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Author SHA1 Message Date
Devin FoleyandPaperclip 1a79522a4e perf: narrow run-to-issue authorization reads (#17405)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Run pages show links to issues associated with a run.
> - The issue-link route checks the run's company and issue visibility
before it reads those links.
> - That check needs four binding fields, but the route reads the full
run.
> - Full runs can include large prompt, output, and result fields.
> - This pull request uses the existing narrow authorization read.
> - The route transfers less database data and keeps its permission
checks and response contract.

## Linked Issues or Issue Description

**Problem or motivation**

`GET /api/heartbeat-runs/:runId/issues` calls `heartbeat.getRun` for a
permission check. Its consumers only need the run ID, company ID, scope
kind, and issue ID. The full read also fetches context, output excerpts,
result data, and runtime metadata. Repeated link reads pay for that
unused data.

**Proposed solution**

Use `getRunReadAccess`, the existing four-field read from #17348. Keep
authentication, company access, company-scope authorization, run issue
visibility, and linked-issue filtering in their current owners. Keep the
existing empty response for missing and inaccessible runs.

**Alternatives considered**

A new query contract is unnecessary because the existing read provides
all required fields. A permission cache could become stale. Changing the
full run reader could affect consumers that need run details.

**Roadmap alignment**

This is a focused improvement to an existing route. It adds no feature,
route, provider, cache, or background work. Searches for run-issue
links, narrow run authorization, and `getRunReadAccess` found no open
duplicate. Related work: #17348.

## What Changed

- Change the issue-link route to use the existing narrow run read.
- Reject full run reads in the route tests. Cover readable company and
issue scopes, denied issue access, missing bindings, anonymous requests,
and the missing/cross-company empty response.
- Add a developer note about the read contract.

## Verification

- `pnpm --filter @paperclipai/server exec vitest run
src/__tests__/activity-routes.test.ts
src/services/heartbeat/run-state.test.ts
src/__tests__/agent-live-run-routes.test.ts`: 126 tests passed.
- `pnpm build`: passed.
- `pnpm -r typecheck`: passed.
- The route tests use the real run visibility helper with only the four
binding fields. The full reader throws if a route calls it. The existing
run-state suite checks the exact four-column selection and covers
database wiring with disposable Postgres.
- `git diff --check`: passed. Reviewed the committed diff for secrets
and private identifiers before push.
- Apex review: 5/5 on exact head
`888a4ce9ea88bb2b284eb5e28fafc01b6f48b386`, completed successfully, with
zero review threads.
- Full current-head CI passed: 54 successful checks and two expected
skips. [Workflow attempt
2](https://github.com/paperclipai/paperclip/actions/runs/40051399577/attempts/2).
[Initial serialized shard
failure](https://github.com/paperclipai/paperclip/actions/runs/40051399577/job/120744710081):
the first company-history case in unchanged
`agent-live-run-routes.test.ts` hit its 15-second timeout; the shard had
391 passing tests and one failure. That file, its agent route, the
heartbeat state reader, and the service export are unchanged from base.
The five company-history cases pass on unchanged base
`9fb28d06ffebbb615f413765078aeeb7c4291311` (9.12s suite) and this head
(8.29s suite). They also passed in the 126-test focused run. The timeout
was not reproduced locally; its cause is not established. Only the
failed shard was retried on the same head. It passed in attempt 2. This
establishes recovery; the initial timeout remains in this record and its
cause is unproven.
- The prior local full-suite failures and baseline triage remain
documented in #17384. No new local full-suite pass is claimed here. This
change uses focused local tests and the full current-head CI gate.
- No hosted user journey, staging deployment, production deployment, or
billed savings is claimed for this follow-up.

## Risks

- Run visibility depends on the canonical `scopeKind` and `issueId`. The
existing helper returns those same fields. It does not use prompt or
result data for access decisions.
- Linked issues still pass the existing SQL visibility filter. Missing
and cross-company runs still return `200 []`. Anonymous requests still
fail before the run read.
- The database query count stays the same. The change reduces data
selected for this authorization read.
- No schema or API response changes.

## Model Used

OpenAI Codex, GPT-6 family. The exact deployment model ID and context
window are not exposed in this session. Used reasoning, repository
tools, and code execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 19:59:21 -07:00
Devin FoleyandPaperclip 70de7d49e9 Migrate standalone nested clones onto the shared project clone (#17407)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Each task runs in a git worktree. Extra project repositories sit in
the task under `.paperclip-repositories/`.
> - #17382 made new nested checkouts git worktrees of one shared clone
per project repository. Existing standalone nested clones stayed as full
clones.
> - Long-lived tasks keep those clones for a long time. Many tasks hold
the same large repository, so most of the disk is duplicate `.git` data.
> - #17369 added a locked and verified move of isolated workspaces onto
the shared clone, with a reaper sweep behind a setting.
> - This pull request adds the same kind of locked and verified
conversion for standalone nested clones in open tasks, and runs it from
the same reaper path behind a new setting.
> - The benefit is that the duplicate clones go away without losing any
state or local history, and the disk stops filling.

## Linked Issues or Issue Description

Refs #17382 #17369. Bug report described in-PR (bug report template).

**What happened?**
On one instance, 44 open task worktrees in one project each hold a
standalone nested clone of the same large repository. Together they use
about 25 GB. About 16 GB of that is duplicate `.git` data. Another
project has 33 smaller clones. The clones are removed only when their
tasks expire, and many tasks stay open for a long time. The disk keeps
filling.

**Expected behavior**
Existing standalone nested clones in open tasks become worktrees of the
project's shared clone, with the same state and local history, and the
standalone clones are deleted.

**Steps to reproduce**
1. Prepare a task with a nested project repository before #17382, or
without a shared clone, so that `.paperclip-repositories/<name>` is a
standalone clone.
2. Create the project's shared clone, as #17382 does for new tasks.
3. Observe that the old checkout stays a full clone until the task
expires.

**Paperclip version or commit:** `master` at 8549ecaf9a.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

- New `server/src/services/nested-clone-migration.ts`. It converts one
standalone nested clone in an open execution workspace into a worktree
of the shared clone:
- It holds the source lock and workspace lifecycle lock (as git cache
expiration does), the per-shared-clone lock from #17382, and the
expiration lock files (`index.lock`, `HEAD.lock`, current branch ref
lock) in the clone.
- It requires the #17369 no-live-consumer eligibility (no live runs,
leased finalizations, unreleased leases, running services, or reopen
flag). It checks again before the swap.
- It identifies the repository by managed checkout name, project
workspace rows and the origin URL, and it requires a verified shared
clone.
- It brings local history into the shared clone under the checkout's own
`paperclip/<id>/` prefix. The current branch becomes
`paperclip/<id>/<branch>`, tracking `origin/<branch>`. Unpushed local
branches become `paperclip/<id>/<branch>`. Unpushed tags become
`paperclip/<id>/tags/<tag>`. A restore point carries the commits, the
`HEAD` reflog and `ORIG_HEAD`.
- It stages the worktree at `<name>.clone-migrating`, applies the
restore point, copies the `HEAD` reflog and `ORIG_HEAD`, and moves
regenerable dirs, untracked `.env` files and
`.claude/settings.local.json` by rename. Old and new must then match
exactly (snapshot, history, branch, created refs, moved items).
- Swap: it renames the clone to `<name>.clone-standalone`, runs `git
worktree move` and `git worktree repair`, updates a saved restoration
recipe that lists the checkout, and then renames the old clone to trash
and deletes it.
- A `nestedCloneMigrationPending.<name>` metadata record makes recovery
possible. A crash before the swap rolls back (moves items back, removes
the staged worktree and the created branches). A crash after the swap
rolls forward.
- Skip reasons (nothing changes): `live_or_unresolved_consumer`,
`unknown_managed_checkout`, `local_source_checkout`, `foreign_origin`,
`no_shared_base`, `shared_base_repo_mismatch`,
`unsupported_base_git_config`, `nested_clone_has_stash` (stashes are
skipped, because `refs/stash` would be shared by every worktree),
`nested_clone_has_worktrees`, `nested_clone_has_hooks`,
`unsupported_local_git_config`, `unsupported_local_git_state`,
`unsupported_info_exclude`, `unsupported_nested_clone_refs`,
`unsupported_index_flags`, `unique_branch_reflog_commits`,
`nested_clone_ref_conflict`, `snapshot_mismatch`, `history_mismatch`,
restore point limits, and `nested_migration_recovery_conflict`.
- Reaper: `sweepTerminalWorkspaces` runs the conversion for open
workspaces when `PAPERCLIP_NESTED_CLONE_MIGRATION_ENABLED=true` (default
off). `PAPERCLIP_NESTED_CLONE_MIGRATION_DRY_RUN=true` only reports. Each
attempt logs `event: "execution_workspace.nested_clone_migration"` with
outcome, reason, branch, candidate bytes and reclaimed bytes. There is
no new timer. A retry deadline is registered on the existing reaper
deadlines only for a pending record or a transient skip (live consumer,
busy lock, changed row). A workspace is attempted again at most hourly.
A workspace without standalone clones costs one directory listing.
- `isolated-repository-rehome.ts`: I exported the shared pieces
(eligibility, locks, safe base config check, transfer plan, history
boundary, snapshot and history keys, item moves, rollback and
verification) instead of copying them. Re-home behavior does not change.
- `nested-repository-worktrees.ts`: I exported the stale registration
cleanup and added the `moveNestedRepositoryWorktree` (move and repair)
and `trackNestedWorktreeUpstream` helpers.
- Docs: `doc/recoverable-disk-cleanup.md` (new section about the
conversion) and `doc/DEVELOPING.md` (settings).

## Verification

- `cd server && pnpm exec vitest run
src/__tests__/nested-clone-migration.test.ts`: 19 passed. It uses
embedded Postgres and real git repositories, and covers:
- Conversion with an unpushed commit, a second branch with unpushed
commits, a lightweight tag and an annotated tag, staged and unstaged
edits, a deleted file, an untracked file with mode 0600, an ignored
file, `node_modules`, `.env` and the settings file. The result is a
worktree of the shared clone (`--git-common-dir`), with the same HEAD,
status, staged content and reflog, the owned branch tracking
`origin/main`, and the history under the task's prefix. No other branch
in the shared clone changes. The old clone is gone and reclaimed bytes
are reported.
- Skips with nothing changed: stash, live run, foreign origin, unknown
checkout, no shared clone, local excludes, and a change between capture
and verification (hook).
- Two tasks convert concurrently against one shared clone. The test
holds the shared-clone lock and shows that neither conversion advances.
Then they run one at a time (peak 1), and each keeps its own branches.
- Crash recovery at `afterAside`, `afterMove` and `afterFinalize` (roll
forward), and before the swap (roll back, then convert). A dry run
reports the pending record and changes nothing.
- Expiration and restore of a converted checkout work afterwards.
Unpushed branches in a converted checkout block expiration
(`unpushed_managed_checkout_branches`).
- Reaper: disabled by default; dry run changes nothing and registers no
deadline; a live run registers a retry deadline that survives a second
sweep; enabled conversion leaves no deadline.
- Commits that only the clone's `origin` remote-tracking refs hold are
kept as `paperclip/<id>/remotes/origin/<branch>`.
- A pending conversion is finished after the workspace is archived, and
forgotten (keeping unpushed branches) when the worktree is gone.
- A filter planted in the shared clone right before the worktree add is
refused (`unsupported_base_git_config`) and never runs.
- Only checkouts named after configured project repositories are
considered; at most 8 per sweep, pending first, rotating (unit test).
- Related suites (run before review fixes; the nested, re-home and
execution workspace service suites were rerun after them): `pnpm exec
vitest run` on execution-workspaces-routes,
execution-workspaces-service, git-reproducible-managed-checkouts,
git-restore-point (all 5 files), git-workspace-contents,
git-workspace-expiration, git-workspace-expiration-eligibility,
heartbeat-git-restore-point-resume, heartbeat-project-repositories,
isolated-repository-rehome, nested-clone-migration: 15 files, 393 tests
passed.
- `cd server && pnpm run typecheck` (`tsc --noEmit`): passes.
- Mutation checks. Each mutation makes the targeted test fail, and I
reverted each one:
  - Remove both eligibility checks: the live run test fails.
- Remove the snapshot comparison: the capture/verify change test fails.
  - Disable roll forward after the swap: the recovery tests fail.
- Drop the `paperclip/<id>/` prefix from transferred branches: the
conversion and concurrency tests fail.
  - Remove the shared-clone lock: the concurrency test fails.
- Drop remote-tracking refs from the plan, the deadline restore during
backoff, archived recovery, or the config check before the worktree add:
each targeted test fails.
- Not run: the full server suite and a run on a live instance.

## Risks

- The setting is off by default. Enable a dry run first and read the
`execution_workspace.nested_clone_migration` logs.
- A clone that a run writes to between verification and the swap rename
can lose those writes. This window is the same as in #17369. Locks, the
eligibility check and the git lock files make it small.
- A crash in the short time between the rename aside and `git worktree
move` can collide with a run that recreates `<name>`. In that case the
conversion stops with `nested_migration_recovery_conflict` and keeps
both copies. Expiration keeps such a workspace because of the `.clone-`
names.
- Stashes, annotated tag messages (the tagged commit is kept as a
branch), custom hooks, custom local config and per-branch reflog-only
history are not converted. Clones with them are skipped with a named
reason. Only unpushed branches and tags get a name in the shared clone.
A pushed local branch name is not kept, but its commits stay on the
remote.
- The conversion fetches the shared clone first. A failed fetch is
ignored, and then the restore point can be larger.
- Pushing from a converted checkout needs an explicit destination, as
for all #17382 nested worktrees.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file editing, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 19:52:07 -07:00
Devin FoleyandPaperclip 0c3b5ce273 perf: filter sandbox provider lookups in Postgres (#17395)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Sandbox execution selects a provider from installed plugin
manifests.
> - Driver-key lookup reads every plugin row before it finds a matching
declaration.
> - Repeated lookups transfer manifests for unrelated plugins.
> - The registry owns this database read and can filter candidates
before returning rows.
> - This pull request adds that filter and keeps the existing provider
selection checks.
> - The returned data now grows with matching providers instead of the
full catalog.

## Linked Issues or Issue Description

**Problem or motivation**

`resolvePluginSandboxProviderDriverByKey` calls the unfiltered registry
catalog on each lookup. The caller only needs plugins with a
sandbox-provider declaration for one driver key. Unrelated plugin
manifests still cross the database connection and are decoded in the
server.

**Proposed solution**

Add an optional sandbox-provider driver-key filter to
`pluginRegistryService().list`. Match the key and kind on the same JSON
declaration in Postgres. Pass the key from the existing resolver. Keep
full matching rows, install order, status checks and worker checks.

**Alternatives considered**

A catalog cache would need an invalidation contract for plugin updates
and independent writers. This change keeps fresh database reads.
Returning only one SQL row could skip a later eligible provider when an
earlier worker is unavailable. The filter therefore keeps all matching
candidates.

**Roadmap alignment**

This is a small performance fix to existing plugin execution. It adds no
product feature or provider. Searches for sandbox/driver lookup and
plugin catalog/filter work found no duplicate PR or issue.

## What Changed

- Add an optional JSONB containment filter to the existing registry list
read.
- Use it in sandbox-provider lookup by driver key. The unfiltered
catalog call keeps its existing behavior.
- Add real-Postgres regression coverage and a short developer note.

## Verification

- Four focused provider-selection/recovery/seam suites passed: 27 tests.
- `pnpm build`: passed.
- `pnpm -r typecheck`: passed.
- The new Postgres tests seed large unrelated manifests and verify the
actual resolver SQL filters rows in the database. They cover key/kind
matching within one declaration, unfiltered reads, install order,
disabled and unavailable workers, live status/declaration changes,
unknown keys and bound unusual input.
- The filter keeps the existing SQL call count. It does not add a
network call, cache, timer, or background worker.
- `git diff --check`: passed. Reviewed the staged diff for secrets and
private account data before push.
- Full PR CI passed on `6f97c984a931416b6347e9885d840557c54d8aab`: 54
successful checks and two expected skips. [Workflow
evidence](https://github.com/paperclipai/paperclip/actions/runs/40041294925).
- Apex review: 5/5 on that exact head, completed cleanly, with no
comments or unresolved threads. Merge state is clean.
- The prior local full run on parent work is documented in #17384. It
did not pass because of test setup, host Git-default assumptions and
transient failures. Those results were preserved and triaged against
unchanged code. This change uses focused local checks and full
current-head CI; no new local full-suite pass is claimed.
- No hosted user journey, live provider throughput, production
deployment or billed savings is claimed.

## Risks

- JSONB containment checks the stored manifest before returning rows. It
still scans candidate metadata in the database; no index or SQL-call
reduction is claimed.
- Both key and kind must match the same declaration. The regression
fixture includes a plugin with those values on different declarations.
- Selection still uses the existing install-order and live
readiness/worker checks. Matching disabled records remain visible to
callers that do not require a running worker.
- No schema, API response, provider protocol, file-copy behavior or
scheduling changes.

## Model Used

OpenAI Codex, GPT-6 family. The exact deployment model ID and context
window are not exposed in this session. Used reasoning, repository tools
and code execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 18:31:36 -07:00
Devin FoleyandPaperclip 8549ecaf9a Re-home isolated repository workspaces onto the shared project clone (#17369)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Each isolated task workspace is a Git worktree on the server disk,
and the terminal workspace reaper and git cache expiration keep that
disk usage bounded
> - For some days, workspace preparation gave each isolated
`git_worktree` workspace its own full clone under
`isolated-repository-sources/`, with the worktree inside it. #16963
removed that creation path, but the existing clones stay, and restoring
an expired workspace still recreates its private clone
> - On one instance, 30 such clones use about 23 GB: 12.1 GB of `.git`
data, 5.2 GB of unused default-branch checkouts and 5.75 GB of real
worktrees. 28 of them back open workspaces, and the disk is nearly full
> - This pull request moves each such open workspace onto the project's
shared managed clone with its exact state, deletes the private clone,
and makes restore use the shared clone
> - The benefit is that disk use drops to one shared clone per project
repository, with no lost work and no change for workspaces that cannot
move safely

## Linked Issues or Issue Description

Refs #16963. Bug report described in-PR (bug report template).

**What happened?**
On one instance, 30 per-issue clones under
`isolated-repository-sources/<companyId>/<issueId>/checkout` use about
23 GB. 28 of them back open workspaces. No process moves these
workspaces to the shared project clone that new workspaces use, and git
cache expiration does not remove a clone while its workspace is open.
Reopening an expired workspace whose recipe has `sourceKind:
"isolated_remote"` clones the full repository again. Separately, a
restore point with a non-default file mode cannot be restored: the
reference read back from jsonb has reordered `modes` keys, so
`loadGitRestorePoint` fails with `restore_point_manifest_mismatch`.

**Expected behavior**
An open workspace with a private clone moves to the shared project clone
with the same branch, HEAD, index, worktree, untracked and ignored
files, and file modes. The private clone is then deleted. Reopening an
expired workspace uses the shared clone when one exists. A restore point
with non-default file modes restores.

**Steps to reproduce**
1. Create an isolated `git_worktree` workspace with
`materializeIsolatedRemoteWorkspaceSource` and record
`isolatedRemoteSource` metadata, as preparation did before #16963.
2. Keep its issue open. The clone stays, because no sweep moves or
removes it.
3. Expire the workspace with a restore point that has a file with mode
`0600`, then reopen it. The private clone is created again, and the
restore fails with `restore_point_manifest_mismatch`.

**Paperclip version or commit:** `master` at ec2e0d6407.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

- New `server/src/services/isolated-repository-rehome.ts` with
`rehomeIsolatedRepositoryWorkspace`. It holds the isolated source lock,
the `execution_workspace_lifecycle:<id>` advisory lock and
expiration-style Git lock files (`index.lock`, `HEAD.lock` and the
branch ref lock in the clone).
- Eligibility uses the safety checks of git cache expiration that matter
while a workspace stays open: no live or unfinished relevant runs, no
unsettled native finalizations, no unreleased environment leases, no
running runtime services, no pending reopen, and no other workspace on
the same path. It does not require a closed or idle issue tree. The
check runs again inside the update transaction.
- The target base is the project's existing shared managed clone for the
same `repoUrl` (the paths `ensureManagedProjectWorkspace` uses, verified
with the same origin and storage checks as restoration).
- The move captures a restore point of the old worktree. The upstream
boundary is commits that both repositories have, so the bundle is small.
It imports the bundle into the shared clone, creates
`refs/heads/<branch>` or fast-forwards it from an ancestor, and adds the
worktree at `<base>/.paperclip/worktrees/<branch>`. Then it applies the
restore point. It copies the `HEAD` reflog and `ORIG_HEAD`, copies the
branch's upstream config when it creates the branch, and moves
regenerable directories, untracked `.env`/`.env.*` files,
`.claude/settings.local.json` and nested `.paperclip-repositories/*`
checkouts by rename. Standalone nested clones move as is. Nested
checkouts that are worktrees of their own shared clone (#17382) move
too, followed by `git worktree repair` in that clone so the registration
follows the new path, and their `paperclip/<hash>/` branch is renamed to
the new path's prefix so ownership checks still pass. Entries inside a
moved nested checkout (for example its `node_modules`) move with it.
Rollback and interrupted-move recovery repair them again after moving
them back, and verification checks that each one still resolves to the
same shared clone.
- Verification: the restore point snapshot (HEAD, index, worktree,
ignored files, modes) of the new worktree must equal the old one before
and after the move. The reflog and `ORIG_HEAD` must match, and every
moved item must exist. Only then does one transaction set
`cwd`/`providerRef`, drop `isolatedRemoteSource` and
`gitCacheExpiration`, rewrite a saved active restoration recipe to
`managed_project`, and record `isolatedRepositoryRehome: { at, from, to,
cleanedAt }`. A failure before that removes the new worktree, moves
items back, restores the branch, and leaves the old worktree untouched.
- Safety of the checkout in the shared clone: the move skips with
`unsupported_base_git_config` when the shared clone's local config sets
filter drivers, includes, attribute files, worktree config or command
settings, or when it has `info/attributes`. It checks before planning
and again right before `git worktree add`.
- Crash safety before the update: the move records
`isolatedRepositoryRehomePending` (base, target, branch, head, previous
branch tip, planned moves) before the first change to the shared clone.
The next attempt undoes an interrupted move under the same locks: it
moves items back, removes the new worktree only when it is proven to be
this move's (a linked worktree of the shared clone on the issue branch
that no workspace row references), and restores the branch. A live
failure removes the target only after this attempt created it. When an
item exists in both places, rollback stops with
`rehome_rollback_conflict` and keeps the target and the record, so no
copy is lost.
- Cleanup after the update: remove the old worktree (rename to trash,
then delete, then `worktree prune`). Delete the clone (rename to trash,
then delete) only when no other workspace, project workspace or running
service uses it, it has no other worktree, its checkout has no changes
or non-regenerable files, its refs are only branches, tags and
remote-tracking refs, and every local commit is on a remote-tracking ref
or present in the shared clone. Cleanup reads at most 5,000 refs, reflog
entries and unique commits (`clone_history_budget`). `cleanedAt` records
completion. A crash after the update leaves a pending record that the
next pass finishes, also after the workspace is archived: the reaper
scan includes archived rows with unfinished re-home cleanup when the
feature is on.
- Reaper integration in `sweepTerminalWorkspaces`: behind
`PAPERCLIP_ISOLATED_SOURCE_REHOME_ENABLED` (default `false`) and
`PAPERCLIP_ISOLATED_SOURCE_REHOME_DRY_RUN`, only when git cache
expiration is enabled. It logs `event:
"execution_workspace.isolated_source_rehome"` with outcome, reason,
candidate bytes and reclaimed bytes. A skipped workspace gets a retry
deadline one hour later in the reaper's existing deadline set. No new
timer.
- Restore: `reopenClosedIsolatedExecutionWorkspaceForIssue` calls
`rehomeExpiredIsolatedRestoration` first. For an expired workspace with
an `isolated_remote` recipe, it uses the shared clone when one exists
and the branch there is absent or at the saved commit. It keeps the old
behavior for recipes with worktree-backed nested checkouts on branches,
because those branch names are bound to the old path. It also requires
that the shared clone has every base commit (prerequisite) of the saved
restore point bundle. It rewrites the row and recipe to the shared clone
and the standard worktree path, then the existing restore runs
(`ensureGitRestorePointCommit`, `ensureSavedGitCommit`, apply). Without
a shared clone, the old behavior stays.
- Fix: restore point `modes` comparison in
`git-restore-point-storage.ts` compares by path and mode, so jsonb key
order does not matter.
- Small exports: `allocatedBytes`, `expirationScope`,
`managedSourcePaths`, `verifiedGitCacheSource`.
- Docs: new "Isolated repository sources" section in
`doc/recoverable-disk-cleanup.md`, new settings in `doc/DEVELOPING.md`.

