- Delete builtin_molecules.go (empty stubs)
- Remove `mol export` command (exported 0 molecules)
- Clean dead code in catalog.go iterating empty BuiltinMolecules()
- Update docs to reference formula files instead of Go code
Molecules are now defined as .beads/formulas/*.formula.json files
and cooked into proto beads via `bd cook`.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Molecules are now defined as formula files in .beads/formulas/ and
cooked into proto beads via `bd cook`. This removes:
- molecules_patrol.go (695 lines)
- molecules_session.go (544 lines)
- molecules_work.go (444 lines)
- builtin_molecules_test.go
- christmas_ornament_test.go
Updates:
- builtin_molecules.go: stub deprecated functions
- install.go: remove molecule seeding (formulas are cooked on-demand)
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
ZFC cleanup: health checking belongs in Deacon molecule, not Go code.
Updated health-scan step with:
- Specific commands: gt witness status, gt refinery status
- Signal assessment table for Claude to interpret
- Cycle tracking for persistent unresponsive state
- Decision matrix with suggested (not hardcoded) thresholds
- Restart and escalation workflows
Key ZFC principle: Claude makes the judgment call about what is
stuck or unresponsive - no hardcoded time.Duration in Go.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Polecats share the same beads database at the rig level. The refinery
and witness manage syncing beads. Running bd sync on polecat startup
causes contention when multiple polecats spawn simultaneously and
creates potential race conditions.
This change removes bd sync --from-main from:
- prompts/roles/polecat.md On Startup section
- internal/beads/molecules_session.go orient step
- internal/beads/molecules_work.go orient step
- docs/polecat-wisp-architecture.md load context section
Troubleshooting sections that recommend bd sync --from-main for
recovery scenarios are preserved.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Architecture changes:
- Refinery created as worktree of mayor clone (shares .git)
- Polecat branches stay local (never pushed to origin)
- MRs stored as wisps in .beads-wisp/mq/ (ephemeral)
- Only main gets pushed to origin after merge
New mrqueue package for wisp-based MR storage.
Updated spawn, done, mq_submit, refinery, molecule templates.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Added comment explaining that the pinned field gets overwritten by
subsequent bd commands due to a bug in the beads auto-import logic.
The handoff bead attachment mechanism works correctly and is the
primary work assignment mechanism.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Adds Pin() and Unpin() methods to the beads wrapper that call bd pin/unpin.
Updates pinToHook() to call b.Pin() after AttachMolecule() to set the
pinned boolean field and assignee on the work issue. This should enable
bd hook to show pinned work.
NOTE: There's a known issue where bd pin via subprocess doesn't actually
set the pinned field even though it reports success. The handoff bead
attachment remains the primary mechanism until this is resolved.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implements redundant systems to ensure infrastructure stays operational:
- gt spawn: Auto-starts refinery and witness if not running
- mol-witness-patrol: Added check-refinery step to verify refinery is alive
This ensures polecats don't wait forever for merges.
🤖 Generated with Claude Code
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
InstantiateMolecule now supports two formats:
1. New format: If molecule has child issues, copy them as templates
2. Old format: If no children, parse markdown steps from Description
This unifies execution while preserving authoring flexibility.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Remove redundant phrases like 'ephemeral wisp' and 'ephemeral molecule'
since wisp already implies ephemeral. Keep 'ephemeral' only where it is
definitional (explaining what wisps are) or contrasting (vs durable mol).
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- Remove 3-second sleep and NudgeSession from spawn.go
(Claude takes 10-20s to initialize, message arrived too early)
- Add trigger-pending-spawns step to deacon patrol molecule
(Deacon polls with WaitForClaudeReady, sends trigger when ready)
- SessionStart hook handles gt prime (internal, reliable)
- Deacon sends minimal 'Begin.' trigger to start polecat working
The spawn command now returns immediately after starting the session.
The deacon's patrol cycle will trigger the polecat when it's ready.
Introduces Proto → Wisp → Mol architecture for agent sessions:
- mol-crew-session: Light harness enabling autonomous overnight work
Key insight: if attached mol exists, continue without awaiting input
- mol-polecat-session: One-shot wisp wrapping polecat work assignments
Handles onboard → execute → cleanup lifecycle
This separates "how to work" (proto) from "what to work on" (mol),
enabling session continuity and autonomous long-mol processing.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Updates mol-polecat-work and polecat.md with comprehensive molecule protocol:
Molecule changes:
- Added exit-decision step as convergence point for all exits
- Four exit types: COMPLETED, BLOCKED, REFACTOR, ESCALATE
- Non-linear jumps allowed from any step to exit-decision
- Dynamic modifications allowed (add steps, file work, refresh)
Polecat role documentation:
- Full molecule protocol section explaining the contract
- Exit strategies with concrete commands
- Wisps vs Molecules comparison for context
- Session continuity for multi-session work
- Updated exit checklist
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Update mol-polecat-work submit-merge step and polecat.md role docs
to explicitly forbid GitHub PRs and direct to beads merge-requests.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
The Refinery now has a formal patrol molecule with structural enforcement
of the Beads Promise via the handle-failures verification gate.
