarchical task IDs under epic (bd-xxx.1, bd-xxx.2)
- Dependency graph between tasks
- Verification commands embedded in task descriptions
Includes built-in `version-bump` template with 21 tasks covering:
- All 10+ version files
- check-versions.sh verification
- Git commit, tag, push
- CI monitoring (goreleaser, npm, pypi, homebrew)
- Local machine upgrades
- Final verification
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Files missed in manual version bump:
- .claude-plugin/plugin.json
- .claude-plugin/marketplace.json
- integrations/beads-mcp/pyproject.toml
- integrations/beads-mcp/__init__.py
- Hook templates
Generated with Claude Code
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Adds "Dependencies: Think Needs, Not Before" section with the
WRONG/RIGHT example pair to help agents avoid the temporal
language trap that inverts dependency direction.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Adds a "Writing Self-Contained Issues" section to the onboarding output
that instructs AI agents to create fully context-independent issues.
Includes required elements (summary, files, steps, examples) and shows
good vs bad examples.
Closes#618🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- bd-06px: Add --no-git-history flag to import command for sync subprocess compatibility
- bd-0zp7: Add missing hook calls (EventMessage in mail reply, EventClose in mail ack)
- bd-hy9p: Implement --body-file and --description-file flags for reading descriptions from files
Also closed stale issues that were already fixed:
- bd-0d5p: macOS test timeout (already fixed with SysProcAttr)
- bd-7yg: Merge driver placeholders (already using correct %A %O %A %B)
- bd-4ri: Test deadlock (test passes in 0.04s now)
- bd-b3og: TestImportBugIntegration (test no longer exists)
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
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>
The sync.branch workflow copies JSONL to main working dir without
committing, which blocked bd sync --merge (required clean working dir).
Changes:
- Exclude .beads/ from dirty check in mergeSyncBranch
- Restore .beads/ to HEAD before merge to prevent conflicts
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- IsExpired(): Negative TTL means immediately expired (for --hard mode)
- IsExpired(): ClockSkewGrace only added for TTLs > 1 hour
- bd cleanup --hard: Use negative TTL to prune freshly created tombstones
- bd delete --hard: New flag to immediately prune tombstones from JSONL
- Import: Add early tombstone check before all phases to prevent resurrection
The early tombstone check prevents ghost issues from being created when
tombstones exist in the DB. However, a deeper git merge issue (bd-ncwo)
can still cause resurrection when remote's status:closed wins the merge.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add bd cleanup --ephemeral flag for transient message cleanup (bd-kwro.9)
- Add Ephemeral filter to IssueFilter type
- Add ephemeral filtering to SQLite storage queries
Tests (bd-kwro.10):
- Add internal/hooks/hooks_test.go for hook system
- Add cmd/bd/mail_test.go for mail commands
- Add internal/storage/sqlite/graph_links_test.go for graph links
Documentation (bd-kwro.11):
- Add docs/messaging.md for full messaging reference
- Add docs/graph-links.md for graph link types
- Update AGENTS.md with inter-agent messaging section
- Update CHANGELOG.md with all bd-kwro features
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- bd mail reply: reply to messages with thread linking via replies_to
- bd show --thread: display full conversation threads
- bd relate/unrelate: bidirectional relates_to links for knowledge graph
- bd duplicate --of: mark issues as duplicates with auto-close
- bd supersede --with: mark issues as superseded with auto-close
- Hooks system: on_create, on_update, on_close, on_message in .beads/hooks/
- RPC protocol: added Sender, Ephemeral, RepliesTo fields to CreateArgs/UpdateArgs
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Add `bd mail send/inbox/read/ack` commands for inter-agent messaging
- Implement GetIdentity() with priority chain: flag > BEADS_IDENTITY env > config.yaml > git user.name > hostname
- Messages are stored as issues with type=message for git-native communication
- Support both daemon and direct mode for all mail operations
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- errcheck: explicitly discard error returns for git config --unset
- gosec G304: add nolint for safe file read from hardcoded list
- gosec G306: add nolint for .gitattributes (must be world-readable)
- unparam: remove unused gitDir param, use _ for unused ctx
- unparam: change functions with always-nil error returns to void
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