Deviations from the requested design:
- The sweep does not create a missing shared clone. When none exists, it
skips with `no_shared_base`, because a new network clone in a cleanup
path can use more disk. Restore follows the same rule and keeps the old
behavior.
- History moves through the restore point bundle, not a separate fetch
from the clone. The bundle contains HEAD and every reflog/`ORIG_HEAD`
commit that the shared clone does not have. The move then checks that
all of them are present.
- The standard location is `<base>/.paperclip/worktrees/<branch>`. A
worktree outside the clone's standard location is skipped
(`nonstandard_worktree_location`).
- Lock files use a token derived from the workspace id, so a crashed
attempt's locks are recovered without a database marker.
- A clone that another open workspace still uses is kept and marked
`cloneRetained: "base_has_consumers"`. That workspace's own move removes
it later.

Skip reasons: `live_or_unresolved_consumer`,
`unsupported_base_git_config`, `rehome_rollback_conflict`,
`nested_branch_conflict`, `invalid_rehome_record`,
`interrupted_rehome_pending` (dry run only), `lifecycle_busy`,
`source_busy`, `workspace_changed`, `no_shared_base`,
`shared_base_repo_mismatch`, `missing_worktree`,
`nonstandard_worktree_location`, `source_identity_changed`,
`branch_identity_changed`, `unproven_worktree_admin`,
`unsupported_worktree_git_state`, `unique_worktree_refs`,
`unknown_worktree_git_logs`, `unsupported_local_git_state`,
`unique_git_refs`, `unsupported_index_flags`, `unsupported_branch_name`,
`invalid_restoration_recipe`, `unsupported_restoration_recipe`,
`target_worktree_exists`, `base_branch_checked_out`,
`base_branch_diverged`, `untransferable_ignored_files`,
`untransferable_managed_checkouts`, `worktree_git_busy`, `head_changed`,
`history_not_transferred`, `transfer_conflict`, `snapshot_mismatch`,
`history_mismatch`, `transfer_incomplete`, and restore point reasons
such as `untracked_nested_repository`, `submodules_unsupported`,
`filtered_paths`, `restore_point_too_large`. Clone kept reasons:
`base_has_consumers`, `base_has_live_services`, `base_has_worktrees`,
`clone_checkout_has_files`, `unsupported_clone_refs`,
`unique_clone_history`, `clone_history_budget`.

## Verification

- `pnpm exec vitest run
src/__tests__/isolated-repository-rehome.test.ts` in `server/`: 18
passed. It uses real Git repositories and embedded Postgres. It covers:
- a move with an unpushed commit, staged and unstaged edits, a deletion,
an untracked file with mode `0600`, an ignored file, `node_modules`,
`.env`, `.claude/settings.local.json` and a nested
`.paperclip-repositories` checkout. Snapshots, branch, HEAD, `git
status` and reflog match, the row points to the new path without
`isolatedRemoteSource`, and the old worktree and clone are gone;
- skips with nothing changed on disk or in the database: live run,
branch in the shared clone at an unrelated commit, no shared clone, an
untracked nested repository, and a concurrent change between capture and
verify (hook). The new worktree is removed and the old one keeps its
moved items;
  - the clone is kept while another workspace references it;
- a worktree-backed nested checkout moves with the task worktree, stays
registered in its shared clone at the new path (not prunable), and keeps
its changes, with its branch renamed to the new path's prefix. On
rollback it returns to the old path with its registration repaired and
its branch name restored. A standalone nested checkout moves together
with its own ignored `node_modules`;
- a file recreated in the old worktree before verification stops the
rollback and keeps both copies, then the move completes once the
conflict is gone;
- a hostile `filter.*.smudge` in the shared clone's config makes the
move skip without running it;
- a clone with more than 5,000 refs is kept, and is deleted once the
refs are gone;
- a move interrupted before the database update is reported (not undone)
by a dry run, then undone and completed on the next attempt;
- a target that another party creates right before `git worktree add` is
never deleted;
- a crash after the database update; after the row is archived, a later
reaper sweep removes the old worktree and clone;
- restore keeps the private-clone fallback when the shared clone lacks
the restore point's base commits;
- disabled by default (both flags needed), dry run changes nothing, and
the retry deadline is registered;
- reopening an expired `isolated_remote` workspace rebuilds it in the
shared clone with the restore point applied and no clone created.
- After the round 4 fixes, the related suites
(`git-workspace-expiration`, `git-restore-point-expiration`,
`execution-workspace-reopen`, `execution-workspaces-service`,
`heartbeat-git-restore-point-resume`, `heartbeat-project-repositories`,
`isolated-remote-workspace-source`) with the new suite: 326 passed.
- After rebasing on #17382, the related suites (adding
`heartbeat-project-repositories`) with the new suite: 374 passed.
- After the first review fixes, the related suites
(`git-workspace-expiration`, `git-restore-point`,
`git-restore-point-expiration`, `execution-workspace-reopen`,
`execution-workspaces-service`, `execution-workspace-compaction`,
`heartbeat-git-restore-point-resume`,
`isolated-remote-workspace-source`) with the new suite: 301 passed.
- Related suites in `server/` (first commit): `pnpm exec vitest run` on
`git-workspace-expiration`, `git-workspace-expiration-eligibility`,
`git-restore-point`, `git-restore-point-expiration`,
`git-restore-point-expiration-config`, `git-restore-point-ledger`,
`git-restore-point-ledger-config`, `execution-workspace-reopen`,
`execution-workspaces-service`, `execution-workspace-compaction`,
`heartbeat-git-restore-point-resume`,
`isolated-remote-workspace-source`,
`isolated-remote-workspace-source-lock`, `git-workspace-base-storage`,
`git-reproducible-managed-checkouts`, `git-expiration-auth-fallback` and
`workspace-runtime`: 550 passed, 2 failed. The 2 failures are in
`workspace-runtime.test.ts` (base ref resolution) and also fail on
unmodified `master` on the same machine.
- `pnpm run typecheck` in `server/` passes (after `pnpm -r --filter
"./packages/**" build`).
- Mutation checks. Each reverted guard fails one test in the new suite:
  - eligibility always true: "keeps a workspace with a live run" fails;
- snapshot verification removed: "removes the new worktree and keeps the
old one when the workspace changes during the move" fails;
- clone reference check removed: "keeps the clone while another
workspace still references it" fails;
- restore re-home removed from reopen: "restores an expired isolated
workspace into the shared project clone" fails;
  - old `JSON.stringify` modes comparison: the same restore test fails;
  - interrupted-move recovery removed: the interrupted-move test fails;
- target existence check before `git worktree add` replaced by assumed
ownership: the foreign-target test fails;
- bundle prerequisite check removed: the stale shared clone restore test
fails;
  - archived-row cleanup scan removed: the crash test fails;
- dry run check before interrupted-move recovery removed: the
interrupted-move test fails;
- `git worktree repair` after the forward move removed: both nested
worktree tests fail. The repair after moving back removed: the rollback
test fails;
- nested branch rename forward or back removed: the matching nested test
fails;
  - rollback conflict check removed: the reappearing-file test fails;
  - covered-entry filter removed: the full re-home test fails;
  - shared clone config check removed: the hostile filter test fails;
  - ref budget removed: the many-ref test fails.
- Not run: the full server suite, and the move on a live instance.

## Risks

- Workspace paths change for re-homed workspaces. Agents that resume an
old session can remember the old path. The run's working directory comes
from the updated row, but text in a resumed conversation can still name
the old path.
- The feature is off by default. It runs only with
`PAPERCLIP_ISOLATED_SOURCE_REHOME_ENABLED=true` and git cache expiration
enabled. Dry run is available. The restore change is not behind the
flag: reopening an expired private-clone workspace now uses the shared
clone when one exists.
- A run can start between the last eligibility check and the database
update. The update transaction checks eligibility again, and the old
worktree is deleted only after another check. This is the same window
that git cache expiration accepts.
- Imported restore point objects stay in the shared clone as unreachable
objects after a failed attempt until Git garbage collection removes
them. Base expiration keeps a base with unreachable objects, so this
only delays base expiration.
- A workspace that cannot move (for example `no_shared_base`) is retried
each hour while the feature is on. Each retry runs a few Git commands
for that workspace.
- No migration. No schema change.

## Model Used

Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file editing, Git, test runs).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 18:25:26 -07:00
Nicky Leach 100477e887 Avoid live workspace inspection in task context reads (#17396) 2026-10-23 17:05:06 -07:00
Devin FoleyandPaperclip ec2e0d6407 Share one clone across nested project repository checkouts (#17382)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A project can attach extra repositories, and every task worktree
gets a managed checkout of each one under
`.paperclip-repositories/<name>`
> - Each of these nested checkouts is a full clone. The clone uses
`--dissociate`, so no objects are shared between tasks
> - On one instance, 44 task worktrees held nested checkouts of the same
repository: 24 GB of 27 GB of worktrees. Each new task added about 0.5
GB, and the disk filled twice in one day
> - Main task worktrees already avoid this, because they are git
worktrees of one managed project clone
> - This pull request makes nested checkouts git worktrees of one shared
clone per project and repository, and adapts expiration, restore points,
restore and cleanup to them without weaker safety checks
> - The benefit is that repository objects are stored once, and a new
task adds only its working files

## Linked Issues or Issue Description

No public issue exists. This is the in-PR bug report.

**What happened?**
Every task in a project with extra repositories got a full, independent
clone of each extra repository under `.paperclip-repositories/`. On one
instance this used 24 GB of 27 GB of task worktrees (16 GB of it `.git`
data) and filled the disk twice in one day.

**Expected behavior**
Nested checkouts of the same repository share one object store, like
main task worktrees share the managed project clone. Disk use per new
task is only its working files.

**Steps to reproduce**
1. Create a project with a primary repository and a second repository
that has a repository URL and no local folder.
2. Run several tasks in isolated git worktrees in that project.
3. Look at `<task worktree>/.paperclip-repositories/<name>/.git`: each
one is a full directory with its own copy of every object.

**Paperclip version or commit:** `master` at ff835a3fc6.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

Related: #15662 (SSH restores skip nested worktrees) touches a different
path; this PR does not change adapter sync.

## What Changed

- New `server/src/services/nested-repository-worktrees.ts`. It finds the
shared clone (the managed project checkout for the repository URL, from
`ensureManagedProjectWorkspace`), adds nested worktrees, restores them,
removes their registrations, and serializes all of these operations and
fetches per shared clone with an in-process lock.
- `prepareProjectRepositoryWorkspaces` takes a `sharedBase` (company and
project). For a repository without a configured local folder, it fetches
the shared clone and adds a worktree at the same
`.paperclip-repositories/<name>-<key>` path. Each worktree gets its own
branch `paperclip/<id>/<branch>` that tracks `origin/<branch>` (`<id>`
derives from the worktree path), or a detached HEAD for a tag or commit
ref. An existing worktree must belong to the project's shared clone.
Configured local-folder copies and existing standalone clones are
unchanged. Moving a worktree to `detached-repositories` repairs its
registration. Heartbeat preparation and fresh-start reopening pass
`sharedBase`.
- `assertReproducibleManagedCheckout` and `provenManagedCheckoutHistory`
accept worktree-backed checkouts. They verify the worktree link, its
admin directory, the shared clone identity and origin, and that HEAD is
detached or on a branch under the worktree's own prefix. History checks
scope to HEAD, the per-worktree HEAD reflog, ORIG_HEAD and the owned
branches with their reflogs. Other tasks' branches are not inspected.
Stashes, unsupported refs and custom config in the shared clone still
block. The upstream proof reads objects from the common git directory.
- Restoration contents record `worktree: { base, admin }` for a
worktree-backed checkout. Validation checks its shape and the owned
branch name, and every use checks the base against the project's
expected clone paths.
- Expiration locks for a worktree-backed checkout sit in the shared
clone (`.git/worktrees/<admin>/index.lock`, `HEAD.lock`, and the owned
branch ref lock). `gitCacheExpirationLockLocations` is now async.
- `finishGitCacheTrash` removes the expired worktree's registration and
deletes its owned branch only at the recorded commit.
- `restoreGitWorkspaceContents` recreates a worktree-backed checkout
from the shared clone, and clones the shared clone again if it is gone.
It imports the restore point into the shared clone, adds the worktree on
the saved branch and commit, writes reflog-only commits back into the
new HEAD reflog, and applies the restore point.
- `cleanupExecutionWorkspaceArtifacts` (terminal reaper archival, close
and delete) collects the task's nested worktrees first. After the task
directory is gone, it removes their registrations and deletes owned
branches only when every commit is on a remote-tracking ref. An unpushed
branch stays in the shared clone.
- Review follow-ups. Owned branches always track origin, including names
with dots, and the config check accepts their tracking keys. A ref held
by a retained detached checkout gets `paperclip/<id>/r<n>/<branch>`.
Restore derives the upstream from the saved source ref. Each new
worktree fetches with `--prune`, refreshes `origin/HEAD` when no ref is
configured, and strips `refs/heads/` from branch refs. Git commands on
the shared clone run with hooks disabled. The worktree `gitdir` pointer
is read through a bounded, non-following, non-blocking handle, and more
than 64 owned branches stop the proof before reflog reads.
- Docs: new "Nested project repository worktrees" section in
`doc/recoverable-disk-cleanup.md`, and updates in `doc/DEVELOPING.md`.

## Verification

- `pnpm -r --filter "./packages/**" build`, then `pnpm run typecheck` in
`server/`: passes.
- `pnpm exec vitest run` in `server/` for `git-workspace-expiration`,
`git-reproducible-managed-checkouts`, `git-workspace-contents`,
`git-restore-point*`, `heartbeat-project-repositories`,
`execution-workspaces-service`, `execution-workspaces-routes`,
`execution-workspace-compaction`, `workspace-compaction`,
`heartbeat-git-restore-point-resume`, `managed-repository-checkout`,
`task-workspace-repositories*`, `native-workspace-sync*`,
`heartbeat-managed-clone-credentials`,
`services/heartbeat/workspace-preparation`,
`project-repositories-persistence`, `git-workspace-base-storage`,
`agent-directory-probe`, `workspace-runtime`,
`workspace-preparation-history` and `native-completion-feedback`: 866
passed, 2 failed. The 2 failures are in `workspace-runtime.test.ts`
(`rejects explicit main on a master-only remote...` and `does not
diagnose a missing remote branch...`). They fail the same way on
unmodified `master` on this machine.
- New tests (embedded Postgres, real git repositories) in
`git-workspace-expiration.test.ts`, section "nested checkouts as
worktrees of a shared base":
- Two tasks get worktrees of one shared clone. `--git-common-dir` points
to it, each task has a distinct `paperclip/<id>/main` branch, upstream
is `origin/main` and the remote is the repository URL.
- Concurrent preparation of three tasks succeeds, and preparation waits
while the shared clone lock is held.
- A legacy standalone clone is still adopted, and no shared clone is
created for it.
- Expiring a clean nested worktree removes only its registration and
branch. The sibling worktree and branch stay. Reopening recreates the
worktree from the shared clone on the same branch and commit, with its
local settings.
  - Reopening clones a deleted shared clone again.
- Unpushed commits and uncommitted files block plain expiration, are
saved in a restore point and are restored exactly.
- Reflog-only history is saved and written back into the restored HEAD
reflog, and it survives `gc --prune=now` of the shared clone.
- Stashes, a checked-out branch outside the worktree's prefix, and
unpushed owned branches or owned reflog entries outside HEAD history
block expiration.
- Another task's unpushed branch does not block, and it stays after
expiration.
- A worktree of a foreign clone at the nested path is rejected by
preparation and by the prover.
- Expiration locks in the shared clone are recovered after a process
exit.
- Deleting a task removes only its nested registrations, keeps its
unpushed branch and deletes the sibling's pushed branch when the sibling
is deleted.
- Follow-up tests: dotted branch tracking, a ref switched away and back
with a retained checkout, a changed remote default branch, a renumbered
branch restored next to a same-named remote branch, a fully qualified
branch ref after the remote advances, a branch deleted upstream, planted
`post-checkout` and `reference-transaction` hooks, more than 64 owned
branches, and a FIFO, oversized or symlinked `gitdir` pointer. Each fix
was mutation-checked.
- `heartbeat-project-repositories.test.ts`: a repository-URL-only
sibling is now a worktree of the shared clone on an owned branch, and
its detached copy is still a valid checkout after its repository leaves
the project. In `workspace-preparation.test.ts`, the publication guard
now runs before any worktree exists.
- Mutation checks. I reverted one guard at a time and confirmed that a
test fails: the owned-HEAD check, the owned-branch check in restore
point mode, the owned-reflog check, the shared-clone identity check, the
pushed-only branch deletion on cleanup, the cleanup release hook, the
registration removal on expiration, the reflog-only history write-back
on restore, and the shared clone lock. The owned-branch-tip check alone
is also covered by the owned-reflog check, so removing only one of the
two keeps the tests green.
- Not run: the full server test suite, the UI and e2e suites, and a live
instance migration.

## Risks

- Behavior change for agents: a nested checkout of a URL-only repository
is now on `paperclip/<id>/<branch>`, not `<branch>`. `git pull` and `git
status` work as before. A plain `git push` now fails because the branch
names differ. Agents must push with an explicit destination, for example
`git push origin HEAD:<branch>`. Branches in the shared clone are
visible to all tasks of the project, like main task worktree branches.
- Agent-created branches outside the worktree's prefix, stashes, and
local config live in the shared clone. Stashes and custom config block
expiration of every worktree of that clone (fail-closed). Other branches
stay in the shared clone after a task is deleted.
- The shared clone is the managed project checkout for that repository
URL. Fetches into it update its remote-tracking refs. A concurrent
restore point capture of a sibling can then roll back and retry on the
next sweep.
- The base lock is per process. Across processes, git's own ref and
index locks apply.
- No migration in this PR. Existing standalone nested clones keep their
disk use until their tasks are removed or expired. A safe migration
helper is a follow-up. Task repositories (`task-repo-*`) and configured
local-folder copies stay standalone clones.
- Restoration recipes now can carry `contents.checkouts[].worktree`. An
older server rejects such a recipe as invalid (fail-closed) and does not
restore without it.

## Model Used

Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file editing, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 16:05:13 -07:00
Devin FoleyandPaperclip 4660b22f6b perf: narrow run bindings during event ingestion (#17378)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Agent runs append native events and retry-exhaustion receipts.
> - These writes lock the run row and verify its company and agent
bindings.
> - The binding check fetched the full run, including prompts,
configuration, and output.
> - This pull request reads only the two fields that the check uses.
> - The benefit is less database transfer while the same row lock
protects sequence allocation and replay checks.

## Linked Issues or Issue Description

Related: #17355 and #17348 reduce other run-read payloads. GitHub
searches for event-read and narrow-run PRs found no duplicate of this
event-ingestion change.

**What existing behavior does this improve?**

The run binding read during native event and retry-exhaustion ingestion.

**Current behavior**

The transaction uses a full-row `SELECT ... FOR UPDATE` to check only
`companyId` and `agentId`. Large run context, runner configuration, and
output cross the database connection for each such check.

**Proposed behavior**

Select only the company and agent IDs. Keep the same run ID predicate,
row lock, transaction, sequence allocator, replay cursor, and binding
checks.

**Reason and benefit**

The check does not use the other fields. Narrowing the query removes
that repeated transfer without a cache or an authorization change.

**Breaking changes**

None. No API response, schema, event, or scheduling changes.

## What Changed

- Narrow the existing run-row read inside `appendHeartbeatRunEvent`. The
event service continues to own its transaction and binding validation.
- Exercise native and retry-exhaustion writes and replays with large
stored payloads. Record the executed SQL to prove the lock reads only
the two binding fields.
- Extend missing-run and company/agent mismatch coverage to both
transaction paths. Keep the existing concurrent-writer and rollback
tests.
- Document the read boundary.

## Verification

- Focused PostgreSQL event append and sequencing suites: 9 tests passed.
They include concurrent writers, replay conflicts, rollback, cursor
checks, large payloads, and company/agent/missing-run denials.
- The first new retry-exhaustion fixture failed its duplicate assertion
because it omitted the exhaustion fields from the event payload. The
existing producer contract stores those fields in the payload. The
fixture now does the same; the rerun passed. No production retry or
replay logic changed.
- `pnpm build`: passed.
- `pnpm -r typecheck`: passed.
- Greptile Apex: 5/5 on `76a6d3ee813ae47919b1ec8e8b88e01e58d5655d`,
clean check and no review threads. The [full PR
workflow](https://github.com/paperclipai/paperclip/actions/runs/40028758665)
passed on that exact head: 54 checks passed and two conditional checks
were skipped. The branch is conflict-free.
- The full local all-in-one suite is not repeated for this follow-up.
Full exact-head CI will supply the broader suite coverage.
- No hosted deployment or bill reduction is claimed for this follow-up.

## Risks

- Low scope: only the selected columns change. The `FOR UPDATE` lock,
transaction boundaries, sequence reservation, duplicate checks, and
failure handling remain in place.
- Native replay and legacy event writers must still serialize on the
same row. Existing real PostgreSQL concurrency tests cover that
boundary.
- No migration, provider change, new timer, or operator configuration is
required.

## Model Used

OpenAI Codex (GPT-6 family), with code execution and repository tools.
The runtime does not expose the exact model ID or context window.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` OR (b) described the issue in-PR following the relevant issue
template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass (focused suites above)
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 15:09:29 -07:00
Devin FoleyandPaperclip dfe7df0015 fix(native): expire settled native workspace sync folders (#17358)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Native runs sync their workspace with a remote sandbox through a
per-run folder under `<instance>/native-workspace-sync/<run>/`
> - The folder holds a descriptor, a manifest, and workspace and git
seed archives, and a seed can be more than a gigabyte
> - Only a few finalization commit paths delete the folder, so many runs
leave it on disk forever
> - Instance disks fill up with folders that no code will read again
> - This pull request adds a bounded, deadline-driven retention worker
that removes a folder only when no reader can still need it
> - The benefit is that instance disks stop growing with stale sync
folders, and recovery and export paths keep their files

## Linked Issues or Issue Description

**What happened?**

`cleanupNativeWorkspaceSync(runId)` is the only code that deletes
`native-workspace-sync/<run>/`. It runs only when finalization commits
through specific paths. Runs that end in `terminal_failure`, retained
recovery, reconstruction, superseded runs, commits through other paths,
and server crashes leave the folder forever. On one instance, 22 folders
older than 7 days held 6.8 GB. Single seed archives were up to 1.4 GB.

**Expected behavior**

A run's sync folder is removed after a retention window, once the run
and its finalization are settled and no recovery or export path can
still read it. The shared `generations` seed cache stays.

**Steps to reproduce**

1. Run a native agent with a remote sandbox and let the run end in
`terminal_failure` (or crash the server during finalization).
2. Wait more than 7 days.
3. Look in `<instance>/native-workspace-sync/`. The run's folder and its
seed archives are still there.

**Paperclip version or commit**

`master` at 837add0caa

**Deployment mode**

Any deployment that runs native agents with remote sandboxes.

**Agent adapter(s) involved**

Native runtime with remote sandbox workspace sync (for example Codex on
Daytona).