Changes:
- Add RefineryPatrolMolecule() to builtin_molecules.go with 10 steps
- Add prompts/roles/refinery.md template following deacon/witness pattern
- Update test to expect 9 built-in molecules
Key insight: The handle-failures step is a GATE - you cannot proceed to
merge-push without either fixing the issue or filing a bead. This makes
disavowal structurally impossible, not just philosophically discouraged.
The Scotty Test: "Would Scotty walk past a warp core leak because it
existed before his shift?"
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implement DFS-based cycle detection in ValidateMolecule to catch
circular dependencies in molecule step graphs. The algorithm uses
three-color marking (unvisited/visiting/visited) to detect back
edges that indicate cycles.
When a cycle is detected, the error message shows the cycle path
(e.g., "a -> b -> c -> a") for easy debugging.
Add 4 new tests:
- SimpleCycle: A -> B -> A
- LongerCycle: A -> B -> C -> A
- DiamondNoCycle: ensures valid diamond patterns pass
- CycleInSubgraph: cycle not involving root node
Closes gt-ai1z.
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Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Two mechanisms, different purposes:
- Pinned molecule (bd mol run) = What you are working on, tracked by beads
- Handoff mail = Optional context notes for session restarts
Updated templates, architecture.md, and builtin_molecules.go
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
- New docs/deacon-plugins.md with full plugin architecture
- Directory-based discovery at ~/gt/plugins/
- Gate types: cooldown, cron, condition, event
- Parallel execution support via Task tool subagents
- Updated mol-deacon-patrol plugin-run step to reference new docs
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implement AttachmentFields to track molecule attachments on pinned/handoff beads:
- AttachedMolecule: root issue ID of attached molecule
- AttachedAt: timestamp when attached
API:
- AttachMolecule(pinnedBeadID, moleculeID) - attach
- DetachMolecule(pinnedBeadID) - detach
- GetAttachment(pinnedBeadID) - query
- ParseAttachmentFields(issue) - parse from description
- FormatAttachmentFields(fields) - format for description
Includes comprehensive tests for parsing and API.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Define the Deacon patrol molecule in builtin_molecules.go with 7 steps:
1. inbox-check - Handle callbacks from agents
2. health-scan - Ping Witnesses and Refineries
3. plugin-run - Execute registered plugins
4. orphan-check - Find abandoned work (uses wisp terminology)
5. session-gc - Clean dead sessions and wisp artifacts
6. context-check - Check own context limit
7. loop-or-exit - Burn and let daemon respawn, or exit if context high
Added DeaconPatrolMolecule() to BuiltinMolecules() list and added
corresponding test in builtin_molecules_test.go.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Closes gt-48bs: gt rig reset now clears stale mail messages.
- Non-pinned messages are closed with reason 'Cleared during reset'
- Pinned messages have their content cleared but remain open
- Works with both --mail flag and default reset (all state)
- Add MIT LICENSE file
- Update version to 0.1.0
- Add mol-version-bump molecule for release workflow
- Terse README for OSS release
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implement MoleculeCatalog for loading molecules from multiple sources:
1. Built-in molecules (shipped with the gt binary)
2. Town-level: <town>/.beads/molecules.jsonl
3. Rig-level: <rig>/.beads/molecules.jsonl
4. Project-level: .beads/molecules.jsonl
Changes:
- Add internal/beads/catalog.go with MoleculeCatalog type
- Update gt molecule list to show source (builtin, town, rig, project, database)
- Update gt molecule show to check catalog first, then database
- Update gt molecule instantiate to check catalog first
- Add gt molecule export command to export built-in molecules to JSONL
- Add --catalog and --db flags to gt molecule list
The catalog enables organizations to share molecule templates
independently of work item tracking, and allows customization
at different levels of the workspace hierarchy.
Closes gt-0ei3.
Generated with Claude Code
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
The "hq-" prefix for town-level beads revealed that "HQ" (headquarters)
is a better name than "harness" for the top-level Gas Town structure.
- Renamed docs/harness.md to docs/hq.md with updated content
- Updated all documentation references in architecture.md and bootstrap.md
- Updated CLI help text and user-facing messages in install.go
- Updated gitinit.go with HQGitignore constant and HQ terminology
- Updated molecule templates in builtin_molecules.go
- Kept InitGitForHarness function name for backwards compatibility
HQ is more intuitive (where the mayor sits), fits the Mad Max aesthetic,
matches the beads prefix (hq-*), and is self-documenting.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Defines the standard polecat work lifecycle molecule with 8 steps:
- load-context: Load context and verify assignment
- implement: Do the work, file discovered issues
- self-review: Review changes for bugs and issues
- verify-tests: Run tests, add new ones as needed
- rebase-main: Rebase against main
- submit-merge: Submit to merge queue
- update-handoff: Update handoff state
- request-shutdown: Request witness termination
This molecule enables nondeterministic idempotence for polecat work.
