## Why
Paginated threads allow only one app-server process to write at a time. Archive and delete operations must not mutate a thread or its spawned descendants while another process owns any of them.
## What changed
- Acquire paginated writer locks for the full archive or deletion set before changing rollout files, including descendants whose rollout has not materialized yet.
- Add a batch archive store operation so ownership conflicts are detected before any thread in the subtree is archived.
- Return ownership conflicts as JSON-RPC invalid-request errors and document the behavior.
## Testing
- Cover archive and deletion conflicts for owned threads and descendants, including unmaterialized rollouts.
- Verify deletion still removes rollouts with unreadable metadata.
GitOrigin-RevId: f62a3e0c1ee2631cea48dd9145b588a1486e2425
## Why
Paginated forks can retain a `history_base` pointer to another rollout. Deleting or compressing either side of that relationship can leave the fork without the rollout history it references.
## What changed
- Add a rollout reference index that scans active, archived, and compressed rollout metadata.
- Reject deletion when a rollout is still referenced by a fork outside the requested deletion set.
- Delete spawned thread subtrees as one store operation so internal references do not block deleting the complete subtree, while external references preflight the request before any files are removed.
- Skip referenced rollouts, fork-pointer rollouts, and rollouts with unreadable metadata during background compression.
## Testing
- Cover reference indexing across active, archived, compressed, duplicate, and self-referencing rollouts.
- Verify deletion rejects external references without partially deleting a subtree and permits batch deletion of internally referenced threads.
- Verify compression preserves fork pointer chains and continues past unreadable metadata.
GitOrigin-RevId: a8672727f8706e743d7fb3ca895a1d9ceac98a3c
Pick up the AgentGraphStore migration.
- Inject an explicit optional agent graph store into `ThreadManager`
- Move all calls to spawn, close, recursive resume, and
subtree/archive/delete/feedback traversal through it
- Keep using `LocalAgentGraphStore` when SQLite is available
This required some changes to the interface to deal with futures:
- The interface now matches `ThreadStore`'s object-safe pattern by
returning a boxed `AgentGraphStoreFuture` directly, allowing
`ThreadManager` to hold `Arc<dyn AgentGraphStore>`
*Slight behavior change!* Unfiltered subtree enumeration now performs a
single all-status breadth-first traversal, so a closed grandchild
beneath an open edge is included; the previous Open-then-Closed
traversals could not cross mixed-status paths and silently omitted it.
## Why
Clients can archive and unarchive threads today, but there is no
app-server API for permanently removing a thread. Deletion also needs to
cover the full session tree: deleting a main thread should remove
spawned subagent threads and the related local metadata instead of
leaving orphaned rollout files, goals, or subagent state behind.
## What
- Adds the v2 `thread/delete` request and `thread/deleted` notification,
with the response shape kept consistent with `thread/archive`.
- Implements local hard delete for active and archived rollout files.
- Deletes the requested thread's state DB row as the commit point, then
best-effort cleans associated state including spawned descendants,
goals, spawn edges, logs, dynamic tools, and agent job assignments.
- Updates app-server API docs and generated protocol schema/TypeScript
fixtures.
Owen Lin