## What Changed

- Added
`server/src/services/native-runtime/native-workspace-sync-retention.ts`.
It removes `native-workspace-sync/<name>/` when `<name>` is a UUID, the
entry is a real directory, its newest file is older than the window, and
one of these holds:
  - no `heartbeat_runs` row has that id (orphan);
- the run has no valid `nativeWorkspaceSync` reference and is settled:
terminal status, `finished_at` before the window, no live recorded
process (see below), no live controller lease, no
`nativeWorkspaceFinalizationOwner` receipt;
- the run is settled as above, its `native_run_finalizations` row (if
any) has no `lease_owner` and no `next_attempt_at` and is `committed`
(any recovery state) or `terminal_failure` with no or `blocked` recovery
state, no active/escalated export-cause or owner-unverified recovery
action names it, no lease carries `nativeWorkspaceExportResume` or
`pendingCleanupInFlight`, retained recovery cannot still use it
(referenced lease destroyed, or no scheduled/running/awaiting_evidence
system recovery and no queued/recovering workspace recovery), and
historical recovery adoption (`adoptHistoricalWorkspaceRecoveries`) has
no pending candidate for it.
- Each folder is decided in one transaction that holds
`pg_try_advisory_xact_lock` on the run's finalization ownership key. The
rule is evaluated while the lock is held. A held lock skips the folder.
The folder is renamed to `.expired-<uuid>` in that transaction and
deleted after commit. The next sweep removes leftover `.expired-*`
folders. `generations`, non-UUID names, symlinks and files are never
touched. Each tick tries at most 50 leftovers, then checks at most 200
folders and removes at most 50. Leftovers and folders each continue from
their own cursor, so undeletable leftovers do not block run folders. A
leftover that cannot be deleted schedules the 15-minute retry. Deadline
discovery reads run state 200 IDs at a time and stops when asked to. It
supports dry run and `shouldContinue`.
- A recorded `process_pid` / `process_group_id` blocks removal only
while it can still be the run's own process. This reuses the rule from
`conversation-continuation.ts`: PIDs are ignored when every lease of the
run is remote (they are sandbox PIDs), and a local PID or process group
blocks only while it exists on this host and its start time matches
`process_started_at`. An unreadable start time keeps the folder. A
recycled PID does not.
- Separate finding, not changed here: native runs do not clear
`process_pid` when they finish. It is cleared only by the status
arbiter's `release_run_resources` effect (cancellations and commits) and
by the recovery paths. A failed run gets a `schedule_retry` effect
instead, so its PID stays set. For remote targets the stored value is
the sandbox PID. Other readers already treat these PIDs as liveness
hints only, so this PR does not change that write path.
- Exported `nativeWorkspaceFinalizationLockKey` from
`native-workspace-finalization-ownership.ts` and used it in
`withNativeWorkspaceFinalizationOwnership` and the retention worker, so
both use the same key derivation.
- Exported `nativeWorkspaceSyncStateRoot()` from
`native-workspace-sync.ts`; `descriptorDirectory` now uses it.
- Registered the worker on the shared delivery-work coordinator
(`DELIVERY_QUEUES.nativeWorkspaceSyncRetention`) in
`server/src/index.ts`, next to the git restore point worker. It follows
`rules/sleep-aware-background-work.mdc`: no interval. It runs at startup
and at real deadlines: the earliest settled run's finish (or an orphan's
newest file) plus the window; a recheck one window later for folders it
kept; and a 15-minute retry after a failure or a held lock. With no
folders, `nextRunAt` is `null`. The run folder is now created through
one helper in `native-workspace-sync.ts` that notifies process-local
listeners; the worker wakes on that signal only while it has no
deadline, because any scheduled deadline is never later than a new
folder's own deadline. `index.ts` unsubscribes the listener on shutdown.
It pauses passive maintenance during idle drain.
- Added `PAPERCLIP_NATIVE_WORKSPACE_SYNC_RETENTION_ENABLED` (default on
unless `false`), `PAPERCLIP_NATIVE_WORKSPACE_SYNC_RETENTION_DRY_RUN`
(default off) and `PAPERCLIP_NATIVE_WORKSPACE_SYNC_RETENTION_DAYS`
(default `7`, minimum `1`) in `server/src/config.ts`. Documented them in
`doc/DEVELOPING.md` and added a "Native workspace sync folders" section
to `doc/recoverable-disk-cleanup.md`.

## Verification

- `pnpm exec vitest run
src/__tests__/native-workspace-sync-retention.test.ts
src/__tests__/native-workspace-sync-retention-config.test.ts` in
`server/`: 62 tests pass. They cover:
- deletes a settled committed run (also with a left-over
`resuming_session` recovery state), a blocked `terminal_failure` with no
recovery owner, an orphan, and an unreferenced settled run;
- keeps runs whose local process or process group is still alive, or
whose live process start time cannot be read; keeps a running run with a
PID; deletes terminal runs whose recorded local process exited, whose
PID was recycled, or whose PID came from a destroyed sandbox;
- keeps recent files, recently finished runs, unsettled runs, a live
controller lease, an owner receipt, `observed` and `retryable_failure`
phases, a live `lease_owner`, a scheduled `next_attempt_at`, and each
non-blocked recovery state on `terminal_failure`;
- keeps runs with an open export-cause or owner-unverified recovery
action, `nativeWorkspaceExportResume` or `pendingCleanupInFlight` lease
metadata, retained recovery in flight on a lease that was not destroyed,
or pending historical recovery adoption; deletes when the retained lease
was destroyed;
- never touches `generations`, non-UUID names, symlinks or files; dry
run deletes nothing; leftover `.expired-*` folders are removed; an
advisory lock held by another transaction makes it skip; ticks are
bounded and resume from a cursor;
- `nextDeadlineAt` returns `null` with no folders, now with leftovers,
the settled finish plus the window, the orphan mtime plus the window,
and one window later for kept folders; the registered worker goes quiet
with no folders, retries after a held lock or an undeletable leftover,
and the real delivery-work coordinator wakes again when the real
producer (`writeDescriptor`) creates a run folder; leftover removal is
bounded and undeletable leftovers do not block run folders.
- Mutation checks: I removed each guard one at a time (advisory lock,
owner receipt, process pid, finished_at window, lease owner, next
attempt, phase, recovery state, export recovery, owner-unverified,
export resume, retained recovery, backfill pending,
symlink/real-directory check, dry run, and both mtime checks together,
plus the folder-creation wake, the process liveness rule (restoring the
old `process_pid IS NULL` rule, the sandbox exemption, the process group
check, the recycled-PID check, the unreadable start time), the leftover
batch limit, the leftover cursor and the leftover retry delay). Each
mutation made at least one test fail. I restored the code after each
one. Removing only the first mtime check does not fail a test, because
the second check inside the transaction still keeps the folder.
- `pnpm exec vitest run` on related suites in `server/`:
`native-workspace-sync.test.ts`,
`native-workspace-sync-history.test.ts`,
`native-workspace-finalizer.test.ts`,
`native-workspace-finalizer-failure.test.ts`,
`native-harness-backup-expiration*.test.ts`,
`git-restore-point-ledger*.test.ts`,
`delivery-work-coordinator.test.ts`, `chat-delivery-work.test.ts`. All
pass.
- `pnpm run typecheck` in `server/` passes.
- Greptile review: earlier rounds; all findings fixed with tests; final
score 5/5 with no open threads.
- Not run: the full server test suite and an end-to-end run against a
real instance. I did not measure disk savings on a live instance.

## Risks

- Deleting a folder that a reader still needs would make that path fall
back or fail. Same-run resume and export run under the finalization
ownership lock or before the run settles, and the worker checks the rule
while it holds the same lock. Retained workspace recovery already
handles a missing folder (ENOENT) by snapshotting the sandbox. The rule
keeps the folder for every in-flight or reopenable recovery state listed
above.
- A committed finalization row with a stale recovery state and no lease
owner is treated as settled. Nothing reads the recovery state of
committed rows.
- The worker is on by default. Operators can set
`PAPERCLIP_NATIVE_WORKSPACE_SYNC_RETENTION_DRY_RUN=true` first to see
candidates in the log, or turn it off with
`PAPERCLIP_NATIVE_WORKSPACE_SYNC_RETENTION_ENABLED=false`.
- The first sweep on a large instance does more filesystem work. It is
bounded to 200 folders checked and 50 removed per tick.
- The folder-creation wake is process-local. A folder created by another
server process sharing the same instance directory is picked up at the
next deadline or restart.
- A stale `process_pid` no longer blocks removal. If a run's local
process is still alive with its recorded start time, the folder stays.
Live work is also still guarded by the run status, controller lease,
finalization lease and ownership lock checks.
- No schema migration.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, test runs).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 14:05:55 -07:00
Devin FoleyandPaperclip ef9e17304c perf: narrow runtime progress database reads (#17355)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Active runs publish workspace and provider progress.
> - Each update must check the current run status before it publishes.
> - This check fetched the full run, including prompts and runner
configuration.
> - This pull request reads only the four fields that progress
publication uses.
> - The benefit is less database transfer while each update still checks
durable state.

## Linked Issues or Issue Description

Related: #17348 narrows authorization reads. This PR applies a separate
projection to runtime progress. GitHub searches for runtime progress and
run-status read PRs found no duplicate.

**What existing behavior does this improve?**

The database read before a runtime progress update.

**Current behavior**

Each update calls `getRun`. This reads large run context and runner
configuration even though progress publication only uses the run ID,
company ID, agent ID, and status.

**Proposed behavior**

Use a fresh four-column read for each update. Keep the existing
active-status check, event fields, error propagation, and late-progress
suppression.

**Reason and benefit**

Transfer progress can emit many updates for one run. A small status
check avoids repeatedly transferring payloads that it does not use.

**Breaking changes**

None. No API response, schema, scheduling, or cancellation policy
changes.

## What Changed

- Add `getRunStatus` to the run-state owner. The full reader remains
available to consumers that need execution data.
- Wire the narrow reader into the lifecycle progress check. Remove the
unused context field from that check's input contract.
- Cover the exact selected fields, missing runs, database errors, large
stored payloads, terminal transitions, and the public heartbeat service
wiring. Document the read boundary.

## Verification

- Run-state and lifecycle suites: 44 tests passed before the additional
public-service regression.
- Lifecycle, public-service wiring, and native cancellation suites: 36
tests passed.
- `pnpm -r typecheck`: passed.
- `pnpm build`: passed.
- The [full PR
workflow](https://github.com/paperclipai/paperclip/actions/runs/40013092548)
passed on `95bf496f689049812646b5ccddcdf2cca21efad0`. All 54 reported
checks passed; two conditional checks were skipped. This includes test
shards, browser checks, Runner verification, production bundle boot, and
clean npm installation.
- `GIT_CONFIG_COUNT=1 GIT_CONFIG_KEY_0=init.defaultBranch
GIT_CONFIG_VALUE_0=master pnpm test:run`: an additional local all-in-one
run is still in progress; no full-local-pass claim. The process-scoped
Git default matches existing master-only fixtures and does not change
user configuration.
- The initial description check failed because the dedup-search checkbox
was missing. Searches are complete and the template checkbox is now
included. The rerun passed on the same source commit.
- Greptile Apex: 5/5 on `95bf496f689049812646b5ccddcdf2cca21efad0`, no
findings or review threads.
- No hosted deployment or bill reduction is claimed. CI and Apex are
complete; this PR is merge-ready.

## Risks

- Low scope: the query selects fewer columns and preserves the existing
status read on every progress callback. It adds no worker, cache, timer,
or idle query.
- A run can still finish after the status read and before publication,
as it could before this change. This PR does not change that concurrency
boundary.
- No migration or operator configuration is required.

## Model Used

OpenAI Codex (GPT-6 family). The runtime does not expose the exact model
ID or context window.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` OR (b) described the issue in-PR following the relevant issue
template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass (focused suites above; full
suite is still running)
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 12:50:36 -07:00
Devin FoleyandPaperclip f406b32d08 perf: narrow run authorization reads (#17348)
## Thinking Path

> - Paperclip lets people manage and observe AI agents at work.
> - Live events and run history must enforce current task permissions.
> - Some permission checks load the complete run record for each event
or request.
> - Run context, runner configuration, results, and output can make
those records large.
> - This pull request reads only the persisted fields each access check
needs.
> - The checks still read current permissions and fail closed.

## Linked Issues or Issue Description

Related: #17251, #9155, and #16229. Those changes cover other run
projections, recovery polls, and task history. This change covers
live-event delivery, workspace-operation run checks, and event-list
access.

**What happened?**

Live-event delivery loaded every run column for each subscribed viewer,
although the permission helper used only the company, run scope, and
task binding. Workspace-operation checks did the same. The run-event
endpoint also loaded complete run records before returning separate
event rows. Large contexts and runner configurations therefore increased
database transfer for ordinary access checks.

**Expected behavior**

Read only the stored access binding. Keep company checks, permission
freshness, deleted-task tombstones, and response bodies unchanged.

**Steps to reproduce**

1. Create an issue-bound run with large context, runner configuration,
and output fields.
2. Subscribe an authorized viewer to company live events and publish run
updates.
3. Read the run events and a linked workspace operation.
4. Inspect the run SELECT projections. The previous queries load fields
that the access checks do not use.

**Paperclip version or commit**

The defect is present on the current master base, `62c78e56e53`.

**Deployment mode**

Authenticated server with PostgreSQL. The defect is not
adapter-specific.

## What Changed

- Select only company, scope, and issue bindings for live-event and
workspace-operation run authorization.
- Add a four-field run-access read for event-list requests. Reuse those
columns in the existing log-access projection.
- Preserve per-delivery and per-request permission checks, company
predicates, and event responses.
- Add real PostgreSQL and WebSocket coverage with large run fixtures.
Cover grant revocation, grant restoration, deleted tasks, missing and
foreign-company runs, and failed reads.
- Document the bounded access reads in the existing polling-load guide.

## Verification

- Six focused suites pass: 40 tests. They cover the changed paths,
run-state reads, run logs, disconnect retries, and native event replay.
- The new WebSocket test uses the production delivery path and a real
database. It verifies that the selected SQL omits large run fields while
authorization changes take effect on the same open socket.
- The event-route test preserves the returned event content and denies
the next request after grant revocation.
- Local recursive typecheck, full build, and module-boundary checks
pass. [Exact-head
CI](https://github.com/paperclipai/paperclip/actions/runs/39997370119)
completed successfully, covering the full grouped unit suites,
typecheck, build/runtime boot, and E2E shards. The separate serial local
`pnpm test:run` is still running and is not claimed as completed.
- A later CI shard failed an unchanged email test expecting exactly one
task after permission grants. The unchanged-base test passes at normal
speed; adding only a 2.2-second pause before granting access reproduces
the extra tasks because previously denied deliveries become due for
retry. No email code or assertions are changed in this PR. The original
failure is retained. The single shard rerun passed: 92 suites and 1,489
tests passed, with one suite and two tests skipped by the existing
gates.
- CI initially found a route-test double missing the new access helper.
The follow-up fixes that fixture and adds event reads to malformed-ID
and missing/cross-company checks. All 122 tests across the four
changed-path suites pass; a final rerun of the expanded route suite
passes all 92 tests.
- The first CI run also timed out in the signoff changes-requested
handoff while waiting for a reviewer run after a cancelled execution
blocker. The focused test passes locally on this source. The same
focused test passes three times on unchanged master. Controller-lease
cancellation messages appear on both versions. The original CI timeout
is preserved as an intermittent, unreproduced failure; its exact cause
remains unknown. The signoff shard passes in the final exact-head CI
run.
- Initial fresh-checkout tests could not start because workspace SDK
output and native PostgreSQL library links were missing. Dependency
builds and the package's native-link setup corrected those
prerequisites. The subsequent focused run passed.

Focused command:

```sh
pnpm --filter @paperclipai/server exec vitest run src/__tests__/live-events-run-read.test.ts src/__tests__/heartbeat-run-privacy-routes.test.ts src/services/heartbeat/run-state.test.ts src/__tests__/native-observer-replay.test.ts src/__tests__/heartbeat-run-log.test.ts src/__tests__/heartbeat-run-privacy-disconnect-retry.test.ts
```

## Risks

- A missing access field could cause an incorrect allow or denial. Tests
exercise current grants, revocation, company scope, and deleted-task
bindings through the real consumers.
- No successful permission decision is cached. Every delivery and
request still checks current database state.
- No schema, migration, polling interval, API response, or deployment
configuration changes are included.
- This reduces bytes for the affected reads. It does not establish a
whole-account savings percentage. Hosted transfer measurements remain
separate validation after staging deployment.

## Model Used

OpenAI Codex, a GPT-6 based coding agent, used repository tools, code
execution, and database-backed tests. The session does not expose the
exact backend model identifier or context-window size; those values are
not guessed.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-23 11:01:06 -07:00
Devin FoleyandPaperclip 5ef783d971 feat: expire idle open issues' worktrees with restore points (#17271)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - #17248 and #17257 let git cache expiration remove a closed issue
tree's worktree after saving an encrypted restore point
> - Issues that stay open but go untouched for weeks still keep their
worktrees forever, so disks keep filling
> - This pull request expires those idle worktrees the same way, and has
the next run restore its workspace automatically
> - The benefit is bounded disk use for stalled open work, with nothing
lost when work resumes

## Linked Issues or Issue Description

Refs #17248, #17257. Bug report described in-PR (bug report template).

**What happened?**
With restore points enabled, expiration only considers worktrees whose
whole issue tree has been `done` or `cancelled` for a while. A worktree
whose issue stays `todo`, `in_progress`, `blocked` or `in_review` with
no activity for weeks is never removed.

**Expected behavior**
An open issue's worktree that has been idle long enough is saved to a
restore point and removed, and the next run on that issue gets it back
exactly.

**Steps to reproduce**
1. Enable git cache expiration and restore points.
2. Leave an issue open with an isolated worktree and no activity for
weeks.
3. The worktree is never removed.

**Paperclip version or commit:** `master` at 650581b2f0.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

**Expiration** (`git-workspace-expiration.ts`):
- `isGitWorkspaceExpirationEligible(..., idleCutoff)`: in idle mode the
closed-tree conditions are replaced by idle ones. No issue in the tree,
and no other issue bound to the workspace, was updated after the cutoff,
and no relevant run was created, started or finished after it. Runs of
bound issues now count as relevant runs in both modes. Every other check
stays, including no live run, recovery action, unsettled finalization,
environment lease or running service.
- `gitWorkspaceLastActivityAt` returns the latest of those timestamps,
sharing the same tree and run scope.
- `expireReconstructableGitWorkspace` takes `idleCutoff` and passes it
to all three eligibility checks.

**Reaper** (`execution-workspaces.ts`):
- For an open tree's isolated git worktree, when restore points and git
cache expiration are on and `idleMs` is set, the reaper computes the
idle deadline (last activity + `PAPERCLIP_GIT_RESTORE_POINT_IDLE_DAYS`).
- Before the deadline, it records the deadline, so the next sweep wakes
then. Open trees cause no recurring checks before that.
- At the deadline, it runs expiration with a restore point. A kept
workspace is retried after an hour, like terminal ones.
- An expiration interrupted after archiving (`completed: false`) is
resumed by later sweeps even while the tree is open, with a retry
scheduled until cleanup finishes.

**Runs** (`heartbeat/environment-selection.ts`):
- When a run's issue is bound to a workspace that git cache expiration
removed (archived, `workspaceRemoved`), the run reopens it as the agent
through `reopenClosedIsolatedExecutionWorkspaceForIssue`, with the
restore point applied.
- It then clears the reopen fence, since the live run now holds the
workspace, and continues with the reopened row.
- A failed restore fails the run instead of silently starting a new
workspace.
- Comments and agent updates on the issue already reopened closed
workspaces through the issue routes.

**Config:** `PAPERCLIP_GIT_RESTORE_POINT_IDLE_DAYS` (default `7`, `0`
turns idle expiry off). Docs in `doc/recoverable-disk-cleanup.md` and
`doc/DEVELOPING.md`.

No code comments were added.

## Verification

- `pnpm exec vitest run
src/__tests__/git-restore-point-expiration.test.ts -t "idle open
issues"` (in `server/`): 7 passed, with real repositories and embedded
Postgres.
- **Round trip:** an open issue's worktree, idle for 8 days with unsaved
work, is skipped without idle mode, expires with a restore point in idle
mode, and reopens exactly.
- **Kept:** issue activity 3 days ago, or a run finished 2 days ago,
keeps the worktree.
- **Interrupted:** an idle expiration interrupted after archiving is
finished by the reaper while the issue stays open, and reopens exactly.
- **Shared workspace:** a recent update on another issue bound to the
workspace keeps it, and moves the last activity time.
- **Reaper:** before the deadline the sweep skips the worktree and
schedules exactly that deadline; at the deadline it expires it with an
active restore point. With idle expiry off, nothing is scheduled or
expired.
- `pnpm exec vitest run
src/services/heartbeat/environment-selection.test.ts` (in `server/`): 14
passed. New cases: a run reopens its expired workspace as the agent,
clears the fence with the reopen's generation and binds the reopened
row; a failed restore fails the run; a workspace archived for other
reasons is left alone.
- `pnpm exec vitest run
src/__tests__/heartbeat-git-restore-point-resume.test.ts` (in
`server/`): 1 passed. Assembled heartbeat journey with no mocked
restore: a real worktree with an unpushed commit and uncommitted notes
is idle-expired, a queued run executes, the agent runs in the original
worktree path with the original workspace id, the commit and notes are
back, the workspace is no longer archived with no reopen fence left, and
the issue stays bound. Disabling the run-side reopen fails it.
- `git-restore-point-expiration-config.test.ts`: the default is 7 and
`0` turns it off.
- **Mutation checks:** each of these fails a case:
  - dropping the idle deadline;
  - dropping the idle cutoff;
  - dropping the run activity condition;
  - not failing the run on a failed restore;
  - not re-reading the reopened workspace;
  - not resuming a pending expiration on an open tree;
  - ignoring bound issues' activity.
- `pnpm exec vitest run git-restore-point git-workspace-expiration
git-workspace-contents execution-workspaces
src/services/heartbeat/environment-selection
src/services/heartbeat/workspace-preparation` plus
`heartbeat-git-restore-point-resume` (in `server/`): 312 passed.
- `pnpm run typecheck` (in `server/`): pass.
- Not run: server build and boot smoke.

## Risks

- **Off unless enabled:** requires
`PAPERCLIP_GIT_CACHE_EXPIRATION_ENABLED=true` and
`PAPERCLIP_GIT_RESTORE_POINTS_ENABLED=true`.
`PAPERCLIP_GIT_RESTORE_POINT_IDLE_DAYS=0` keeps restore points for
closed trees only.
- **First run after idle expiry is slower:** it waits for the restore,
about as long as a reopen.
- **Failed restore blocks runs:** a restore that fails closed (for
example a missing restore point) fails each run on that issue until an
operator fixes or rebinds the workspace. This is deliberate, so work is
never silently continued in an empty workspace.
- **Kept idle workspaces are rechecked hourly**, matching the existing
behavior for closed trees that cannot be expired.
- **Retention:** restore points of open trees are not deleted while the
tree stays open, as before.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, tests).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-22 20:02:21 -07:00
Devin FoleyandPaperclip c5ca29dbef fix(claude): prepare compatible sandbox runtimes during onboarding (#17259)
## Thinking Path

> - Paperclip connects agent accounts and prepares their execution
environments.
> - A managed sandbox image can outlive the model defaults shipped by
the app.
> - Claude setup skipped installation whenever a CLI was already on
PATH.
> - The selected model then failed its minimum-version check after
sign-in succeeded.
> - This pull request prepares a compatible private CLI before testing
or running it.
> - Cloud onboarding also stops asking customers to run inaccessible
shell commands.

## Linked Issues or Issue Description

**What happened?**

A new managed Cloud stack completed Claude subscription sign-in. Its
environment test then failed because the snapshot contained Claude Code
2.1.263, while the selected `claude-opus-5-5` model requires 2.1.280.
The screen displayed Manual debug commands that a hosted customer cannot
run.

**Expected behavior**

Paperclip prepares its managed runtime before testing the selected
account. A stale image CLI does not require the customer to upgrade a
server package. Failed preparation still blocks hiring. Cloud does not
display manual shell debugging.

**Steps to reproduce**

1. Start a managed sandbox with Claude Code 2.1.263 on PATH.
2. Connect a Claude subscription and select `claude-opus-5-5` on the CLI
lane.
3. Connect the agent. Installation is skipped because the command
exists, then the version gate blocks the hello test.

**Paperclip version or commit**

Source baseline: `6204239cfc8c3be79fc185cf3f468ebaa0ab1e3e`.

**Deployment mode**

Authenticated managed Cloud with a Daytona named snapshot. The
correction also applies to the default CLI in other managed sandbox
transports.

Related work: Refs #14993 sets model/runtime requirements; Refs #15993
changes native defaults on qualified targets. Neither prepares an
outdated default sandbox CLI on this path. Searches found no open
duplicate.

## What Changed

- Check the actual default CLI against the selected model's existing
minimum version.
- When a sandbox's default command is outdated, install the exact
required npm package into a private versioned workspace prefix. Reuse a
compatible private installation. Keep the image's global CLI intact.
- Verify the private executable and use that same command for the
account hello test and normal CLI runs, with matching command metadata.
Probe effort support after preparing that executable so the chosen
effort is retained. Keep the model, account, engine and permissions
unchanged.
- Return safe preparation checks to environment tests and normal run
logs, distinguishing installation failure causes without returning raw
installer output or credential-bearing URLs.
- Exclude provider and Paperclip credentials from the installer
environment. Preserve the existing failing version gate if installation
or verification cannot succeed. Local, SSH and explicit custom commands
remain operator-managed.
- Hide Manual debug and legacy operator check hints on Cloud and while
deployment metadata is unknown; preserve check messages and details.
Retain self-hosted help and the detailed failed checks. Cloud copy asks
for a retry instead of asking the customer to repair the environment.
- Add subprocess-backed runtime controls, an account-probe regression
and mounted Cloud/self-hosted wizard controls. Update development
guidance and the affected capability maps.