Crash recovery is automatic - restart reads molecule state and continues
from the last completed step.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Defines a multi-step workflow for bootstrapping a new Gas Town installation:
- locate-harness: Interactive harness location selection
- create-harness: Directory structure creation
- setup-rigs: Rig configuration and cloning
- build-gt: Go binary compilation
- install-paths: PATH configuration
- init-beads: Beads database initialization
- sync-beads: Remote sync and doctor fixes
- verify: Installation verification
Note: Requires bd to support 'molecule' issue type (see gt-qn4l)
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Implement step recovery mechanism for stuck molecule steps (MVP):
- Add Release() and ReleaseWithReason() to beads wrapper
- Create gt release command to move in_progress → open
- Clears assignee so step can be claimed by another worker
- Optionally adds reason as note for tracking
Usage:
gt release <id> # Release single issue
gt release <id> -r "why" # Release with reason
This enables nondeterministic idempotence - stuck steps can be
safely recovered and retried by releasing and reclaiming.
Closes gt-g44u.4
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Add a single-step molecule for building and installing the gt binary.
The molecule contains one step:
- install: Build with `go build -o gt ./cmd/gt` and install with
`go install ./cmd/gt`
Added InstallGoBinaryMolecule() function and test.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Replace polecat state.json with beads assignee field for state management:
- Remove state.json read/write from polecat.Manager
- Add loadFromBeads() to derive state from issue.assignee field
- Update AssignIssue() to set issue.assignee in beads
- Update ClearIssue() to clear assignee from beads
- Update SetState() to work with beads or gracefully degrade
- Add ListByAssignee and GetAssignedIssue to beads package
- Update spawn to create beads issues for free-form tasks
- Update tests for new beads-based architecture
State derivation:
- Polecat exists: worktree directory exists
- Polecat assigned: issue.assignee = 'rig/polecatName'
- Polecat working: issue.status = open/in_progress
- Polecat done: issue.status = closed or no assignee
Fixes: gt-qp98
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Fix ~50 errcheck warnings across the codebase:
- Add explicit `_ =` for intentionally ignored error returns (cleanup,
best-effort operations, etc.)
- Use `defer func() { _ = ... }()` pattern for defer statements
- Handle tmux SetEnvironment, KillSession, SendKeysRaw returns
- Handle mail router.Send returns
- Handle os.RemoveAll, os.Rename in cleanup paths
- Handle rand.Read returns for ID generation
- Handle fmt.Fprint* returns when writing to io.Writer
- Fix for-select with single case to use for-range
- Handle cobra MarkFlagRequired returns
All tests pass. Code compiles without errors.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Add three built-in molecule definitions that are automatically seeded
during `gt install`:
- engineer-in-box: Full workflow from design to merge (5 steps)
- quick-fix: Fast path for small changes (3 steps)
- research: Investigation workflow (2 steps)
These molecules provide reusable workflow templates that polecats can
instantiate to execute multi-step procedures with proper dependency
tracking between steps.
Closes gt-4nn.4
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Replace mail-based handoff system with pinned beads that persist
across sessions. This fixes the issue where handoff messages get
closed before successors can read them.
Changes:
- beads: Add StatusPinned constant and handoff functions:
- HandoffBeadTitle() for well-known naming
- FindHandoffBead() to locate role handoff bead
- GetOrCreateHandoffBead() to ensure bead exists
- UpdateHandoffContent() to set handoff message
- ClearHandoffContent() to reset after reading
- cmd/handoff: Update to use pinned beads instead of mail
- sendHandoffMail() now updates pinned bead content
- cmd/prime: Display handoff content on startup
- outputHandoffContent() reads and shows handoff bead
- cmd/rig: Add reset command with --handoff flag
- gt rig reset --handoff clears handoff content
Generated with Claude Code
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
Adds the Engineer component that polls for ready merge-requests and
processes them according to the merge queue design.
Features:
- Main loop that queries `bd ready` for merge-request type issues
- Configurable poll_interval and max_concurrent from rig config.json
- Graceful shutdown via context cancellation or Stop() method
- Claims MRs via `bd update --status=in_progress` before processing
- Handles success/failure with appropriate status updates
Configuration (in rig config.json merge_queue section):
- poll_interval: duration string (default "30s")
- max_concurrent: number (default 1)
- enabled, target_branch, run_tests, test_command, etc.
Also adds ReadyWithType() to beads package for type-filtered queries.
Note: ProcessMR() and handleFailure() are placeholders - full
implementation in gt-3x1.2 and gt-3x1.4.
🤖 Generated with [Claude Code](https://claude.com/claude-code)
Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>