## Verification

- Passed all Claude source suites and the server Claude execution suite
on head `c941ae44c22d8dafec0df033a129e39ce4ebd966`: **412 passed**, one
existing opt-in test skipped. These include the new command/effort
ordering, safe installer diagnostics, environment forwarding and run-log
regressions.
- On final head `0ecae0e9304f495a57524158b3700b8e9bc21cb8`, passed **208
tests** across all 174 mounted onboarding wizard tests and 34 Claude
execution tests. The failure fixture includes the real command-bearing
hint, and execution asserts both metadata command fields agree.
- Passed `pnpm -r typecheck`, `pnpm build`, `pnpm check:token-gates`,
`node scripts/check-maps.mjs` and `git diff --check`. Full typecheck and
build were repeated successfully on final head
`0ecae0e9304f495a57524158b3700b8e9bc21cb8`. [Latest-head
CI](https://github.com/paperclipai/paperclip/actions/runs/39879208694)
is green: 54 checks passed and two skipped, including browser E2E and
serialized database suites.
- The new runtime controls execute real subprocesses with a controlled
installer. They cover an old CLI, an already compatible CLI, failed or
ineffective installation, local/custom commands, and an unknown version.
The probe regression asserts that the hello call uses the private
executable.
- A separate non-root local subprocess check installed the real npm
`@anthropic-ai/claude-code@2.1.280` package. Its private command
reported 2.1.280, the simulated image CLI remained 2.1.263, and a second
preparation reused the private copy. This ran on macOS ARM64. It did not
use a provider account, send a model prompt, or prove live Daytona
behavior.
- Attempted `pnpm test:run`. Embedded PostgreSQL initialization failed
after five attempts on this Mac with `Postgres init script exited with
code null`. The unchanged native-session database cases then failed.
Stopped only that full-suite process tree after recording the repeated
startup failure. No full local-suite pass is claimed; Linux CI must
cover those tests.
- The first new subprocess fixture had a quoting syntax error. It was
corrected before the passing focused runs. The one-off real-package
script first required an ESM extension correction, then passed. Logs
retain both attempts. A new execution assertion initially inspected the
final sandbox cleanup shell instead of the launched command; it now
checks execution metadata. A broader directory selection also picked up
generated `dist` tests whose Markdown fixtures are not copied by the
build (two ENOENT failures). The explicit source-suite run above passes;
no generated-test pass is claimed.
- Apex review: **5/5**, reviewed final head
`0ecae0e9304f495a57524158b3700b8e9bc21cb8`, all five earlier findings
addressed and resolved, no new findings.
- Merge, deployment and a fresh live Cloud subscription test are still
required. No customer account or production runtime was changed by this
branch.

## Risks

- An outdated sandbox needs npm registry access and up to 120 seconds
for one bounded installation attempt. A failed or unverified install
continues to block execution.
- The versioned package uses sandbox workspace storage. Compatible
cached copies avoid repeat installation within that workspace. Existing
runtime cleanup and sandbox lifecycle still apply.
- The compatible version comes from the adapter's existing model-version
contract. This does not add a model fallback or change the selected
execution engine.
- No schema, credential, permission, workflow or lockfile change.

## Model Used

OpenAI Codex, based on GPT-6, assisted with implementation and
verification. The exact serving model ID and context-window limit are
not exposed in this session. Capabilities used: code editing, shell
execution, API inspection and test execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-22 18:44:53 -07:00
Devin FoleyandPaperclip 6d44b80a5e feat: expire closed git worktrees with unsaved work behind restore points (#17248)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Git cache expiration removes a closed issue's worktree only when the
remote can reproduce it exactly
> - Most closed worktrees hold unpushed commits or uncommitted files, so
they are kept forever and disks fill up
> - #17238 added restore points (an encrypted save of exactly what the
remote cannot reproduce) and #17241 added their lifecycle
> - This pull request lets expiration remove those worktrees after
saving a restore point, and restores them exactly when the work resumes
> - The benefit is bounded disk use for closed work without losing
anything a user could need, behind a setting that is off by default

## Linked Issues or Issue Description

Refs #17238, #17241. Bug report described in-PR (bug report template).

**What happened?**
With `PAPERCLIP_GIT_CACHE_EXPIRATION_ENABLED=true` and dry run off, one
instance's last 111 expiration checks removed nothing:

| Skip reason | Checks |
|---|---|
| `dirty_or_untracked_files` | 39 |
| `unpushed_managed_checkout` | 32 |
| `live_or_unresolved_consumer` | 21 |
| `unique_ignored_files` | 9 |
| commit not on the remote | 10 |

Without expiration, the terminal workspace reaper archives only merged,
clean worktrees. Closed issues' worktrees therefore accumulate without
bound.

**Expected behavior**
A closed worktree whose only obstacle is unsaved work can be removed
after that work is saved, and restored exactly if the issue is reopened
or work resumes.

**Steps to reproduce**
1. Close an issue whose worktree has an unpushed commit or an
uncommitted file.
2. Enable git cache expiration with dry run off.
3. The worktree is never removed.

**Paperclip version or commit:** `master` at 12bb7e1976.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

**Expiration** (`server/src/services/git-workspace-expiration.ts`):
- **When it applies:** with `PAPERCLIP_GIT_RESTORE_POINTS_ENABLED=true`
(default `false`), a worktree that fails the reproducibility check for a
relaxable reason is reconsidered once its issue tree has been closed for
`PAPERCLIP_GIT_RESTORE_POINT_TERMINAL_DELAY_DAYS` (default `3`). The
relaxable reasons are uncommitted or untracked files, a commit not on
the remote, reflog or `ORIG_HEAD` history, and ignored `.env` files. A
leftover `COMMIT_EDITMSG` still blocks expiration unless it matches a
commit in the worktree's reflog, because restore points do not save
draft messages.
- **What still blocks:** a relaxed inspection
(`inspectGitCacheRecipeForRestorePoint`) keeps every other check. Nested
managed checkouts, submodules, special git state, local config and other
unique ignored files still prevent expiration.
- **Capture:** inside the existing source and lifecycle locks, a restore
point is captured with the #17238 library against a remote-verified
boundary (the `HEAD` itself, or its merge base with `origin/HEAD`), then
encrypted, uploaded, read back and hash-checked
(`git-restore-point-storage.ts`).
- **Commit before touching disk:** it is activated in the #17241 table
in the same transaction that archives the workspace with a
`paperclip.git-cache-restoration.v2` recipe referencing it, still before
anything on disk is touched.
- **Final check:** under the file locks, the worktree must still match
the captured snapshot (`HEAD`, index, working tree, modes). Otherwise
the existing rollback runs. The rollback now also drops the restore
point reference and returns the recipe to v1, so a later restore can
never apply a stale restore point over the live worktree; the stored
restore point is marked superseded.
- **Failure paths:** the `pending` row is inserted in a transaction that
first registers a `git-restore-points` notification. If the upload or
read-back fails, the row is marked `superseded` so retention deletes any
uploaded object. Nothing is deleted from disk.
- **Encryption key:** restore points are refused
(`restore_point_key_not_durable`) on `s3` storage unless the secrets
master key comes from `PAPERCLIP_SECRETS_MASTER_KEY`.
- **Dry run** reports `restorePoint: true` candidates without storing
anything.

**Restore** (`git-workspace-restoration.ts`, `workspace-runtime.ts`,
`execution-workspaces.ts`):
- **Recipe versions:** `readGitCacheRestoration` and
`savedGitWorkspaceRestoration` accept v1 without a restore point, or v2
with a valid one. Older servers reject v2 instead of restoring the
commit without the saved work.
- **Before the saved commit is needed:** reopening
(`restoreGitCacheBase`) and the runtime path import the bundle when the
saved commit is missing locally.
- **After the worktree is re-added:** the runtime always imports the
bundle, so history-only commits are present again as objects even when
the base was rebuilt (they are not recreated as branches), then applies
the restore point, verifies the result, and records `appliedAt`. Reopen
persists that through a callback, as it already does for saved contents.
- **Never overwriting:** a worktree that already matches is only marked
applied. A worktree that diverged from the saved commit's clean state is
never overwritten; the restore fails closed and can be retried. Missing,
corrupt or expired restore points also fail closed.

**Retention:** the #17241 worker's expiry hook now marks the recipe's
restore point expired before its object is deleted.

**Config and docs:**
- `server/src/config.ts` adds the two settings;
`doc/recoverable-disk-cleanup.md` and `doc/DEVELOPING.md` describe them.
- No code comments were added.

**Not in this PR (follow-ups):**
- workspaces with nested `.paperclip-repositories` checkouts;
- removing idle worktrees of issues that are still open;
- starting a fresh workspace with a warning when a restore point has
expired.

## Verification

- `pnpm exec vitest run
src/__tests__/git-restore-point-expiration.test.ts` (in `server/`): 12
passed, with real repositories and embedded Postgres. The cases:
- **Round trip:** an unpushed commit, staged and unstaged edits of one
file, a deletion, and an untracked file are restored exactly on reopen,
`.env` is dropped, and the restore point is active. Restoring through
the runtime path works the same way, and a later run never re-applies
over newer work.
- **Kept:** a worktree that is not yet due, one with the feature
disabled (today's skip reason), and one whose encryption key is not
durable.
- **Change after capture:** rolls back, keeps the worktree, returns the
recipe to v1 and supersedes the restore point.
- **Missing restore point:** fails closed, keeps the row archived and
unapplied, and fails closed again on retry.
  - **Dry run:** stores nothing.
  - **Reproducible worktrees:** expire as before, with a v1 recipe.
- **History-only commits:** reopen imports them even after they are
pruned from the base.
  - **Draft messages:** a draft commit message keeps the worktree.
- **Upload failure:** a failed upload marks the pending restore point
for cleanup and keeps the worktree.
- **Mutation checks:** each of these fails at least one case:
  - removing the pre-deletion snapshot check;
  - keeping the restore point reference on rollback;
  - removing the runtime apply;
- removing the re-apply guard (the divergence check then fails closed
instead of overwriting);
- skipping the import for a matching worktree, relaxing the draft
message guard, or not marking a failed upload's row.
- `pnpm exec vitest run
src/__tests__/git-restore-point-expiration-config.test.ts`: 5 passed.
- `pnpm exec vitest run git-workspace-expiration git-workspace-contents
git-restore-point workspace-runtime execution-workspaces` (in
`server/`): 529 passed on the first revision. Two
`workspace-runtime.test.ts` cases about remote base refs fail, and they
also fail on unmodified `master` on this machine. After the review
fixes, the expiration, contents, restore point and execution workspace
suites passed again: 222 tests.
- `pnpm run typecheck` (in `server/`): pass.
- The server builds, the runtime bundle builds, and
`scripts/server-boot-smoke.sh node server/dist-runtime/index.mjs`
reaches healthy.

## Risks

- **Off by default:** nothing changes unless both
`PAPERCLIP_GIT_CACHE_EXPIRATION_ENABLED=true` and
`PAPERCLIP_GIT_RESTORE_POINTS_ENABLED=true` are set. Roll out with
`PAPERCLIP_GIT_CACHE_EXPIRATION_DRY_RUN=true` first to see which
worktrees would receive restore points.
- **Data at rest:** restore points contain source and uncommitted files,
encrypted with keys wrapped by the instance secrets key. Losing that key
makes them unrecoverable, which is why `s3` storage requires an
environment-provided key. Untracked `.env` files are not stored.
- **Interrupted apply:** a crash in the middle of applying a restore
point leaves a worktree that neither matches the restore point nor is
clean. The restore then fails closed rather than overwriting it, and an
operator must reset that worktree to retry.
- **Rollback:** disable the setting. Already-expired worktrees keep
their v2 recipes and restore points, so reverting the code would leave
those recipes unreadable until restored by a server with this change.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, tests, local server builds and boots,
read-only measurements on live instances).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-22 16:50:15 -07:00
Dotta 46760cc588 fix(chat): honor dismissal for all composer requests (#17218)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Task conversations show requests in the feed and above the message
composer.
> - Earlier fixes kept dismissed questions in history, but excluded
completion reviews and other request kinds.
> - Closing those forms left a pending badge, and the server could still
demand a response.
> - This pull request saves human dismissal and removes the request from
composer reminders and ordinary completion gates.
> - People can continue the conversation and reopen the request from
history.

## Linked Issues or Issue Description

Related work: #15229 and #15392.

**What happened?**

Dismissing a completion review closed its form but left it counted as
pending. It could return after reload, block a retry, or cause the agent
to demand another response. Raw runtime requests could also lose their
only usable control when dismissed.

**Expected behavior**

Dismissal leaves an accessible request in the feed and clears the
composer form and pending count. It persists after reload. It does not
submit an answer, approve an action, or wake the agent.

**Steps to reproduce**

1. Open a task with a pending completion review or another composer
request.
2. Dismiss the request, then reload the task.
3. Check that the composer stays clear and the feed entry can reopen the
request.

## What Changed

- Add nullable dismissal fields and a human-only dismissal endpoint with
company, private-task access, resolver, and locked review-policy checks.
- Persist saved-request dismissal on the server. Keep browser
persistence for raw runtime requests and existing question dismissals.
- Keep confirmations, choices, item verdicts, suggested tasks, and
runtime requests accessible in the feed.
- Exclude dismissed ordinary requests from completion and retry gates.
Tell agents not to repeat deferred requests.
- Preserve tool, secret, connection, plan, company-policy, and
configured review authorization gates. Expire deferred non-question
requests when their task completes.
- Preserve the selected form when another dismissal finishes saving.
Keep reopened reviews visible through delayed comment refreshes.
- Add a completion-review Storybook test drive and update design, API,
database, and capability documentation.

## Verification

- `pnpm -r typecheck`: passed. The final UI changes also passed the UI
typecheck.
- `pnpm build`: passed. The final UI changes also passed the UI
production build.
- Focused UI and transcript tests: 550 passed across nine files after
merging the current base branch.
- Focused database, completion, and prompt tests: 105 passed across
three files, including two review-policy regressions that failed before
the fix. The tests reject a review requester excluded by current policy,
preserve the pending gate on denial, and permit an independent reviewer
to defer the request.
- Route regression suite: 81 passed, including denial before reading or
mutating a private-task request.
- `pnpm check:token-gates`: passed.
- Map and Storybook structural checks: passed; 30 map/catalog script
tests passed.
- Browser: used the production task-thread components in the
completion-review fixture. Dismissed, reloaded, reopened from the feed,
and dismissed again. No pending badge or composer takeover remained.
Story callbacks simulate API saves; separate server tests cover
persistence and permissions.
- `pnpm test:run`: stopped after the general-server group reported one
failure in `workspace-runtime.test.ts`: "returns a bounded structured
conflict and exposes only same-company workspace references". The same
test passed in isolation (1 passed, 178 skipped). The cause of the
full-suite failure is not established. The full PR CI suite subsequently
passed on e243cbb001; its two authorization review findings are fixed in
9e1b4478b3. Fresh [full
CI](https://github.com/paperclipai/paperclip/actions/runs/39871944846)
passes on 9e1b4478b3, including the previously failing server and
browser shards. All 54 executed checks passed; two optional Storybook
deployment/visual jobs were skipped. The legacy security status also
passed. Fresh Greptile review is 5/5, the security scan passes, and no
review threads remain open. This full CI run settles the merge gate; the
earlier local workspace-suite failure remains recorded above because its
cause was not established.
- Additional verification: the original failing browser journey passed
locally after the delayed-refresh fix. The expanded page-reload case
also passes on 9e1b4478b3 (52.7s): dismiss, reload, reopen, approve, and
receive the actual tool failure in the continuing task. It exposed a
fixture reading an accepted request before tool execution finished; the
fixture now waits for a stored execution result. The first reload
attempt stopped on a still-loading page at the default five-second
assertion; the reload now uses the suite’s navigation allowance. A
controlled server-restart run timed out waiting for server health before
the UI assertions. Local route-suite runs timed out during concurrent
module loading; sequential imports passed all 81 tests, including the
privacy regression.
- Initial verification failures: a missing SDK build and a story fixture
type error were fixed. PostgreSQL bootstrap then failed because the host
had exhausted its semaphore allowance. After explicit operator approval,
64 verified abandoned PostgreSQL semaphore sets were reclaimed; no live
process was stopped. The database regressions then passed. The
raw-runtime regression exposed a missing feed control; the
implementation now preserves that entry and the regression passes.

## Risks

- Apply the additive database migration before the new server code. It
adds two nullable columns and does not change existing decisions.
- A dismissal is shared task attention state. Only a human with task
read access and current resolver/review authority can persist it. Review
policy is checked under the task lock. The operation is idempotent and
records the dismissing user.
- Raw runtime dismissal remains specific to a browser. Saved interaction
dismissal persists across browsers.
- A deferred review is not an approval. Tests retain protected-action
and configured review gates.
- The browser walkthrough uses a fixture. This branch has not been
deployed to a live instance.

## Model Used

OpenAI Codex, GPT-6, with code execution and browser tools. The exact
backend model ID and context-window size are not exposed in this
session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge
2026-10-22 18:37:36 -05:00
Devin FoleyandPaperclip 12bb7e1976 feat: track git workspace restore points and apply their retention (#17241)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Closed issues' git worktrees pile up on disk because they can only
be removed once the remote reproduces them exactly
> - #17238 adds restore points: encrypted saves of the unpushed and
uncommitted parts of a worktree, so the worktree itself can be removed
> - Those saves live in file storage and must be deleted on a schedule,
and promptly when their issue or company is deleted
> - This pull request adds the table that tracks restore points and a
deadline-driven retention worker, with nothing creating restore points
yet
> - The benefit is a reviewable lifecycle foundation before capture is
wired into expiration

## Linked Issues or Issue Description

Refs #17238 (restore point library). Bug report described in-PR (bug
report template).

**What happened?**
Closed issues' worktrees accumulate without bound. For example, one
instance's last 111 git cache expiration checks removed nothing, because
each worktree held unpushed commits or uncommitted files. Restore points
(#17238) will let those worktrees be removed safely. That needs a
durable record of every stored restore point and a retention policy for
deleting them.

**Expected behavior**
- A restore point is kept while its work can still resume.
- It is deleted a fixed time after its issue tree closes.
- It is deleted promptly when its issue or company is deleted.

**Steps to reproduce**
Not applicable on its own: this adds the lifecycle that the capture
integration will use.

**Paperclip version or commit:** `master` at def4726bea.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

**New table `execution_workspace_restore_points`** (migration `0372`,
schema `packages/db/src/schema/execution_workspace_restore_points.ts`):
- **Columns:** storage key, sha256, size, generation, source issue,
`status`, closing time, review/deletion time (`delete_after`), a
`review_generation` counter and last error.
- **Statuses:** `pending`, `active`, `expiring`, `superseded`,
`delete_requested`, `deleted`.
- **No foreign keys:** a row outlives the deletion of its workspace,
issue or company long enough to remove the stored object.
- **Indexes:**
  - the storage key is unique;
  - live generations are unique per workspace;
- an index on status and deadline serves the worker, and a partial index
on active rows' source issue serves the trigger.

**Issue tree trigger** (same migration):
`paperclip_restore_point_tree_changed` runs after an issue's `status` or
`parent_id` changes, and after an issue is deleted. It walks up from the
issue and from its old and new parents (at most 64 levels). For every
active restore point whose source issue is in that set, it makes the row
due now (keeping an earlier due time) and increments
`review_generation`. This happens in the same transaction, so a child's
deletion or move still reaches its former parent's tree.

**New `server/src/services/git-restore-point-ledger.ts`:**
- **`gitRestorePointRetentionService(db, { storage, retentionDays,
beforeExpire })`.** Each `tick` handles only due work, in batches of 50:
- **Review:** an active restore point is checked when its `delete_after`
time arrives. The due check compares against the later of the worker's
clock and the database clock, so a row the trigger just marked is never
skipped. At review:
- **Tree still open:** clear `delete_after`. The trigger marks it due
again on the next relevant issue change, so open trees cause no
recurring checks.
- **Tree `done` or `cancelled`:** expire
`PAPERCLIP_GIT_RESTORE_POINT_RETENTION_DAYS` (default `90`, minimum `1`)
after the tree's latest close. Expiry moves the row to `expiring`, then
runs an optional `beforeExpire` hook, which the capture integration will
use to mark the workspace no longer restorable. Only then does it
request deletion. An `expiring` row's object is never deleted: after a
restart, or if the hook fails, the hook is retried (after 15 minutes
when it failed).
    - **Source issue gone:** delete.
- **Concurrency:** a review result is written only if
`review_generation` is unchanged since the worker read the row. If the
trigger fired in between (for example, the tree closed or reopened), the
write is skipped and the row stays due for the next run. Expiry and
orphan deletion claim the row under the same check before the expiry
hook runs.
- **Abandoned captures:** a `pending` row older than one hour is
deleted.
- **Deletion:** `superseded` and `delete_requested` rows have their
object removed. They become `deleted` only once `headObject` reports the
object gone. Failures, including a local unlink error the provider
swallows, are recorded in `last_error` and retried after 15 minutes.
- **`nextDeadlineAt`** returns the earliest real deadline, or `null`
when nothing is due.
- **`requestRestorePointDeletion(tx, { sourceIssueId } | { companyId
})`** registers a delivery-work notification and marks the matching
`pending`/`active` rows `delete_requested` in the caller's transaction.

**Deletion hooks:**
- `issueService.remove` and `deleteCompany` call
`requestRestorePointDeletion` in their transactions, so a deleted
issue's or company's objects are removed promptly.
- Child issues cannot be deleted with their parent (the parent link
restricts deletion), so each issue removal goes through this hook.

**Scheduling** follows `rules/sleep-aware-background-work.mdc`:
- `registerGitRestorePointWork` registers a `git-restore-points` queue
with the shared delivery-work coordinator.
- The worker keeps no in-memory inputs. Due work is recorded in the
table, by the trigger or by deletion requests. Each run handles it and
schedules only `nextDeadlineAt`, so a failed run loses nothing and is
retried by the coordinator.
- It runs at startup, at real deadlines, and when terminal-workspace
notifications settle after issue changes, but only while restore points
exist. With nothing due, it schedules nothing. A full batch continues
immediately. There is no timer.

**Config and docs:**
- `server/src/config.ts` adds
`PAPERCLIP_GIT_RESTORE_POINT_RETENTION_DAYS`.
- `doc/recoverable-disk-cleanup.md` gains a "Git workspace restore
points" section; `doc/DEVELOPING.md` documents the variable.
- `drizzle-kit generate` pruned `meta/0367_snapshot.json`, following the
repository's snapshot-retention convention.
- No code comments were added.

## Verification

- `pnpm exec vitest run src/__tests__/git-restore-point-ledger.test.ts`
(in `server/`): 26 passed against embedded Postgres, stable across
repeated runs. The cases:
- **Review outcomes:** an open tree clears its deadline and schedules
nothing; a closed tree is scheduled 90 days after its close; a
long-closed tree expires and is deleted; a missing source issue is
deleted.
- **Expiry durability:** a failing hook keeps the row `expiring` with
its object until a retry succeeds; an `expiring` row left by a restart
resumes the hook before deletion; an `expiring` row's object is never
deleted while its hook fails.
- **Trigger:** the last open child closing, a child being deleted, a
child moving to another parent, and the source issue's own status change
all mark the restore point due. Unrelated issues, inactive rows and
already-due rows are untouched. End to end, an open tree's restore point
waits without a deadline, then is scheduled 90 days after its tree
closes.
- **Races:** closing the tree, or reopening it, between the worker's
read and write leaves the row due, and the next run resolves it
correctly. A reopened tree's restore point is not deleted.
- **No rescanning:** 60 retained restore points with future review times
are not evaluated. A backlog of 60 due ones is processed as 50, then 10,
then nothing.
- **Captures and deletion:** abandoned pending rows are deleted while
recent ones are kept; superseded rows are deleted; an object still
present after deletion is not marked deleted; a failed deletion is
retried only after its 15-minute deadline.
- **Deadlines:** the next deadline is correct for each obligation, and
`null` when idle.
- **Deletion hooks:** `issueService.remove` marks only that issue's
restore points, and `deleteCompany` marks all of the company's; the
worker then deletes their objects.
- **Worker:** schedules nothing when idle, and only the next deadline
otherwise; wakes on issue changes only while restore points exist.
- **Mutation checks:** each of these fails at least one case:
  - removing the issue hook or the company hook;
  - making the trigger ignore former parents;
- removing the worker's generation check or the trigger's generation
bump;
- letting storage cleanup delete `expiring` rows, or not resuming the
hook;
  - ignoring open trees;
  - removing the deletion verification;
  - evaluating rows that are not due;
  - dropping the retry deadline.
- `pnpm exec vitest run company-deletion issue-delete issues-service
delivery-work issue-tree` (in `server/`): 190 passed.
- **CI note:** one earlier `Typecheck + Release Registry` run was
cancelled when the GitHub runner received a shutdown signal; it is not a
code failure.
- `pnpm exec vitest run` (in `packages/db`): 211 passed. One run had a
single failure in `issue-comment-derived-attribution-migration.test.ts`,
an older migration's test unrelated to this change. It passed alone and
on the full re-run.
- `pnpm exec vitest run
src/__tests__/git-restore-point-ledger-config.test.ts`: 5 passed.
- `pnpm run check:migrations` (in `packages/db`): numbering and safety
checks pass.
- `pnpm run typecheck` (in `server/`): pass.

## Risks

- **No behavior change today:** nothing creates restore points yet. The
worker runs once at startup, finds no rows and schedules nothing. The
capture integration follows in a separate PR.
- **Trigger cost:** every issue status change, parent change or deletion
now runs a short ancestor walk, plus an `UPDATE` on the new table that
matches only active restore points through a partial index. With no
restore points, the `UPDATE` matches nothing.
- **Missed wakes:** if a wake is ever missed, for example because the
process exits after commit, the due row stays in the table. The worker's
startup run or next deadline processes it.
- **Deletion paths:** issue and company deletion each gain one `UPDATE`
on the new table inside their existing transactions.
- **Migration:** `0372_mature_the_initiative.sql` creates one empty
table, its indexes, and the trigger function with two triggers on
`issues`; nothing is rewritten.
- **Rollback:** revert. The table can stay, since nothing else reads it.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, tests, read-only measurements on live
instances).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-22 15:52:04 -07:00
DottaandPaperclip 734c265339 Default new Pi agents to Paperclip Runner (#17142)
## Thinking Path

> - Paperclip manages AI agents and their work.
> - Users choose a harness during agent setup.
> - Claude, Codex, and OpenCode already receive their qualified Runner
default.
> - Pi has a qualified native integration but new Pi agents still use
the direct adapter.
> - This change gives new Pi agents the native default on supported
targets.
> - Saved agents keep their runner and compatible settings. Legacy
remains available in Advanced.

## Linked Issues or Issue Description

Refs #17120, #14921, #14922, #14923, #14924, and #14956. Related generic
default work: #15422. This PR is the separate Pi follow-up to the merged
OpenCode change.

**Current behavior**

Choosing Pi for a new agent saves the direct Pi adapter. The native Pi
integration remains behind the generic experimental flag.

**Proposed behavior**

Default new Pi agents to ACPX Pi on macOS ARM64/x64 and GNU/Linux x64
with supported glibc. Keep unsupported targets and explicit Legacy
selections on the direct adapter. Require an explicit provider/model
before test or hire. Permit model-free inactive setup drafts.

**Reason and benefit**

Users choose Pi once and receive its qualified runner. Saved agents
retain their identity and settings. Conversions reject unsupported
legacy thinking and launch settings instead of dropping them.

## What Changed

- Add Pi to the shared platform/default contract and server creation
selection.
- Admit native Pi without the generic experimental flag.
- Preserve provider models, credentials, workspace settings, exact
thinking, and saved native policies.
- Add Pi runner controls, branding, setup resume, onboarding, built-in
configuration, and import handling.
- Add managed Pi OpenRouter routing and matching native provider API-key
accounts. Keep subscription and custom gateway exclusions. Clear
alternate credentials and reject custom Pi provider overrides.
- Keep Pi draft models empty instead of applying Claude's default model.
- Verify setup against the pinned Pi runtime. For native Pi on the
official OpenRouter route, reverify the API key live without requiring a
global Legacy Pi CLI.
- Match Pi’s bounded controller close window to its native snapshot
cleanup and lifetime verification, preserving explicit caller deadlines
and the mandatory drain/suspension proof.
- Bind Pi sidecars to the package that owns the pinned native assets,
including source and vendored server layouts. Other providers retain
their existing package authority.
- Keep protocol-owned finish/block tools out of the ACPX forwarded
catalog. The trusted bridge installs these tools itself; the complete
Rust authorization catalog and terminal receipt ledger remain intact.
This fixes actual Pi session startup and applies to other ACPX
consumers.
- Advance Copilot’s shared-source attestation to v58 because it pins the
shared files touched by Pi. Preserve immutable v57 bytes and historical
decoding; Pi’s own release identity is unchanged.
- Add regression coverage and update the paired maps and developer
documentation.

## Verification

- Passed: full repository typecheck and full production build on final
head 656d304783, including the generated attestation repair.
- Passed: focused shared/server/UI suites covering default selection,
platform fallback, conversion preservation, inactive drafts, managed
account compatibility, credential isolation, OpenRouter routing/model
IDs, exact thinking controls, and saved-account selection. Relevant
batches include 375 server/conversion tests, 267 account/routing tests,
and 110 UI setup/account tests.
- Passed: 179 attestation, historical-profile, qualified-profile, and
native-execution contract tests after CI identified stale Copilot source
hashes. The identity generator check passes; the only delta after the
passing Pi browser run is this Copilot attestation/history repair.
- Passed: 145 managed-account tests, including actual service
preparation and API-key adoption/rejection for native Pi without the
Legacy CLI; 6 pinned-installation probe tests.
- Red then green: an actual task failed session.open because its
54-operation catalog included the bridge-owned terminal tools. The
regression with those tools failed before the filter; all 399 Rust
library tests pass after it. The full product retry exposed an
additional package-authority mismatch. Four authority tests failed
before that repair; 11 authority checks and 14 installation/asset checks
pass afterward. Direct real Pi session initialization with the corrected
package root and catalog succeeds. No model prompt was sent by that
diagnostic.
- Red then green: real Pi posted Hello from Pi but its controller closed
before native cleanup could finish. The cleanup-budget test failed with
the old default and passes with the bounded Pi window. All 46 selected
suspension, drain, and package-authority tests pass after building their
native fixture.
- Passed: token gates, paired map checks, Rust formatting, and git diff
--check.
- Passed real browser acceptance on macOS ARM64, generic native runner
flag disabled, source a433748a12 (Pi code unchanged afterward): the UI
selects Paperclip Runner by default, retains Pi and the selected
model/account, and verifies the pinned runtime plus live OpenRouter key.
A fresh UI-created task, assigned to the UI-created native Pi agent,
posted exactly `Hello from Pi` and reached Done without retry or
restart. The native run and workspace finalization succeeded; the
response and Done persisted after Reload.
- Evidence: 8 preserved browser attempts, including the final passing
18-step journey with all screenshots. Prior failures remain recorded.
The earlier failed checkpoint run recovered on server restart; that
recovery is separate from the fresh final task’s clean success.
- Preserved browser failures: missing account control/inherited Claude
draft model; incompatible managed-account/model-prefix handling; generic
npm probe for Pi; Legacy CLI hello check; duplicate terminal tools and
wrong provider-package authority at actual native session.open; a real
Hello from Pi comment followed by premature checkpoint cleanup timeout.
Each failure has retained screenshots/logs and a corresponding focused
repair. The fresh final task proves these repairs end to end.
- The exact Runner Vitest shard was also run locally after the
attestation fix: the stale-hash failure is gone; 1,833 tests passed, 10
skipped, and two Codex retained-control settlement scenarios failed with
`native_cleanup_maintenance_unproven` during terminal ACK/suspension
replay. Both scenarios passed in an isolated rerun (2/2), and the same
19-test file passed in the preceding Linux CI run. The precise
full-shard timing cause is not established. These Codex scenarios are
outside the changed Pi paths; the original local failures are retained;
no complete local Runner-shard pass is claimed. The corresponding Runner
shard now passes on the final head in hosted Linux CI. All 60 final-head
check runs are now terminal and clean (55 successful, 1 neutral, 4
skipped), and the legacy Snyk status is successful.
- Local full repository tests were attempted but not completed:
provisioning briefly confused a workspace symlink, then a later run was
stopped before browser-driven repairs. No full local-suite pass is
claimed. Final-head hosted CI is green and fresh Greptile review is 5/5
with all review threads resolved; earlier jobs canceled by runner
shutdown are not counted as a pass.

## Risks

- Pi cleanup has a finite 45-second default window, accounting for the
native 30-second snapshot cleanup and 5-second lifetime fence. Other
providers and explicit caller deadlines retain their prior behavior.
- Pi requires explicit operator setup with `paperclipai runtime setup
pi` on the execution host. This PR does not add automatic downloads.
- Linux ARM64, Windows, musl, and unqualified targets retain Legacy.
- Legacy thinking levels minimal, medium, and xhigh cannot be translated
exactly. Native max thinking, warm lifecycle, or restricted permissions
cannot be dropped during a return to Legacy.
- Copilot’s bound profile advances to v58 with exact current launch
admission; v57 remains decodable for recovery. No historical identity is
rewritten.
- Existing agents and immutable run descriptors are not migrated. Cloud
Pi availability is unchanged.

## Model Used

OpenAI GPT-6 through Codex with reasoning, code editing, command
execution, and browser use. The exact serving model ID and
context-window size are not exposed in this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-21 17:10:00 -05:00
DottaandPaperclip 39e44a9d9b Default new OpenCode agents to Paperclip Runner (#17120)
Default new OpenCode agents to Paperclip Runner on qualified macOS and Linux x64 targets. Preserve saved runner choices, explicit Legacy selection, and unsupported-target fallback. Pi remains a separate change.

Verified the complete browser path with a real OpenRouter connection: create the new agent, assign a task, observe its response and Done status, and reload to confirm persistence. CI passes and Greptile is 5/5 with no unresolved findings.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-21 15:09:15 -05:00
DottaandPaperclip c6ee96a3df fix: stop idle MCP event polling (#17036)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - MCP task subscriptions and Dot mailboxes notify external clients
when work changes.
> - Their delivery workers queried SQL every two seconds, including when
no work existed.
> - Those queries prevent idle databases from becoming quiet across many
hosted instances.
> - Existing activity, mailbox, subscription, and delivery records
already preserve the work.
> - This pull request uses committed-write signals and saved retry
deadlines to drive delivery.
> - Idle subscriptions become quiet while startup, retry, drain, and
shutdown recovery remain supported.

## Linked Issues or Issue Description

Related sleep migrations: #15625, #17000, #17008. Searched open PRs and
issues for MCP event sleep/polling work; no duplicate found.

**What happened?**

Each public MCP and Dot event service started a two-second interval. It
checked settings, scanned subscriptions, created delivery receipts,
cleaned expired records, and attempted delivery even without changes.

**Expected behavior**

An empty or subscribed-but-idle service produces no recurring SQL or
network traffic. Committed events trigger prompt delivery. Only
unfinished work retains a retry deadline.

**Steps to reproduce**

Configure a public MCP origin and start the server. Observe recurring
settings queries with MCP disabled, or subscription/queue queries with
it enabled. No incoming task changes are required.

**Paperclip version or commit**

Initially inspected master at
`8b4ab65b1c3d863d282752e83307943720a5c85c`; rebased onto `c2daf906d9`
after master advanced. The only conflict was overlapping imports in the
heartbeat queue; both were preserved.

## What Changed

- Register separate MCP and Dot workers with the existing delivery
coordinator. Remove both unconditional intervals.
- Notify from committed activity, comment, mailbox, subscription, and
experimental-settings writes. Centralize comment insertion in one small
helper so normal callers do not manage recovery state.
- Preserve outer transaction ownership, uncertainty reconciliation, and
requests deferred during drain or standby.
- Restore delivery retry/abandoned-claim deadlines on startup. Scan
subscriptions in pages of 20; drain full source and delivery batches
without another external event. Scope subscription refreshes to their
subscription or shared Dot binding, issue activity to its task, comment
discovery to its company, and mailbox/assignment changes to their
binding. Retry deadlines do not rescan unchanged sources.
- Run expired-record cleanup opportunistically. Preserve on-use expiry
checks and the existing one-time automatic Dot challenge behavior.
- Add real PostgreSQL lifecycle coverage and guarded external test
database options for existing MCP/Dot integrations. Document producers
and the supported writer model.

## Verification

- Final head `e54fb34485921016ef988f7df9cca173a9ebdfc8`: all CI checks
passed (55 successful checks/statuses, one neutral review, two
intentionally skipped Storybook checks). Mergeable with no unresolved
review threads. Greptile: 5/5 on this exact commit; security scan
passed.
- All 284 affected tests passed in one local run after rebasing: 16
real-PostgreSQL lifecycle tests, 24 coordinator/scheduler/standby tests,
84 public MCP tests, 54 Dot runner tests, and 106 interaction-service
tests.
- Server TypeScript passed after refreshing generated Runner/plugin SDK
dependencies from master. Full workspace typecheck and build passed
before the rebase; final CI repeated typecheck and build successfully on
the rebased head.
- Coverage includes SQL/network quiet with configuration and history,
committed writes, outer commit/rollback, drain/standby, retry
restoration, reenable/unsubscribe, concurrent writes, shutdown,
source/delivery/subscription batch boundaries, Dot challenges and
reconnects, native broker fences, comment discovery, and
company-isolated scans.
- CI exposed an existing lock-order test whose insert proxy missed
nested transactions and waited indefinitely. The fixture now observes
nested inserts, preserves the lock assertion, and fails explicitly if
interception is missed. The complete 106-test interaction suite and the
formerly hanging CI shard pass. The warm-standby/settings test doubles
were also updated for the new coordinator/transaction boundaries.
- Earlier fixture failures (required timestamps, cleanup, external
database selection, async waits) were corrected. One existing OAuth
first-poll timing assertion and one E2E company-cleanup race passed on
single reruns; the final full CI run passed without a rerun. No OAuth or
company-deletion behavior was changed.
- The local full `pnpm test:run` attempt could not initialize embedded
PostgreSQL after five attempts. It was stopped; affected integrations
were verified with separate disposable PostgreSQL 17 databases, and
final CI supplied the full-suite result. Embedded-only local skips are
not counted as passes.

## Risks

- Notifications use one live server/database scope. Independent SQL
writers and separate live replicas do not trigger these process-local
workers. Startup recovers durable state; continuous multi-writer
discovery needs a notification/ingress contract.
- Idle physical cleanup waits for startup or another enabled sweep.
Subscription and authorization expiry remain enforced on use.
- Existing delivery claims, retry bounds, signatures, and receipt
deduplication remain in place. No new tables or migrations.
- Host sleep-safety checks remain conservative. MCP/Dot retry deadlines
are not yet covered by Paperclip Cloud's scheduled-wake contract. This
proves worker quiet, not deployed host suspension or fleet savings.

## Model Used

OpenAI Codex (GPT-6), with reasoning, local code execution, and tool
use. The runtime does not expose a more specific model version or
context-window size.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-21 07:55:09 -05:00
DottaandPaperclip 30b753f614 perf(budgets): scope accounting and deliver enforcement asynchronously (#17046)
## Thinking Path

> - Paperclip manages AI agents and their paid work.
> - Budgets must prevent new work and stop reported overruns.
> - Cost settlement also ran serial lifecycle reconciliation for every
eligible company agent.
> - That made request latency grow with unrelated idle agents and
delayed results on stop delivery.
> - This change separates atomic admission and accounting from durable
asynchronous enforcement.
> - Scoped live usage detects overruns without writing provisional
ledger charges.
> - The result is constant query scope for ordinary settlement and
recoverable stop delivery.

## Linked Issues or Issue Description

**What happened?**

Settlement and budget checks entered company-wide lifecycle
reconciliation. A company with 1,000 unrelated idle agents performed
1,001 accounting transactions for one ordinary cost evaluation. User
requests could also wait for provider termination. Running usage
checkpoints did not enforce reported monetary exposure.

**Expected behavior**

Keep the final reservation gate authoritative. Commit charges, scope
blocks, and enforcement intent before returning. Deliver stop requests
after commit. Read only applicable policies and execution scopes for
ordinary charges. Stop long-running work when supported reported or
priced usage establishes an overrun.

**Steps to reproduce**

1. Create a disposable company with one company budget and idle agents.
2. Evaluate a charge below the budget with 0, 17, and 1,000 unrelated
idle agents.
3. Compare query counts, company accounting transactions, and duration.
4. Use the controlled partial-usage and delayed-stop fixtures to check
enforcement and request responsiveness.

**Paperclip version or commit**

The measured baseline is `6c9b87d0922f1ebfc43e8b0c36889ac5ba7b9837` from
`master`.

Related public work: Refs #16976, #2006, #3539, #13763, #14296, #16853,
#13075. These cover the affected service charge, cancellation, and
accounting paths. This change removes their shared reconciliation
overhead.

## What Changed

- Batch applicable policy exposure under the existing company accounting
lock. Preserve exact fractional money and zero-reservation dispatch
fences.
- Commit a durable final budget dispatch claim before provider I/O.
Retain a separate final issue/run ownership transaction through
synchronous handoff, without holding the company accounting lock or
awaiting provider work. Preserve native recovery lease checks and
duplicate handoff fencing. Browser handoff rechecks current policy; it
reuses a consumed rate slot only for the identical policy generation.
- Separate ledger spend, live observed spend, and effective held
capacity. Use the maximum of reservation and live observation for each
unfinished operation.
- Deliver budget cancellation through the existing coordinator.
Revalidate generations and persist queued/running stop fences before
external termination. Bound stop concurrency to four.
- Apply agent holds only to the affected agent. Project budgets leave
other projects running. Project real company transitions in bounded
lifecycle batches.
- Replace periodic broad reconciliation with durable pending work,
startup repair, receipt replay, and concrete retry/window deadlines.
Retain drain and idle-safety checks.
- Enforce accepted cumulative usage checkpoints without provisional
charges. Final accounting atomically replaces live exposure and settles
reservations.
- Add operator-gated budget spans, regression coverage, map updates, and
a real-PostgreSQL comparison harness. No schema or first-party telemetry
change.

## Verification

- Full workspace `pnpm -r typecheck` passes on the final ownership fix,
rebased onto `bbcf5dfe98`. Production `pnpm build` passes on final head
`4c5f4de8b1`. Map, module-boundary, token, and Storybook catalog checks
pass.
- Focused real-PostgreSQL coverage includes the 292-case rebased
accounting/dispatch run, 63 browser cases, 52 run-control/cancellation
cases, 42 policy-generation cases, 77 lifecycle/commentary cases, and
the exact Muse confirmation regression. Native executor unit coverage
passes all 768 cases. Final ownership coverage passes: 74
adapter/use-case cases, nine public regression cases, and the additional
deleted-project race. These exercise competing ownership, budget changes
and charges between phases, zero/nonzero duplicate claims, rollback,
recovery contention, read-only capacity rechecks, and controlled HTTP
startup after commit. Another 74 pure/startup/tracing cases pass. The
complete CI matrix and both 5/5 reviews passed on `1ac9b58`; its
external security scan identified a stale-owner handoff race. The final
fix restores synchronous issue/run ownership fencing after the
accounting transaction commits. Final head `8e84f55ce8` has fresh
Greptile 5/5 with zero new comments, Paperclip review 5/5, and a passing
security scan. The complete latest-head [CI
matrix](https://github.com/paperclipai/paperclip/actions/runs/39535189808)
passes, including budget, browser, Runner, build, and canary jobs. The
unchanged Runner close fixture passed on its sole same-head job retry.
- Broad local `pnpm test:run` invocations were stopped before required
source updates (rebase and review fixes). They are not claimed as full
passes. Final full-suite coverage comes from the complete latest-head CI
matrix; local focused coverage and the incomplete broad invocations are
reported separately.
- Reproduce performance with `pnpm --filter @paperclipai/server exec tsx
../scripts/benchmark-budget-enforcement.ts
--baseline-ref=6c9b87d0922f1ebfc43e8b0c36889ac5ba7b9837`; repeat with
`--reverse`. The harness uses disposable real PostgreSQL, 20 warm
samples per variant/count, and records raw timings, SQL/lock counts,
agent reads, unchanged agent state, and query plans. Final
production-source measurement revision:
`eff713a4f72c7f4b7a4002a701cb481d4bfccd95`; the extended harness is
committed in `4c5f4de8b1`.

| Unrelated idle agents | Baseline median / p95 | New median / p95 |
Baseline SQL / locks | New SQL / locks | New agent reads |
| --- | ---: | ---: | ---: | ---: | ---: |
| 0 | 1.80 / 2.33 ms | 2.99 / 3.88 ms | 5 / 1 | 7 / 1 | 0 |
| 17 | 15.53 / 19.55 ms | 2.24 / 2.60 ms | 90 / 18 | 7 / 1 | 0 |
| 1,000 | 978.35 / 1,790.43 ms | 2.16 / 2.52 ms | 5,005 / 1,001 | 7 / 1
| 0 |

- These measurements use local PostgreSQL 18.1 and Node 26.4.0 arm64.
They isolate the cost-evaluation core and complete admission path,
without hosted-region or provider latency. Prior-revision reversed-order
controls also preserved the constant query counts; the final
measurements above use the final production source.
- Complete reserve → final ownership gate → immediate offline provider
result is measured separately, with one responsible agent and one active
operation at each unrelated-agent count. Admission p95 baseline/new: 0
agents **11.54 / 29.77 ms**; 17 agents **9.31 / 27.62 ms**; 1,000 agents
**24.51 / 74.05 ms**. Baseline admission was already scoped; the
stronger final fence adds bounded overhead. New counts stay constant at
53 Drizzle statements, three transactions, two company-accounting locks,
and five agent-reading statements bound to the responsible agent. Zero
unrelated-agent reads, exactly one provider callback per sample, and no
leftover runs or holds. All admission scenarios stay below 250 ms. No
external provider calls are included.
- The partial-usage/delayed-termination fixture passed 20/20: receipt
persistence p95 13 ms, receipt return to observed durable Stop fence p95
28 ms, complete receipt-start-to-fence p95 50 ms, unrelated database
request p95 1 ms while termination was blocked. After releasing the
controlled termination fixture, acknowledgement p95 was 14 ms. These are
separately measured phases; fixture acknowledgement is not live-provider
termination latency.
- Models and provider deadlines are unchanged. No deployment, live
inference, or staging acceptance is claimed. A quiet 30-minute follow-up
waits for the merged revision on staging, then repeats classifier and
controlled budget-stop acceptance in staging, recording hosted
bookkeeping, queue delay, and actual provider acknowledgement
separately.
- Development failures retained: finalizer notification regressions
(fixed; 27/27 affected cases passed), invalid browser admission fixture
assumptions (fixed; browser coverage now passes 63/63), and first-head
lifecycle/dispatch CI regressions (reproduced and repaired). A
prior-head Cases E2E test hit its unchanged announcement-dismiss handler
race while opening a filter; the same journey passed on `1ac9b58`. The
external security review then found a stale-owner race between
accounting commit and provider entry; final verification covers a
competing run in that gap while retaining provider I/O outside the
accounting lock. Early PostgreSQL startup attempts hit local semaphore
pressure; serial reruns succeeded. The final-head Runner lane had one
failure among 1,823 tests: the unchanged `timeout-attachment` fixture
failed at its first process close after 6.28 seconds. The sole same-head
job retry passed all 1,819 active tests (four skipped), including that
fixture in 1.85 seconds. Three isolated local probes could not run
correctly because the Rust fake-provider fixture binary was absent;
cleanup masked the original startup failure. CI builds that fixture
through its normal lane. These probes are inconclusive and are not
counted as passes.

## Risks

- This changes accounting, lifecycle, and cancellation ordering. Durable
generations, source/sequence checks, ownership leases, and company
locking remain required for correctness.
- Provider stop acknowledgement can be slow or fail. Stop intent remains
pending until existing termination proof succeeds; cancelled row status
alone does not acknowledge delivery.
- Mid-run limits depend on provider usage reports or supported price
calculations. Providers that report only at completion cannot provide
exact mid-call detection.
- Signals are process-local wake hints for the supported
single-active-writer model. Durable state and startup recovery remain
authoritative.
- There are no migrations, new queue tables, or cached balances. Repeat
the classifier and controlled budget-stop acceptance after normal
rollout.

## Model Used

OpenAI Codex, based on GPT-6, with reasoning, tool use, code execution,
and parallel coding agents. The host does not expose the exact backend
model revision or context-window size, so those values are not asserted.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-21 07:23:00 -05:00
DottaandPaperclip 15176963b1 fix: stop idle skill-source polling (#17008)
## Thinking Path

> - Paperclip manages agent work and the skills that agents use.
> - Project repositories create durable import jobs, and installed
sources can refresh automatically.
> - The server queried these records every five seconds, even when no
work existed.
> - Idle tenant databases need to stop receiving those discovery
queries.
> - This change uses the existing transaction notifications and delivery
coordinator.
> - Saved refresh, retry, and lease deadlines determine when the worker
runs next.
> - Cloud does not yet wake these deadlines, so outstanding skill work
retains the instance.

## Linked Issues or Issue Description

**What existing behavior does this improve?**
Skill-source background synchronization. This continues the idle-work
migrations in #15625 and #17000. A search found no overlapping open
polling-removal PR.

**Current behavior**
On master `b11010b0d4`, startup installs a five-second skill-source
interval and also calls it from the external-object scheduler. Each
sweep queries active companies, import capacity, pending imports, and
automatic refreshes.

**Proposed behavior**
Run at startup, after a relevant transaction settles, or at a saved
deadline. Stay SQL-quiet when no eligible work remains. Preserve import
admission, authorization, atomic claims, retry backoff, and the existing
five-minute upstream check.

**Reason and benefit**
Remove recurring database activity from inactive tenant instances
without requiring new tables or a new scheduler.

## What Changed

- Replace both recurring skill-sync calls with one delivery-coordinator
registration.
- Notify from attachment/detachment, source creation/settings/manual
refresh/disconnection, project/company deletion, and company status
changes, including budget resume.
- Restore the earliest eligible `nextSyncAt` or lease-expiry deadline.
Due backlogs and conflicts retry after five seconds; no idle recovery
cadence remains.
- Admit deferred imports again after a batch frees capacity. Preserve
requests through drain, standby, restart, and commits during a sweep.
- Add sleep-safety predicates for imports and eligible automatic sources
until Cloud supports these deadlines.
- Document the lifecycle and process-local writer contract. No schema or
API changes.
- Guard external test database URLs before migrations or cleanup:
require a `_test` database name and reject database/options overrides.

## Verification

- 147 targeted tests pass: 39 server-startup tests, 14 new
real-PostgreSQL lifecycle tests, 20 shared coordinator/scheduler tests,
63 existing import/refresh/retry regression tests, and 11 test-database
guard cases.
- CI exposed a stale startup mock without the new `start` method. The
fixture is updated and all 39 startup tests pass locally.
- Tests exercise real enqueue/settings/company-reactivation producers,
nested commit, rollback, saved retry/lease restart, manual refresh
failure, capacity admission, concurrent commit, shutdown cancellation,
and SQL quiet after startup or pause.
- Sleep-safety tests reject sleep for future imports and automatic
refreshes, and accept inactive retained state.
- `pnpm -r typecheck` and `pnpm build` pass.
- `pnpm test:run` was attempted and stopped after repeated
embedded-PostgreSQL startup failures in unrelated suites. The two
existing import/refresh suites initially skipped for the same host
limitation; after adding explicit disposable-database options, all 63
regression tests passed against PostgreSQL 17. Full CI passed on
`ddb3ee51369baa8c7153bae9fd88efb8b903f2bc`: 55 successful checks, one
neutral review check, and two intentional skips.

## Risks

- Notifications are process-local. Independent SQL writers and separate
live replicas do not wake this worker; startup reconstructs persisted
work.
- Enabled automatic sources still contact GitHub every five minutes.
Their upstream changes have no event ingress here.
- Cloud scheduled wakes currently cover routines and issue monitors, not
skill sync. This change retains instances with outstanding skill
obligations. It does not claim measured host/database suspension or
fleet savings.
- No change to source authorization, installed content on failure, or
existing claim semantics.

## Model Used

OpenAI Codex, GPT-6 family, with reasoning, repository tools, and code
execution. The host does not expose an exact model revision or
context-window size to this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-20 16:21:42 -05:00
DottaandPaperclip b11010b0d4 Simplify failure banners and show only the latest error (#16982)
Remove dashed failure dividers and show only the latest adjacent run or recovery error. Preserve permitted retries, pending state and unrelated notice boundaries. Add production-component Storybook examples and browser regression coverage.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-20 14:29:39 -05:00
DottaandPaperclip 505e1a5582 feat(cases): add persistent workflows with same-task agent handoffs (#16959)
## Thinking Path

> - Paperclip manages AI agents and their work.
> - An agent workflow needs persistent facts and a safe way to transfer
work.
> - Creating a task for each phase splits the objective, discussion,
workspace, and review policy.
> - A case can retain the facts while one primary task moves between
agents.
> - Transfers must survive process failure and preserve private access,
budgets, and completion gates.
> - This pull request adds durable case handoffs, native case tools, and
read-only case pages.
> - Prompts describe the workflow. Existing task controls decide when
work can run and finish.

## Linked Issues or Issue Description

**Problem or motivation**

Prompt-driven agent teams need a persistent record that can move through
triage, implementation, verification, and correction. Ordinary
reassignment does not provide a durable instruction, safe release
barrier, or recoverable delivery receipt for an agent handing off its
own running task.

**Proposed solution**

Extend standalone cases with one primary task, a descriptive phase,
retained access sources, and a handoff ledger. Apply assignments after
source execution and workspace settlement. Deliver each transfer through
the existing durable wake queue. Provide `create_case`, `read_case`,
`update_case`, and `handoff_case` in the native runner. Creation
requires kickoff and explicit workflow text. An explicit handoff to
`done` closes the case when normal task completion is accepted.

**Alternatives considered**

Do not add a workflow engine, filesystem queue, configured state graph,
or one task per phase. The workflow document combines transition prose
with an optional Mermaid `stateDiagram-v2` map. The server does not
execute the diagram. The Pipelines experiment removed on master stays
removed.

**Roadmap alignment**

This extends Agent Reviews and Approvals, Enforced Outcomes, Bounded Run
Recovery, and Activity Log attribution. Existing approval, review,
budget, privacy, workspace, and responsible-user rules remain
authoritative.

Related work: [ordinary handoff wake
recovery](https://github.com/paperclipai/paperclip/pull/15019). This
feature adds a separate persisted case-handoff receipt and release
barrier.

## What Changed

- Add case routing fields, retained access sources, durable handoff
history, delivery leases, and replay-safe migrations.
- Keep the same primary task across agent phases. Preserve each
returning agent's own session and the task's workspace.
- Fence outgoing mutations, wait for provider and workspace release, and
recover delivery without duplicate task comments or runs. Recheck
current assignment permissions as the original caller before applying a
delayed transfer. Scope a run Stop to that run’s own handoff intents, so
repeated old Stop requests preserve newer work. Cancelling terminal
intent without a source run also requires fenced current task ownership,
including native retries and preparation with an old checkout. For Cloud
callers, revalidate current stack membership with an uncached Cloud RPC
and derive owner elevation from the current managed setting.
- Keep case reads, documents, assets, Audit, and live events inside
retained task/project permissions.
- Add native case creation/read/update/handoff tools. Store required
workflow text and initial documents on the first task. Page oversized
case facts and referenced document bodies through the dedicated tool
with bounded UTF-8 JSON, current routing versions, snapshot conflicts,
and current source authorization on every page.
- Add read-only case lists and detail pages, task-style list controls,
compact dotted field tables, linked handoff tasks, and case filters in
Audit.
- Add native/legacy integration tests, migration/restart tests, browser
coverage, and bounded live receipt fixtures. Extend the trusted sandbox
condition to cover the new subscription fixture profile.
- Hide obsolete paused-agent warnings on completed or cancelled task
threads.
- Synchronize the company-switch settings test with React effects after
a CI failure. Preserve its security assertions and production remount
behavior.

## Verification

The branch directly includes master `9ef434fe79`. The required `ci /
verify` and `ci / e2e` gates pass on head `765fccd67c`. [Current-head
CI](https://github.com/paperclipai/paperclip/actions/runs/39464348614)
passes typecheck, build, tests, and all eight browser shards. Security
checks pass. [Greptile gives this exact head
5/5](https://github.com/paperclipai/paperclip/pull/16959#issuecomment-6291156549),
with no unresolved review threads. The optional Paperclip Review check
remains queued because its assigned agent is paused. It is not a
required branch check. No check result was overridden.

Local workspace typecheck and build pass after the master merge, along
with database migration checks, token gates, map checks, Storybook
catalog checks, and the Copilot profile identity check. Standard builds
refresh Runner vendor output. Focused checks pass 2,008
API/paging/context tests and 7 strict case protocol tests. The final
commit changes one test fixture only; its ten tests, UI typecheck, and
token gates pass. No production source changed in that commit.

On current head `765fccd67c`, all **194 critical workflow tests**
executed and passed with no skipped tests in those files:

- 38 Stop/ownership tests, including board completion intent, native
retries, stale Stop, and preparation with an old checkout.
- 2 actual legacy process/HTTP handoff tests, including scratch failure,
a closed-stdio child that continues writing, and recovery through a
fresh worker after the process group stops.
- 5 migration tests, including SQL column metadata, preserved null
authority context, and all six prior-numbering receipts.
- 3 process-settlement and 5 scratch tests.
- 88 handoff-service, 18 heartbeat handoff, and 21 native case-tool
integration tests.
- 7 bounded case/document-read projection tests and 7 strict
protocol-contract tests.

The current CI checkout was `fed65d49`, merging `765fccd67c` into master
`9ef434fe79`. Its new document regressions reconstruct exact
Unicode/escaped bodies and revisions through real native authority and
authenticated HTTP with generic API tools disabled. They cover
case-owned, primary-task, and linked-task documents; routing on every
page; stale document snapshots; access loss and unlinking;
unrelated/foreign/private sources; system documents; and quarantined
content. Active-task document tools retain their existing behavior.
These are current-head test results from the first CI attempt; the
browser-only retry did not rerun these suites.

The full `64fdd3403f` CI failed one separate settings test: after a
company switch, it observed an unsettled API-key draft. The production
component and test were unchanged from prior green source. Production
switches remount both keyed settings layers; the test directly reused an
unkeyed view and used a timer tick instead of waiting for React effects.
The final commit replaces that fixture synchronization with React `act`.
The exact secret-clearing assertions and all timeouts remain unchanged.
The original assertion failure remains recorded; no unchanged retry was
used. The narrow unchanged baseline and fixed fixture each pass 10
tests.

The upstream result-paging merge preserves case capture namespaces and
current asset privacy. Its API integration suite executed 39 of 41 tests
successfully, with two skipped; the optional assigned-result PRP
integration test was skipped. Neither skipped suite is counted in the
194 critical tests or as live provider proof.

All 361 upstream migration entries and SQL bodies remain unchanged. Six
case migrations follow master as 0363–0368 with identical SQL hashes.
Official Drizzle generators produced the combined metadata and five
retained snapshots. Generation reports no schema changes, and the
snapshot drift test passes. The earlier `ce361ae5d0` CI passed on
attempt 1, including its then-current 179 critical tests. Fresh review
later identified unusable document references with generic API tools
disabled; the bounded document reads and ten additional authenticated
HTTP tests address that finding.

The full local `pnpm test:run` attempt was cancelled after this Mac
exhausted PostgreSQL semaphore capacity; it is **not** counted as a
pass. Later database attempts also stopped before assertions or skipped,
including one sandbox socket denial. Two original stale-Stop regressions
did reproduce the bug against the old source. A REST serialization
assertion passed after two preserved database-startup failures. No test
timeout was increased. All 194 assertions listed above executed and
passed in current-head CI. The complete 385-file, 3,963-test UI shard
also passed after the fixture repair.

A configured-provider receipt workflow passed 13 backend checks across
triage → implementation → verification → correction → done, using one
task and four work runs. The saved receipt is revision 2 with total 6
USD; case and task both closed. The original canonical attempt remains
failed because its browser assertion confused the terminal destination
with completed-task tooltips. The corrected full browser verifier passed
on the same retained database and original runs, with no additional
provider calls. The last clean-build browser readback is on
`6a86c54a53`; later changes affect recovery, authorization, bounded
reads, and settlement. Accounted work cost is a $1.010574 rate-card
estimate; provider billing and setup-probe usage are unavailable.

Copilot profile 49 passed the unchanged seven-fixture private protocol
pack (46/46 checks, no retries) and the product file-edit canary after
master's completion-replay change. All 60 bound implementation hashes
remain unchanged on the current source. Historical profile-47/48
identities and results remain intact. See the [profile-49 compatibility
record](https://github.com/paperclipai/paperclip/blob/codex/persistent-case-handoffs/doc/plans/2026-10-20-copilot-completion-recovery-compatibility-v49.json).
This is bounded compatibility evidence, not a fresh full matrix,
installed-package product test, or Daytona rollout.

Preserved CI failures and retries:

- On `20662930ac`, Slack managed setup failed a five-second success
assertion after reload. Its test/application path was unchanged from a
prior green head. One unchanged-source retry passed all 25 tests in that
shard; no source or timeout changed.
- On `9402b4f17a`, two CI workers received shutdown signals at 15:24:19
UTC. Neither log had an assertion failure before interruption. One
unchanged-source retry of each passed all Runner static checks and all
32 tests in browser shard 6; both aggregates passed. The next head,
`7b4374edaf`, passed all CI without retries.
- On `295f289b5a`, serialized shard 9 timed out during its first
device-login test, then the next test found an active login lease.
Direct login/test paths were unchanged from a prior green head. Cold
import plus a timed-out async body using the next test's mutable
actor/store is the supported fixture-race explanation; no request trace
proves that sequence. The original failure remains recorded. One
unchanged-source retry passed all 294 tests in 19 files, including all
41 device-login tests. No login source or timeout changed. The
subsequent `ce361ae5d0` CI passed without retries.
- On `64fdd3403f`, one company-switch settings assertion observed an
unsettled draft. The final test-only commit uses React `act` without
changing assertions, timeouts, or production code. On `765fccd67c`, all
ten settings tests and the complete 385-file, 3,963-test UI shard
passed.
- On `765fccd67c`, browser shard 3 completed the split-handoff
assertions, then cleanup received HTTP 500 from run cancellation after a
one-second PostgreSQL row-lock timeout. The extra chat run was reporting
completed work while teardown began. Cleanup stopped before restoring a
global experiment flag, causing a later assertion to fail. Relevant
production and test paths are unchanged from an earlier green commit.
Stop's lock order is consistent, and no nested self-lock was found; the
exact PostgreSQL blocker was not recorded. One unchanged-shard retry
passed. The original failure, trace, and downstream flag failure remain
recorded. No Stop implementation, cleanup assertion, or timeout changed.
The retry supports intermittent cleanup contention; it does not identify
the original blocking transaction.


## Risks

- Local process transfers require host-owned PID/group absence. Missing
or uncertain termination evidence keeps delivery pending, independently
of scratch setup.
- Handoff admission and task cancellation share execution ownership. New
regression tests cover temporary holds, late source writes, and
uncertain provider termination.
- Retained private sources use an intersection of existing permissions.
This intentionally fails closed when a source is missing or an existing
task cannot preserve that boundary.
- Migrations add tables and indexes. They preserve master history and
can replay over prior feature installs. Migration 0368 adds nullable
internal authorization provenance with no default or authority backfill.
Historical transfers still awaiting release without this context fail
closed; an operator must cancel them and request a new handoff.
- Delayed Cloud handoffs depend on the current Cloud membership RPC. An
unavailable, ambiguous, expired, or mismatched response holds the
handoff for retry; it does not reuse cached authority or grant access.
- Bounded reads reload and reauthorize the selected projection per page.
Underlying work grows with the data size and number of pages. Changed
data or routing requires restarting from offset zero without the old
snapshot.
- Phase names and workflow diagrams remain advisory. They do not satisfy
review or approval gates.
- This is a large, cross-cutting PR. The maintainer requested one PR for
the whole feature; the commits separate data, runtime, UI, and
qualification work.

## Model Used

OpenAI Codex, GPT-6 family, with tool use, code execution, and delegated
code review. The exact deployment model ID and context-window size were
not exposed in the session. Live fixture agents used the explicitly
configured provider model recorded in their test evidence.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-20 12:46:14 -05:00
Devin FoleyandPaperclip 1f3695ac67 fix: expire native session failover backups after their issues close (#16866)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Native agent sessions that run in a remote sandbox keep a host-side
failover copy of the sandbox's harness state, so a replacement sandbox
can resume the conversation
> - Each session keeps that copy forever, and one copy can reach several
gigabytes
> - On a busy instance these copies fill the volume, and no existing
cleanup touches them
> - Once a session's work is closed, its copy matters only if someone
reopens that work later
> - This pull request expires the copy after the session's issues have
been closed for a configurable window, and makes a reopened issue start
a fresh session
> - The benefit is bounded disk use without breaking active,
recoverable, or leased sessions

## Linked Issues or Issue Description

Bug report described in-PR (bug report template).

**What happened?**
After every remote turn, `checkpointRemoteRunner` writes the sandbox's
runner state and provider session home (for example `codex-home`) to
`durable-sessions/<scope>/failover-backups/current`. Only the same
session's next checkpoint replaces it. No code path deletes a session's
copy when the session ends, its issue closes, or its agent goes away, so
the instance volume fills. On one instance:
- 246 sessions held 17 GB of copies, 84 of them older than a week;
- 24 new sessions added 5 GB in a single day, one copy alone 3.2 GB.

**Expected behavior**
Disk used by failover copies stays bounded. A copy is kept while its
session can still resume (open issue, live run, pending recovery, or
live lease), and expires once the session's issues have been closed for
a while. A reopened issue then starts a fresh native session, instead of
failing with `runner_harness_backup_unavailable` on a replacement
sandbox.

**Steps to reproduce**
1. Run agents with a native runtime in a remote sandbox environment.
2. Let them complete many issues.
3. Watch
`<instance>/runtime/paperclip-runner/durable-sessions/*/failover-backups/current`
grow without bound after the issues close.

**Paperclip version or commit:** `master` at 9179d8dcc3.
**Deployment mode:** server with remote sandbox environments.
**Agent adapter(s) involved:** not adapter-specific (core bug); observed
with Codex sessions.

**Breaking changes**
- Reopening an issue that has been closed for longer than the window
(default 7 days) starts a fresh agent session instead of resuming the
old conversation.
- Disable with
`PAPERCLIP_NATIVE_HARNESS_BACKUP_EXPIRATION_ENABLED=false`, or lengthen
the window with `PAPERCLIP_NATIVE_HARNESS_BACKUP_EXPIRATION_DAYS`.

## What Changed

-
**`server/src/services/native-runtime/native-harness-backup-expiration.ts`
(new):** the sweep. It checks at most 200 sessions and expires at most
50 per batch, continuing from a cursor. A copy expires only when all of
these hold:
- every issue the session ran on is `done` or `cancelled`, closed before
the window;
  - the copy was written before the window;
  - no run of the session is queued, running, or unfinished;
- every native run finalization of the session is settled (`committed`
or `terminal_failure`), with no recovery state or lease owner;
- no `active`, `released`, `retained`, or `pending_cleanup` environment
lease references the copy (by backup stamp, session run, or recorded
lease);
- the session is not executing, initializing, warm, or closing in this
process, and its directory has no pending cleanup activation.
- **One transaction:** the database checks share-lock the issues and
delete the agent task session that points at the session, so a reopened
issue cannot resume the expired session.
- **Atomic, non-blocking removal:** the copy is renamed to
`failover-backups/.retiring-<UUID>`, and a final check looks for a run
of the session. If one appeared, or the check throws, the rename is
undone. Only a confirmed copy becomes `.expired-<UUID>` and is deleted
with asynchronous file operations, so a multi-gigabyte removal does not
block the event loop. A later sweep restores an unconfirmed
`.retiring-*` copy when `current` is missing, drops it when a newer
`current` exists, and finishes an interrupted deletion. The rest of the
session directory is kept.
- **`native-session-executor.ts`:** exports
`nativeSessionScopeDigestIsBusy`, which checks the in-process executing,
initializing, warm, and closing session maps.
- **`native-harness-backup-stamp.ts`:** exports the state base path the
sweep scans.
- **`config.ts` and `index.ts`:** three environment controls
(`_ENABLED`, `_DRY_RUN`, `_DAYS`) and the scheduled sweep. It starts two
minutes after boot, honors shutdown, standby, and idle drain, and logs
candidates, reclaimed bytes, cleared task sessions, and skip reasons.
- **Docs:** `doc/recoverable-disk-cleanup.md` describes the sweep;
`doc/DEVELOPING.md` lists the variables.
- No code comments were added.

## Verification

- `pnpm exec vitest run
src/__tests__/native-harness-backup-expiration.test.ts
src/__tests__/native-harness-backup-expiration-config.test.ts` (in
`server/`): 30 passed, 24 of them against embedded Postgres plus 6
config tests. Cases:
- expiry for done and cancelled issues, including clearing the task
session;
- each keep condition: open issue, recently closed, live run, pending
finalization, recovery in progress, live lease, recent copy, cleanup
activation, in-process session;
  - settled finalizations and expired leases do not block;
  - dry run changes nothing;
  - bounded batches continue across ticks;
- an interrupted deletion is finished, and an unconfirmed retiring copy
is restored or dropped;
  - the configured clock controls the closed window.
- **Mutation checks:** treating `in_progress` as closed, ignoring live
leases, ignoring the configured clock, or not restoring a retiring copy
each fail the corresponding tests.
- `pnpm exec vitest run native-harness-backup config` (in `server/`): 19
files, 293 tests passed.
- `pnpm run typecheck` (in `server/`): pass.
- **Real server:** after building and bundling,
`scripts/server-boot-smoke.sh node server/dist-runtime/index.mjs`
reached healthy.
- **Manual equivalent on a live instance:** applying these checks by
hand (with a 3-day window) to 242 copies freed 7.1 GB. Most of the
remainder belonged to open issues or live leases.

## Risks

- **Reopen after the window:** the agent starts a fresh session and
loses the old conversation's provider history. Issue comments,
documents, and work products are unaffected.
- **Race with a wake:** the checks share-lock the issues, so a reopen
waits for the transaction. A run created for the session between commit
and rename is caught by the post-rename check, which restores the copy.
Such a run would find no task session and start fresh.
- **Missing owner run:** if the owning run row is gone (for example,
after an agent was deleted), the copy is kept, because the sweep cannot
prove the session is closed.
- **Untouched:** quarantined session roots and `continuity-breaks`
archives are not touched by this change.
- **Rollback:** set
`PAPERCLIP_NATIVE_HARNESS_BACKUP_EXPIRATION_ENABLED=false`, or revert.
Expired copies cannot be restored.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, local builds, tests and boots,
read-only measurements on a live instance).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [ ] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-20 07:57:43 -07:00
DottaandPaperclip 813e808af4 Remove filesystem history authorization from workspace preparation (#16963)
Remove physical-root source/reader authorization and sticky directory classifications from workspace preparation. Preserve current task/run authority, app-record privacy, credential authorization, containment, and lifecycle/publication integrity.

Validate replacement selections against persisted new inputs and refresh verified checkout ownership so bounded reuse survives earlier workspace relocation. Add real PostgreSQL/Git regressions, a reproducible history-scaling benchmark, and documentation.

Full CI passed all 48 jobs and Greptile scored 5/5 at 3d5da6c259. Five preparation-guard medians improved from 20,512.99 ms to 52.22 ms on the 8,500-workspace fixture; these are not end-to-end startup timings.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-20 09:19:59 -05:00
DottaandPaperclip 4970d5ed3d fix(skills): unblock agent attachment and preserve Latest selections (#16899)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Operators attach company skills to agents from the skill library.
> - Attachment first reads the agent's skill snapshot to preserve other
assignments.
> - That read materialized and validated repository files for the entire
library, even in read-only mode.
> - The response also treated resolved runtime versions as stored pins.
Saving could then fail with beta pins disabled.
> - This pull request makes version-cache inspection lightweight and
returns the stored assignment choices.
> - The benefit is a responsive attachment flow that preserves Latest
and explicit pins.

## Linked Issues or Issue Description

**What happened?**

Adding a repository skill to an agent could stall before the save
request. The prerequisite snapshot read projected or checked every file
in every installed repository skill. Once it returned, an existing
Latest assignment could become a version pin in the save payload. The
server then rejected that save when beta skill pins were disabled.

**Expected behavior**

Reading assignments must not prepare all repository snapshots for
execution. Adding a skill must preserve the other assignments and their
Latest or pinned choices.

**Steps to reproduce**

1. Install repository-backed skills with stored immutable versions and
cold disk caches.
2. Assign one repository skill to a Claude agent with Latest selected.
Leave beta skill pins disabled.
3. Open another skill, select Add to agent, choose the same agent, and
save.
4. Observe the expensive prerequisite read and the beta-pin rejection
after that read completes.

**Paperclip version or commit**

Reproduced from master at `ac9459bae3329395f10bc81c638a374eef152baa`.

**Deployment mode**

Observed in hosted staging. Reproduced with a disposable local instance,
embedded PostgreSQL, and the Claude local adapter on macOS arm64 with
Node 26.4.0.

Related: https://github.com/paperclipai/paperclip/pull/9995 adds a
separate read-only assignment endpoint for peer-agent access. This fix
keeps the existing configuration-gated snapshot and its permissions.

## What Changed

- Respect read-only listing for current and pinned version caches. Check
directory and entrypoint safety without projecting repository contents,
reading all support files, or updating cache access records.
- Keep complete snapshot restoration and byte validation at run
preparation. Missing caches are restored from stored data. Corrupted
files are repaired there.
- Return stored assignment version choices in both list and sync
responses. Keep runtime version details in the snapshot entries.
- Add database-backed regressions for cold and warm reads, pinned
versions, execution repair, and unsafe entrypoints. Add HTTP regressions
for save round trips and explicit pins.
- Update developer documentation and verification recipes.

## Verification

- Red: both latest and pinned read-only cache regressions failed on the
original code. The original code created caches during listing.
- Red: the HTTP save-roundtrip regression returned 400 with the beta-pin
error. The explicit-pin regression also failed.
- Green: the updated API and cache suites passed all 145 tests. The
three related company-skill service suites also passed.
- Real browser: attached a repository skill to a paused test agent with
another repository skill already set to Latest and beta pins disabled.
The success toast appeared. The skill's Agents tab retained the
assignment after reload. API reads confirmed both assignments remained
unpinned and no repository version caches were created.
- Local synthetic fixture: six skills share a 606-file repository
snapshot. A cold HTTP skill-list request completed in 241 ms. This is
local evidence, not a staging latency measurement.
- Real service comparison on that fixture: the baseline cold list wrote
3,648 version/cache files. A warm baseline list read 3,642 version files
and wrote six access records (457 ms). The fixed warm list read and
wrote zero version/cache files (61 ms). Both services returned the same
16 library entries.
- `pnpm -r typecheck` passed. The final API edit also passed the server
typecheck.
- `pnpm build` passed.
- `node scripts/check-maps.mjs` and `git diff --check` passed.
- The broad `pnpm test:run` invocation reported six failures in the
untouched `tool-gateway-service.test.ts` suite. An isolated rerun passed
all 59 tests. The broad run was stopped after recording those failures,
so it is not a green full-local result. The PR CI matrix separately
passed those suites. Greptile completed on the current commit with 5/5,
zero comments, and no open threads.
- One CI shard was interrupted by runner shutdown, with no failed
assertion in its log. A single failed-job retry passed on the same
commit. The aggregate CI gate passed. All current-head PR checks are
complete with no failing or pending checks.
- This PR does not claim that the fix has been deployed to staging.

## Risks

- Settings reads check cache locations and entrypoints. They defer full
support-file validation to execution. Regression tests verify that
execution still repairs corrupt bytes and restores missing versions.
- The response now distinguishes stored pins from resolved runtime
versions. Explicit historical pins remain intact. Company,
configuration, connector, and beta-pin authorization gates keep their
existing behavior.
- No schema migration or dependency change.

## Model Used

- OpenAI GPT-6 through Codex, with reasoning, code execution, and
browser tools. The exact runtime build ID and context-window size are
not exposed in this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-19 16:33:02 -05:00
DottaandPaperclip 7c58ea07b2 fix(issues): guard prepared task promotion by status version (#16893)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Integrations can prepare a backlog task before its assigned agent
starts.
> - A person can change its status or assignment during preparation.
> - An unconditional promotion can replace that newer decision.
> - Safe promotion needs a saved revision that includes every assignment
path.
> - This pull request checks that revision under the task row lock and
derives policy cleanup from the locked row.
> - The benefit is safe initialization recovery with the existing
company, task, and run authority.

## Linked Issues or Issue Description

Prerequisite #16896 has merged. This PR now targets master and contains
only the conditional promotion API. The prerequisite fixed the confirmed
baseline first-upload browser regression.

**What happened?**

A client that saves a task's initial documents and then sends an
unconditional status update can override a concurrent status or
assignment decision. The update validator previously dropped an expected
version, so clients could not make this promotion conditional. Some
direct assignment and release paths also did not advance the revision.

**Expected behavior**

A prepared task moves from backlog to todo only if its original status
and assignment revision still matches. A stale request returns 409
before a task mutation, audit publication, or wake. Policy cleanup
preserves unrelated saved settings.

**Steps to reproduce**

1. Create a backlog task and save its statusVersion before preparing it.
2. Release its assignment, or change an assignee and then restore that
assignee.
3. Send `{ "status": "todo", "expectedStatusVersion": <original
revision> }` to its PATCH endpoint.
4. The stale promotion must return 409. A matching revision on an
unchanged backlog task must succeed.

Duplicate and related PR searches found no existing prepared-task
promotion fix.

## What Changed

- Accept an optional nonnegative expectedStatusVersion for exactly a
status-only backlog-to-todo promotion. Reject extra public fields before
parsing can discard them.
- Check the current revision and backlog state under the issue row lock.
Reject stale requests before checkout adoption or execution-control
effects.
- Add SQL migration 0358 to advance the revision for both assignee
fields at the database boundary. Release, administrative release, direct
writes, and assignment round trips now invalidate an old version.
- Derive guarded policy cleanup from the locked row. Preserve review
limits and protected authorization when removing a monitor. Reject
derived ownership changes or review decisions.
- Add schema, real HTTP/PostgreSQL, concurrency, migration replay, and
policy regression coverage. Update the response type, OpenAPI, developer
docs, and access map.

## Verification

- Red before the initial fix: stale requests returned 200 instead of
409, validation removed the expected version, and a stale active task
could adopt a checkout.
- Review found two further defects. Four new release/direct-assignment
tests showed unchanged revisions. The real HTTP/service test returned
422 for a valid two-field promotion after monitor cleanup. Helper tests
also proved that cleanup lost valid review limits and protected
authorization. All now pass after focused repairs.
- Green: 124 route and policy tests, including 7 real Express/PostgreSQL
cases, 37 existing route tests, and 80 policy/helper tests. The real
row-lock race preserves a policy edit committed while promotion waits.
- Green: all 23 database client tests, plus 9 focused assignment and
replay checks. Historical migration 0227 receipt recovery cannot remove
the new assignment trigger. Reapplying migration 0358 leaves existing
rows unchanged and installs one trigger. Combined status/assignment
writes increment once; unchanged assignees do not increment.
- Earlier verification passed all 218 schema/route/service cases and the
generated OpenAPI capability test. Rebased focused regressions passed
all 27 selected cases. Final server TypeScript passed after all repairs;
shared TypeScript passed. Migration safety/numbering, five-snapshot
retention, map validation, and diff checks pass.
- The baseline browser attachment case failed twice on the earlier head.
Separate #16896 proved the lost-composer cause, passed 335 component
tests and the real first-upload journey, and has green CI with a 5/5
review. No assertion or timeout was weakened.
- Some early local checks were blocked by missing or stale sibling
dependency artifacts. This worktree now has its own frozen offline
install and standard SDK prerequisites. The failures and successful
reruns remain in the task evidence.
- Before rebasing, head `3304bb00de6ad6a248b5e046c008072ad20ac8f5`
passed all CI (55 successful checks and one neutral), Greptile 5/5, and
a secondary source review at 5/5 with no unresolved findings. The
secondary reviewer did not execute project tests, inspect CI, or
exercise a live agent journey. Earlier incomplete and must-fix
assessments remain visible; both established findings are repaired
above.
- After #16896 merged, all five CAS commits were rebased onto master
`87d9386ae637c652d1fed09d2046be1bcaeb413b`. Migration 0358 was
regenerated because master added another 0357. Range comparison shows no
other change to the CAS patches; inherited UI commits are absent. The
original head is preserved locally.
- Rebased head `1c0264e51a280b1dbf597725a7e42e72d4be1b1b` passes all 124
route/policy tests, 9 selected assignment/promotion tests, and all 24
database client/snapshot-drift tests. Database build, migration checks,
generated snapshot linkage, five-snapshot retention (0354–0358), maps,
and diff checks pass. Fresh-head CI and review are pending. No
deployment or live agent journey was performed for this API.

## Risks

- The guard supports prepared backlog promotion only. Other statuses or
mixed public mutation fields return 422. A stale revision or non-backlog
row returns 409.
- Preserve the original version from a server that already advertises
this guard before initialization. Older versions did not track every
assignment path. Reconcile older or uncertain initialization instead of
fetching a new revision and blindly retrying.
- Migration 0358 is SQL-only and idempotent. It adds no table, column,
or task backfill. Its separate trigger survives historical
status-migration replay.
- Existing authorization and unguarded updates remain in place. Guarded
promotion does not provide a general lifecycle or review-stage control
API.

## Model Used

OpenAI Codex, GPT-6 family. The exact serving model ID and context
window are not exposed by this session. Used tool calls, code execution,
and test-first regression verification.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-19 16:27:11 -05:00
DottaandPaperclip 8193abb936 feat(claude): default qualified macOS and Linux targets to Paperclip Runner (#15997)
## Thinking Path

> - Paperclip must run the selected agent on its selected host.
> - Claude needs verified packages for each supported target.
> - A Mac controller must select the correct Linux provider pack.
> - New defaults must follow package and execution evidence.
> - This PR adds Claude platform packaging and target-specific pack
selection.
> - Existing Codex Linux ARM64 behavior remains intact.

## Linked Issues or Issue Description

Refs #15683. This PR depends on #15993 and #15994. Related scope: #15422
and #15224.

## What Changed

- Reuse the merged four-target daemon producer/consumer matrix. Add
target-owned Linux provider packs and carry their immutable identities
through release assembly and vendoring.
- Reuse master’s landed pinned Claude SDK ARM64 executable admission and
retain package-integrity, architecture and no-follow admission.
- Select target-specific remote packs so Mac controllers can use Linux
hosts without a development pack override.
- Preserve read-only runtime context on SSH startup and resume without
accepting unverified old content.
- Check ordinary installed Claude readiness without injected package
authority. Retain Codex and Linux x64 consumer checks.
- Extend Claude automatic target selection for the remaining qualified
package targets. Retain unsupported-platform and external-override
behavior.
- Qualify managed Daytona snapshot names through provider IDs during
Claude Connect. Pin native acquisition to the measured ID. Preserve a
revocation marker after failed probes or target edits, and block native
acquisition until requalification instead of falling back to a mutable
name. Preserve immutable-image proof, company and account boundaries,
and Legacy acquisition.

## Verification

- Reconciled with master `9179d8dcc3e908c217fde4f63c9d08ccf8132eeb`
through the prerequisite stack, retaining the merged startup fix and
latest Codex Linux ARM64 behavior.
- [Four-target exact-source package
qualification](https://github.com/paperclipai/paperclip/actions/runs/39267321383)
passed on source `04e0202ca81387b17cbe7fd094a8338648356fe9`: all four
native builds, public-package assembly, Linux x64 verification and clean
installed consumers on Apple Silicon, Intel Mac and Linux ARM64. The
later master reconciliation adds shared OpenRouter attribution and
changes runtime source. This historical result keeps its original source
identity; [later
qualification](https://github.com/paperclipai/paperclip/actions/runs/39281100929)
passed at `dca62c7aeb4b45f0dd91a8e18d386a16a2658ef8`. It predates the
subsequent TypeScript startup fix.
- Fresh local product acceptance on integrated source
`b2c9fe43f9cd3bc5dd9d22552da0148845ba71a4` completed a useful file and
follow-up through native Claude/Opus 5.5, High effort and the API-key
connection. Both actual browser downloads were independently checked;
the revision preserves the original body and session continuity. Total
task estimates: $0.518432800. Ordinary web and API creation saved
defaults with the native experiment disabled.
- Local focused verification passed 993 startup/session tests, 243 UI
tests, 12 workflow security tests, direct server/UI TypeScript checks,
and token/palette gates before the last review changes. Initial
DB-backed snapshot pin/revocation coverage passed 18 cases; the final
serial route suites pass 122 credential/permission and 232
snapshot/environment cases after correcting a test hook timeout.
Current-head cloud suites pass.
- Preserved the failed pre-provider local fixture and its full pending
reservation. The successful fixture has no unpriced or pending usage.
Historical failed Cloud journeys, accounting holds, source identities
and subscription limitations remain in the dated plan.
- All Docker/Rust release production was performed in cloud CI. No local
Docker image was built. An inadvertently invoked local Rust prerequisite
was stopped.
- Current-head cloud CI is green. All three stack PRs have fresh
Greptile 5/5 reviews and zero unresolved review threads. Required
typecheck, test and build gates ran in cloud CI; Docker work stayed
remote. Earlier failed checks remain in their original runs.

- The final master merge preserves task-loading, permission,
skill-retention and OpenRouter changes. Pi uses a fresh combined profile
27, preserving both historical profile-24 declarations; Copilot remains
profile 22. Focused protocol checks passed 155 cases (one skipped), the
updated Pi attestation check passed 18 (one skipped), and 91
evaluation/catalog checks passed.

- Latest-application manual continuation passed in 37.942 seconds on
`695e5c005a85bddc8711d3fcddcaf6b7e1fb64d0`, with High effort, native
Opus 5.5, Anthropic API attribution, the same resumed Claude session, an
independently checked 635-byte file and persisted Done status. It uses
the earlier verified Mac daemon; the preceding-source package
qualification passed at `dca62c7aeb4b45f0dd91a8e18d386a16a2658ef8`. That
package run predates the small TypeScript startup fix and is not
relabeled as qualification for it.
- Upgrade limitation: changed compiled sidecar identity rejected old
durable launch state and recovery hit session-open bounds before
eventually resuming. That attempt was operator-cancelled and retained;
the successful manual continuation does not qualify seamless upgrades.

- Local latency profile, Opus 5.5/High unchanged: three alternating
real-ACP loopback samples per variant reduce median provider-ready time
from 5.081s to 4.034s. The matched real API task startup improves from
5.533s to 4.348s, but total reply time changes from 17.933s to 20.221s
because agent work varies. This establishes a startup saving of about
one second, not a consistent total-reply speedup. A real candidate
follow-up passed in 20.146s and resumed the same saved session. The
loopback fixture makes no external model requests; failed initial probes
remain retained.
- The startup change passes 107 focused runtime/effort/lease tests, 53
profile checks (one skipped), TypeScript checking and the
TypeScript-only runtime build. Native hire fixture checks pass 70 tests;
their first local run retained a socket-hangup failure and stale
OpenCode expectation, both accounted for before the passing rerun.
Broader required checks run in cloud CI.

## Risks

- **Experience needs improvement:** successful connection setup still
shows “Connection needs attention” because runtime checks are deferred.
Cold provider-pack upload took 122–126 seconds per run while the task
mainly showed “Thinking.” The tested Core-only preview excludes private
Cloud UI plugins; this is not full Cloud distribution or subscription
qualification. Desktop dark theme was tested; mobile and comprehensive
accessibility were not. The portable report validates, but gallery
interaction could not be inspected because host preview was queued.

- The optional supply-chain scan returned neutral/inconclusive because
GitHub Actions package coverage and infrastructure parsing are
unavailable. It is not counted as a successful supply-chain
qualification. Exact package, daemon and image integrity checks passed.
- A stale, missing or wrong-architecture pack must fail admission. It
must not change runner or target silently.
- Provider-pack source changes invalidate affected earlier execution
results. Existing unknown-cost and cleanup holds remain intact.
- Live subscription execution remains unverified under the API-key
qualification direction. Built-in authentication flows are retained.
ARM64 cloud-image production is deferred. Merge and production
deployment remain separate.

## Model Used

OpenAI Codex, GPT-6 family, with reasoning, repository tools, code
execution and browser testing. The exact serving model ID and
context-window size are not exposed in this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [ ] Focused local tests and final cloud verification pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-19 14:17:24 -05:00
DottaandPaperclip 45b67f1d93 feat: default new Apple Silicon Claude agents to Paperclip Runner (#15993)
## Thinking Path

> - Paperclip lets users choose an agent harness and account.
> - The server resolves the runner for new agents.
> - Claude still needs the same ordinary native-default journey as
Codex.
> - Existing agents must retain their runner, model and account.
> - This PR defaults new Apple Silicon Claude agents to Paperclip Runner
with Opus 5.5.
> - Users can connect and work without a runner override.

## Linked Issues or Issue Description

Refs #15683. This PR depends on #15994 and precedes #15997. Related
scope: #15422, #13978 and #15224.

## What Changed

- Resolve new Apple Silicon Claude agents to `paperclip_runner`,
`provider: acpx`, `acpxAgent: claude`. Keep explicit Legacy, models,
provider routing and saved execution.
- Use `claude-opus-5-5` for ordinary Claude defaults and retain explicit
overrides.
- Reuse existing API-key/subscription connections, credential storage
and checks. Generalize the shared Advanced runner control with Claude
branding.
- Carry configured effort into the shared v9 contract. Preserve
compatible permissions, instructions, skills, timeouts and session
behavior. Require Legacy for unsupported settings.
- Qualify a new immutable managed Claude target at explicit Connect
through the existing permission-gated probe. Use fresh scoped discovery
for test and hire. Discard stale results and require an explicit Connect
after settings change.
- Retain merged Codex onboarding recovery, auth preparation,
import/effort corrections and Grok Bot gates.
- Check the Claude first-task wizard's saved default directly. Update
configuration/runtime documentation and exact Opus 5.5 accounting.

- Align hire fixtures with the merged host-environment restriction.
Native agent-authenticated hires cannot inject host env settings; both
creation endpoints verify that no extra agent is saved.

## Verification

- Updated onto master `9179d8dcc3e908c217fde4f63c9d08ccf8132eeb` through
#15994. Native input v9 carries effort while preserving v7 home modes
and v8 Muse. Codex defaults remain unchanged.
- Focused local verification passed 285 server tests, 323 UI tests, 124
setup/registry tests, and two v9 permission-pin transport cases. Direct
server/UI TypeScript checks passed. An initial 30-second hook timeout
was resolved by serial verification with a longer hook budget: all 122
credential/permission cases and 232 snapshot/environment cases pass.
Direct server TypeScript checking also passes.
- Ordinary web creation with the experiment disabled saved native
Claude, Opus 5.5 and High effort without runner/model overrides. The
actual product task and follow-up both succeeded on integrated source
`b2c9fe43f9cd3bc5dd9d22552da0148845ba71a4` with the cloud-built daemon
from `04e0202ca81387b17cbe7fd094a8338648356fe9`. The final master
reconciliation also changes shared runtime source. Historical proof
retains its source identity; a final-source cloud qualification is
running before refreshing the preview daemon.
- Both actual browser downloads were checked: v1 has three sections/six
checkboxes (451 bytes); v2 preserves the original body and adds two
Rollback checks (612 bytes). The original attachment stayed
byte-identical. The follow-up records session resume and the same
provider session. Total estimated API usage: $0.518432800, with no
pending/unpriced usage in the successful fixture.
- Fixed the live-discovered setup incompatibility: native API-key
validation no longer depends on the global Legacy Claude CLI. The
existing provider endpoint verifies the key without a paid prompt;
subscription/custom routing probes remain intact.
- Fixed security review's native-hire credential redirection:
agent-supplied URLs, proxy/launch settings and other host environment
controls are rejected before inheritance. Native credential references
remain supported and partial edits use the saved harness. Added
create/hire/update regression coverage.
- Current-head cloud CI is green. All three stack PRs have fresh
Greptile 5/5 reviews and zero unresolved review threads. Required
typecheck, test and build gates ran in cloud CI; Docker work stayed
remote. Earlier failed checks remain in their original runs.
- Docker and native release builds ran in cloud infrastructure. An
inadvertent local Rust prerequisite was stopped; no local Docker build
was run.

- The final master merge preserves task-loading, permission,
skill-retention and OpenRouter changes. Pi uses a fresh combined profile
27, preserving both historical profile-24 declarations; Copilot remains
profile 22. Focused protocol checks passed 155 cases (one skipped), the
updated Pi attestation check passed 18 (one skipped), and 91
evaluation/catalog checks passed.

- Latest-application manual continuation passed in 37.942 seconds on
`695e5c005a85bddc8711d3fcddcaf6b7e1fb64d0`, with High effort, native
Opus 5.5, Anthropic API attribution, the same resumed Claude session, an
independently checked 635-byte file and persisted Done status. It uses
the earlier verified Mac daemon; the preceding-source package
qualification passed at `dca62c7aeb4b45f0dd91a8e18d386a16a2658ef8`. That
package run predates the small TypeScript startup fix and is not
relabeled as qualification for it.
- Upgrade limitation: changed compiled sidecar identity rejected old
durable launch state and recovery hit session-open bounds before
eventually resuming. That attempt was operator-cancelled and retained;
the successful manual continuation does not qualify seamless upgrades.

- Local latency profile, Opus 5.5/High unchanged: three alternating
real-ACP loopback samples per variant reduce median provider-ready time
from 5.081s to 4.034s. The matched real API task startup improves from
5.533s to 4.348s, but total reply time changes from 17.933s to 20.221s
because agent work varies. This establishes a startup saving of about
one second, not a consistent total-reply speedup. A real candidate
follow-up passed in 20.146s and resumed the same saved session. The
loopback fixture makes no external model requests; failed initial probes
remain retained.
- The startup change passes 107 focused runtime/effort/lease tests, 53
profile checks (one skipped), TypeScript checking and the
TypeScript-only runtime build. Native hire fixture checks pass 70 tests;
their first local run retained a socket-hangup failure and stale
OpenCode expectation, both accounted for before the passing rerun.
Broader required checks run in cloud CI.

## Risks

- Missing packages, authentication rejection, unsupported settings and
unavailable models must fail explicitly. Existing agents retain saved
execution; explicit runner changes use existing revision/session
invalidation.
- Subscription follow-up remains unverified; remaining live acceptance
uses API keys per human steering. Historical accounting holds and the
separate $50 ceiling remain intact.
- The subscription acceptance limit remains explicit for review. No
Claude database migration is introduced.

## Model Used

OpenAI Codex, GPT-6 family, with reasoning, repository tools, code
execution and browser testing. The exact serving model ID and
context-window size are not exposed in this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [ ] Focused local tests and final cloud verification pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-19 13:58:52 -05:00
DottaandPaperclip 3e5a9f5afe perf(ui): load recent tasks with bounded summaries (#16851)
Replace passive recent-task detail reads with bounded, authorized summaries. Keep account isolation, stored history, task actions, and live recovery behavior.

Overlap access checks with shell settings and avoid duplicate session and health reads on the first healthy socket opening. Retain domain reconciliation.

Add focused coverage and local performance evidence. Isolate the existing cache capacity test from entry expiry on slow CI runners.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-19 12:13:28 -05:00
DottaandPaperclip 06c5bc471d fix(skills): unblock retention for legacy run selections (#16852)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Agent runs can select saved skill versions.
> - The server keeps those files in a cache that must protect active and
unresolved runs.
> - Older runs can lack the newer pin map even when their saved
execution input records the full selection.
> - Finished interrupted runs can also keep a company blocked after all
execution and cleanup have settled.
> - This pull request uses existing selection evidence and recognizes
settled interruptions so safe cache expiration can resume.

## Linked Issues or Issue Description

Related: #16433.

**What happened?**

Skill cache retention reports `unknown_run_pins` for a whole company
when it finds a finished interrupted run without pins, or an older
native run whose complete selection is stored only in its execution
input. Old cache directories cannot expire.

**Expected behavior**

Release pins from fully settled interruptions. Preserve exact versions
from valid saved native selections. Continue to block cleanup when
selection evidence is missing, invalid, or belongs to another run.

**Steps to reproduce**

1. Materialize an old, restorable skill version and let its idle grace
period expire.
2. Add a finished interrupted run with settled ownership and cleanup, or
an unresolved native run with a valid saved execution input but no
modern pin map.
3. Run the retention service. Before this change, it skips the company
with `unknown_run_pins`.

## What Changed

- Treat `interrupted` as terminal only when the existing finish,
controller, finalization, and environment cleanup checks allow it.
- For native runs with no modern pin-map field, parse the saved
execution input with the existing recovery parser. Validate its digests
and company, run, agent, and issue binding.
- Keep captured version IDs protected. Unversioned skills use separate
captured asset bundles. Do not replace a malformed modern map or write
any recovery records.
- Add database regressions and document the fallback. Remove an unused
status list that no longer represented the actual eligibility query.

## Verification

- Passed 41 focused tests: `skill-version-cache.test.ts`,
`skill-version-retention.test.ts`, and
`skill-version-retention-config.test.ts`.
- The tests perform real PostgreSQL reads, directory eviction, and
restoration from saved bytes with upstream unavailable. They cover
leases, unfinished cleanup, invalid digests, invalid versions, and
mismatched identities.
- Passed `node scripts/check-module-boundaries.mjs` and `git diff
--check`.
- A read-only evaluation of the candidate selector against existing
legacy data cleared the unknown-pin blocker while retaining exact
version pins.
- Passed `pnpm -r --workspace-concurrency=2 typecheck` and `pnpm build`.
The full remote CI suite passed, including all server, workspace,
Runner, and end-to-end shards. The full local test command remains in
progress; its focused cache suites passed as recorded above.
- Greptile reviewed this head at 5/5 with no actionable comments or
unresolved threads.
- Initial local database attempts did not run the cases: sandbox access
prevented a listener, then an install with scripts disabled lacked
PostgreSQL library symlinks. After running the package's symlink setup,
the binary started and all focused tests passed.

## Risks

The main risk is releasing a cache still in use. The existing ownership
and cleanup checks remain in force. The native fallback applies only
when the modern field is absent and the saved input passes the same
parser used for recovery. Invalid or missing evidence still blocks the
company. Current versions and explicit agent pins stay protected. Saved
version rows and runtime asset bundles are not deleted. There is no
migration.

The selector reads execution inputs only for legacy native runs that
need the fallback. Normal runs still load only their pin maps and
binding columns. A representative read-only selector check completed in
98 ms; this is a sample, not a latency guarantee.

## Model Used

OpenAI Codex, GPT-6 family, with tool-assisted coding and verification.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change and contains no internal
Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-19 10:10:49 -05:00
DottaandPaperclip 56e09cd19f docs: add native Runner integration playbook (#16846)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Native Runner connects those agents to harnesses through provider
drivers.
> - Adding a harness crosses protocol, setup, lifecycle, packaging, and
product boundaries.
> - Existing guidance does not provide one complete procedure for this
work.
> - This pull request adds a native Runner skill, detailed playbook, and
working templates.
> - Contributors can use them to define a release, implement the
integration, and verify the delivered result.

## Linked Issues or Issue Description

**Issue type**

Missing documentation.

**Where is the issue?**

Native Runner contribution guidance in `doc/DEVELOPING.md` and
`packages/paperclip-runner/README.md`.

**What's wrong?**

Contributors must reconstruct the requirements, protocol mapping, normal
setup, lifecycle rules, packaging, and acceptance process when they add
a harness. The legacy direct-adapter recipe covers a different execution
path.

**Suggested fix**

Add a self-contained native Runner procedure. Include capability
research, a finite release contract, implementation boundaries,
reproducible tests, normal installation, and release evidence. State
each lesson directly so contributors need no private chats, tasks, or
evidence archives. The duplicate search found no existing playbook PR.

## What Changed

- Add `create-runner-adapter` for new native Runner harness
integrations.
- Add a detailed playbook based on the Pi, Cursor, and Copilot
integration lessons.
- Cover model and instruction admission, connection setup, rich events,
durable interactions, recovery, cancellation, packaging, and Product E2E
acceptance.
- Add templates for scope, capabilities, attempts, failures, jobs, and
release handoff.
- Link the procedure from the development guide and Runner README.
- Keep legacy adapters as a compatibility boundary.

## Verification

- `git diff origin/master --check` passed.
- `node scripts/validate-doc-links.mjs` passed from
`packages/paperclip-runner` and checked 53 documentation files.
- All 71 Markdown links in the new reusable files resolve to repository
paths or public provider documentation.
- Skill YAML, naming, description, and scaffold checks passed.
- A private-reference audit passed for the reusable skill, playbook, and
templates.
- The legacy direct-adapter skill matches the base version.
- Full local runtime checks were attempted with pnpm 9.15.4. `pnpm -r
typecheck` stopped because Node type definitions are missing. `pnpm
test:run` and `pnpm build` stopped because `cli/node_modules/tsx` is
missing. This checkout has no installed dependencies. These commands did
not establish runtime test or build results.
- Full remote CI passed on commit
`88b4fc4832d95807da1f5e48029a183b3dc62b6c`: build, typecheck, general
and serialized server tests, Runner checks, browser tests, and the
canary dry run. [CI
run](https://github.com/paperclipai/paperclip/actions/runs/39262297681).
- All 55 applicable checks passed. The two Storybook checks were skipped
for this change.
- Greptile gave the current commit 5/5. There are no review comments or
unresolved threads.

## Risks

Low risk. The procedure can drift as the Runner contracts and test entry
points change. It records its source baseline and tells contributors to
inspect current declarations. Historical lessons describe failure
patterns; they do not certify current binaries.

## Model Used

OpenAI Codex with `gpt-6-astra` and `gpt-6.1-sol`, both using xhigh
reasoning. Context-window sizes were not exposed. The models used
repository search, terminal tools, and file edits.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used, including available version and
capability details
- [x] I have checked ROADMAP.md and confirmed this documentation does
not duplicate planned core work
- [x] I have searched GitHub for duplicate or related PRs
- [x] I have described the issue in this PR using the documentation
issue template fields
- [x] I have not referenced internal or instance-local Paperclip issues
or links
- [x] My branch name describes the change and contains no internal
ticket or instance details
- [x] I have run the relevant local documentation checks; they pass.
Blocked runtime checks are recorded above
- [x] I have considered tests for this documentation-only change and
validated its links and skill metadata
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented the risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-19 08:50:44 -05:00
DottaandPaperclip 98ca6ff7c5 perf: reuse verified provider files during sandbox startup (#16493)
Build provider-pack transport layers once, reuse verified image files in private directories, and upload only missing layers. Preserve archive integrity checks and directory fallback on unsupported hosts.

Verified with 44 focused tests, all 48 main CI jobs, cloud Docker Runner checks, and Greptile 5/5 on the merged head.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-19 08:45:09 -05:00
Devin FoleyandPaperclip 2f6ad2226a fix(heartbeat): reconcile stranded running agent status (#16791)
Serialize agent completion status updates with new execution starts. Repair stranded running flags through existing recovery after durable work and cleanup settle. Share exact failed-lease cleanup proof with idle sleep, bound recovery work, and keep repair failures from blocking unrelated recovery.

Verified with 54 successful CI checks, 292 affected regressions after review fixes, workspace typecheck/build, and Greptile Apex 5/5 with no unresolved comments on the merged head.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-18 22:20:41 -07:00
DottaandPaperclip b85a69b334 test(server): record observer load in native event replay (#16800)
Record observers and polling in synthetic native replay measurements, with zero-viewer controls and correctness checks.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-18 21:58:32 -05:00
DottaandPaperclip 790b729086 fix: restore nested project repositories and settings after expiration (#16691)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Agents use isolated Git workspaces with managed project repository
copies.
> - Finished workspaces can expire when Git can reproduce their
contents.
> - The saved recipe records the main commit but omits nested commits
and local settings.
> - Reopening can therefore use newer nested code and lose merged user
settings.
> - This pull request saves and restores those contents before workspace
provisioning.
> - It also permits verified FETCH_HEAD metadata so ordinary fetches do
not block safe expiration.

## Linked Issues or Issue Description

Refs #16457, #16586, #16621. Related performance work: #16579.

**What happened?**

After a finished workspace expires, its nested project checkout can
reopen at the current upstream commit instead of its previous commit.
Cleanup also treats local Claude settings as disposable, although that
file can contain user settings. Ordinary linked-worktree FETCH_HEAD
metadata prevents otherwise safe cleanup.

**Expected behavior**

Restore the main and nested repositories at their saved commits.
Preserve local settings bytes and permissions. Skip files and Git state
that cannot be reproduced. Permit standard fetched metadata only when
its commits remain recoverable.

**Steps to reproduce**

1. Prepare a managed nested project repository at commit A and add
ignored local settings.
2. Advance upstream to B, finish the task tree, and expire its workspace
and base.
3. Reopen the workspace through the normal service path. Before this
fix, nested preparation selects B.

## What Changed

- Extend the existing restoration recipe with exact nested commits,
branches, source identity, and encrypted local settings. Keep the schema
compatible with older recipes.
- Restore nested repositories and settings before provisioning. Recheck
company/project source access and preserve conflicting files on retry.
- Recheck recorded contents under cleanup locks before deletion. Persist
lock ownership before atomic publication so process exits recover safely
and foreign locks stay intact. Preserve changed or unsupported contents,
including tracked settings.
- Keep saved project repository selections through normal preparation.
Checkpoint restored contents before provisioning so failed setup can
retry without overwriting later edits.
- Accept bounded linked-worktree FETCH_HEAD records only after local
ancestry or fresh upstream proof. Preserve local-only fetched commits.
- Add real Git/Postgres lifecycle cases and focused content, access,
publication-retry, and fetched-state controls. Document the behavior.

## Verification

- `pnpm -r typecheck` passed.
- `pnpm build` passed.
- The original real Git/Postgres experiment failed with nested B instead
of A. The same path passes with this change.
- The integrated lifecycle suite passed 42 cases in 91.66s. Related
preparation, credential, content, and Git metadata controls passed 46
cases in 24.41s. The final heartbeat checkpoint persistence case passed
separately in 8.17s.
- Coverage includes exact main/nested commits, encrypted settings and
modes, upstream failure and retry, provisioning order, concurrent
reopening, changed unique files, tracked settings, malformed metadata,
and company boundaries.
- Exact-head CI passed the implementation, typecheck, build, security,
and test matrices. One browser shard passed on a single rerun after an
unrelated fixture teardown raced an activity-log write; its feature
assertions passed in the initial attempt.
- The broad local test run was stopped after about 12 minutes of
unrelated serial tests. Full parallel CI is required before merge; no
local full-suite pass is claimed.
- Single-workspace deployment, real-backlog reclamation, and ordinary
product reopening remain required acceptance work after merge.

## Risks

- Expired Git repositories still depend on upstream access. A failed
restoration returns the existing retryable error and never substitutes
the default branch.
- Saved settings use the existing local encryption provider. Recovery
requires that encryption key to remain available.
- Unsupported files, tracked settings, unknown sources, and unverified
Git state remain on disk. This can reduce reclaimed space.
- No database migration, recovery-retention change, public API, or
fleet-default change is included.

## Model Used

OpenAI Codex, GPT-6 family, with tool use, code execution, and an
independent agent review. The runtime does not expose a more specific
model identifier.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-17 22:54:28 -05:00
Devin FoleyandPaperclip 5555817c2b fix(server): let Git expiration verify public commits without a run identity (#16621)
Git expiration created its auth provider with only the issue ID; with a managed GitHub connection that provider throws outside a run ("No managed GitHub identity is available for this run"), so every upstream commit proof failed and was logged as inspection_failed. Expiration now falls back to anonymous access when the provider throws: public repositories verify, private ones stay kept. Upstream verification failures are reported as upstream_commit_unverified, and a managed checkout whose upstream cannot be reached or authenticated as managed_checkout_upstream_unavailable; local proof-store failures keep their own error.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 20:54:30 -07:00
DottaandPaperclip 669d329f25 perf(slack): avoid unused catalog revision scans (#16630)
Slack catalog discovery now checks live task, user, endpoint and credentials without calculating an unused compatibility revision. Full authority callers retain the unchanged revision and search-token path.

Validation: 44 affected cases, full repository typecheck/build, current-head full CI/E2E and security checks, Greptile Base 5/5 with no unresolved findings. Identical production catalog output with revision statements reduced from two to zero in real-PostgreSQL comparisons. Hosted latency acceptance remains pending.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 22:21:03 -05:00
DottaandPaperclip 0528cc7ee0 perf: overlap native GitHub and assigned-tool setup (#16620)
Prepare managed GitHub access and fresh assigned-MCP discovery concurrently for remote native Codex. Wait for both before provider construction and drain both on failure through the existing run cleanup.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 20:19:28 -05:00
DottaandPaperclip dc499ae02b perf(server): reject shared Git cleanup paths before history scans (#16614)
Check the existing global execution/project shared-path veto before scanning retained run contexts. Preserve the full unshared-path query, lifecycle locks and all deletion-phase rechecks.

Verify with 35 focused real PostgreSQL/Git cases, full repository typecheck/build, exact-head full CI/E2E and Greptile Base 5/5. A read-only same-snapshot query pair retained the false verdict while reducing round trip from1089ms to9.4ms; this is not a full-agent latency result. The first security scan was inconclusive after an infrastructure checkout failure; one actual rescan passed.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 18:17:15 -05:00
DottaandPaperclip 9a3290fe10 perf(runner): overlap default remote artifact preparation (#16608)
Prepare the native runner and default image Codex harness together on providers that declare concurrent sync support. Preserve all executable checks, wait for both operations on failure, and retain serial explicit harness installs.

Verified with 881 affected cases, full typecheck/build, exact-head full CI and Greptile Base 5/5. The real Daytona component median fell from 839ms to 432ms; full deployed reply latency remains unproven.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 17:29:27 -05:00
Devin FoleyandPaperclip 73659c6b27 fix(server): let Git expiration discard Paperclip-managed checkouts (#16586)
Reconstructable Git expiration rejected nearly every terminal worktree with unique_ignored_files, because Paperclip writes two ignored paths into every worktree itself: .claude/settings.local.json and the managed project checkouts under .paperclip-repositories/. Expiration now accepts the settings file, and accepts a managed checkout only through a prover the expiration worker supplies. The prover maps the checkout back to its project workspace row and proves it reproducible against that row's repository URL: worktree and stock-storage checks, no linked worktrees, no unreachable objects, and every ref, reflog and HEAD commit reachable from upstream refs fetched fresh into a proof store. Every inspection Git command now runs with core.fsmonitor disabled.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 14:31:06 -07:00
DottaandPaperclip f5534717b0 fix(runtime): preserve unexported native work during lease cleanup (#16583)
Preserve the exact native workspace source until its export is finalized. Apply the same guard to cleanup sweeps and direct environment teardown. Keep stop-only recovery and healthy warm retention available.

Verified with 317 targeted tests, server typecheck, module boundary check, all current-head CI gates, and Greptile 5/5.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 12:56:09 -05:00
DottaandPaperclip ce0eff7d1f perf: reduce fresh workspace clone and sandbox staging waits (#16487)
## Thinking Path

> - Paperclip manages AI agents and their work.
> - Each run needs a private workspace and safe persistence.
> - Fresh isolated repository sources download upstream Git history
again.
> - Sandbox staging also verifies an optional seed cache before it
uploads the workspace.
> - That verification holds a company lock during a full extraction and
hash scan.
> - This pull request reuses pristine Git objects through an
authenticated remote clone.
> - It also overlaps seed verification with upload and moves
verification outside the publication lock.
> - The benefit is less repeated transfer and less serial preparation
work, with the same task isolation and recovery contract.

## Linked Issues or Issue Description

**What existing behavior does this improve?**

Fresh task-private repository preparation and inbound sandbox workspace
staging.

**Current behavior**

Each isolated remote source clones the full upstream history. Optional
seed verification then extracts and hashes another full tree before
upload. One workspace's verification can hold the company cache lock
while other workspaces wait.

**Proposed behavior**

Use a company and credential scoped cache of pristine upstream objects
for GitHub HTTPS sources. Each task still clones from the current
remote. It disconnects from the cache before publication. Run seed
verification alongside upload. Hold the company lock only for final
capacity checks and publication.

**Reason and benefit**

These operations lie on the workspace preparation path. Removing
repeated Git pack transfer and serial verification can reduce startup
time. Local measurements below cover these boundaries. They do not
establish hosted agent latency.

Related: #16425, #16454, #16398, #16461, #16468, #16473. The cache
inspection and durable folder proposal in #13376 covers separate product
work.

## What Changed

- Add a pristine upstream Git object cache for fresh isolated GitHub
HTTPS sources. Key it by company, repository and current credential
fingerprint. Do not store credentials.
- Keep online clone authorization and current remote refs. Use
`--reference-if-able --dissociate` so task objects remain independent. A
reference failure retries once online without the cache and resolves
credentials again.
- Cap cache storage at 64 entries and 4 GiB per company, with 2 GiB per
entry. Skip contended publication. Bound priming by a cooperative
five-second budget and a 4,096-entry scan allowance. Keep the existing
free-space reserve.
- Overlap optional seed verification and required workspace upload.
Settle both before returning or deleting temporary files. Recheck quotas
and company directory identity under the publication lock.
- Keep the independent fresh upstream reproducibility proof, task
commits, dirty source copies, ignored files, nested repositories and
durable recovery behavior.
- Suppress optional Git server-info generation during dissociation so
generated storage passes the existing safe-expiration checks. This uses
[the supported Git
setting](https://git-scm.com/docs/git-config/2.43.0#Documentation/git-config.txt-repackupdateServerInfo).
- Add bounded timing phases, regression coverage and two repeatable
local benchmarks. No first-party Telemetry or dependency changes.

## Verification

- `pnpm -r typecheck`: passed.
- `pnpm build`: passed.
- Affected adapter suites: 240 tests passed. Native workspace
persistence/history and tracing: 33 tests passed. Server
checkout/isolation/tracing batch: 53 tests passed. Final object-cache
authority, path and capacity suite: 12 tests passed. These batches
overlap.
- Cache and expiration/restoration lifecycle batch: 34 tests passed. A
direct generated-storage check covers cached clones.
- Real HTTP Git fixture: a matching cache does not bypass revoked remote
access. Other fixtures cover current refs/tags, hidden cached commits,
independent objects after cache removal, corruption fallback,
credential/company scope, quota limits and publication contention.
- Initial restricted runs hit SQLite write and Unix socket permission
failures. The adapter batch passed with disposable writable instance
state and socket access. The first typecheck rejected the test use of
`Promise.withResolvers`; typed deferred gates now use the supported
library contract.
- Repository benchmark on final head
`9047368bf3b7fa2061e00d698b8b51cf4ae1da32`: five alternating samples,
real local `file://` Git transport, synthetic 32 MiB history, no
injected latency. Median 1143.8 ms to 240.5 ms; ranges 1085.7–1486.6 ms
and 188.0–254.8 ms. Received Git pack bytes fell from 33,569,788 to
zero. Initial cache priming took 1208.4 ms and is reported separately.
- Sandbox benchmark, five alternating samples per mode on 10,000 files
with real packing, extraction and verification: with a controlled
3-second transfer delay, median 9.450 s to 7.620 s (ranges 9.280–12.115
s and 7.296–7.983 s). With no injected delay, median 6.808 s to 6.450 s
(ranges 6.255–7.029 s and 5.709–6.902 s). The no-delay ranges overlap;
local copying competes with verification for disk. Both modes verify
final tree contents, ignored-file exclusion and Git HEAD. These are
synthetic local fixtures, not hosted agent runs.
- Reproduce with `pnpm --filter @paperclipai/server exec tsx
../scripts/benchmark-repository-object-cache.ts` and `pnpm --filter
@paperclipai/server exec tsx ../scripts/benchmark-workspace-staging.ts
--baseline-ref=307eb16c0c --transfer-delay-ms=3000`.
- Prior head `af766bc820` received Greptile 5/5 with no findings. Its
E2E shard 7 failed in `plan-task-fixture` cleanup: company deletion
raced an `activity_log` foreign key. That fixture has no provider run or
Git workspace. The failure is retained here; final-head CI must pass.
The corrected corruption fixture now forces a pack and verifies a real
damaged archive. Current head `9047368bf3b7fa2061e00d698b8b51cf4ae1da32`
has Greptile 5/5 with no review threads or findings. Final head has 55
passing checks and two optional Storybook skips. [The first
workspace-shard
attempt](https://github.com/paperclipai/paperclip/actions/runs/38802441857/job/116655485350)
passed all 1,778 cases, then reported a late `EPIPE` from unchanged
`server-utils.ts` while the ACP reuse test was active. That case mocks
workspace preparation and passed locally in isolation. [Its single retry
on the same
commit](https://github.com/paperclipai/paperclip/actions/runs/38802441857/job/116659728034)
passed, as did the dependent verification gate. The earlier E2E cleanup
fixture passed on this final head. Both initial failures remain recorded
here. A full local suite was not duplicated; the affected boundaries
were run locally and the complete suite runs in CI.

## Risks

- First cache population adds local copying. Cold clones, credential
rotation, capacity exhaustion and a corrupt cache retain the online
clone path. No eviction is added. Cached data is bounded, but many
companies can each consume their allowance.
- Individual filesystem calls and cleanup can exceed the cooperative
priming budget. Failed reference clones make one additional online
attempt.
- Parallel verification and upload compete for disk and CPU. The local
no-delay benchmark shows a smaller gain than a slow-transfer case.
Verification still checks contents before cache publication, and
required upload failures remain failures.
- Local fixtures do not prove hosted throughput or the 15–30-second
end-to-end target. The fresh checkout still writes its working tree, and
model startup, copyback and other preparation costs remain.

## Model Used

OpenAI Codex, GPT-6 family. The exact serving model ID and context
window are not exposed in this session. Used reasoning, source editing,
shell tools and test execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` /
`Closes: #` / `Refs: #` OR (b) described the issue in-PR following the
relevant issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change and contains no internal task
identifiers
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-16 12:21:47 -05:00
DottaandPaperclip 06689c1b34 perf(skills): coalesce inventory before run cache locking (#16576)
Share each active company skill-inventory refresh before taking the version-cache lock. Read actor visibility under the lock and keep snapshot publication protected through durable run pinning. Preserve empty-selection behavior and the list API.

Validation: 176 affected cases, full repository typecheck/build, fresh full CI/E2E, security and exact-head Apex 5/5 pass. The local six-reader latency experiment improves from 50.4s to 18.3s; live response latency is a separate acceptance check.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 10:39:02 -05:00
DottaandPaperclip 8556539364 perf(adapter-utils): batch remote GitHub launcher staging (#16552)
Stage the nine managed GitHub launcher files through one bounded control command. Preserve per-file locks, content verification, atomic replacement and control-channel dispatch.

Real Daytona staging decreased from about one second to 0.24–0.34 seconds. Full CI, E2E, Superagent and Apex 5/5 passed on the reviewed head.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-16 04:59:21 -05:00
Devin FoleyandPaperclip 78b833c495 Dispatch routine and monitor work at saved deadlines (#16514)
## Thinking Path

> - Paperclip manages work that agents run for a company.
> - Routines and issue monitors store their next run time in the
database.
> - The app currently waits for the heartbeat interval to find that
work.
> - This can delay work after a workspace wakes before its saved
deadline.
> - This pull request uses the existing work coordinator to schedule
each known deadline.
> - It also parses each cron expression once, so sparse schedules do
less work on the event loop.
> - Agents can start due work sooner while the existing execution checks
stay in place.

## Linked Issues or Issue Description

**What happened?**

Routine and issue-monitor dispatch depends on the heartbeat scan
interval. A workspace can wake early and still wait for the next scan. A
sparse cron search also parses the same expression for every minute it
checks. In a local annual-schedule test, the deadline callback ran on
time but schedule calculation delayed the routine record by 13.6
seconds.

**Expected behavior**

Use a saved future deadline to request the existing dispatch scan.
Restore deadlines at startup and update them after a producer
transaction settles. Do not let future timers keep an idle workspace
active. Parse a cron expression once for each search.

**Steps to reproduce**

1. Set an active routine and an assigned issue monitor to the same
future deadline.
2. Choose a deadline between heartbeat scans. Use an annual routine
expression to exercise a sparse search.
3. Compare the saved deadline with the routine firing and agent start
times.

**Paperclip version or commit**

Source checkout based on c7ea5c0216.

Related public changes: #16215 reports routine deadlines for external
wake. #8034 caches time-zone formatters in the cron search. This change
reuses those contracts.

## What Changed

- Register separate routine and issue-monitor workers with the existing
delivery coordinator after startup housekeeping.
- Restore the earliest eligible future deadline from the database after
each scan.
- Notify the matching worker when routine or monitor writes settle,
including the native `set_task_monitor` tool. Keep the heartbeat
interval as a recovery scan for blocked or externally written work.
- Retain the scan-start cutoff so a deadline crossed during a slow scan
receives an immediate follow-up scan.
- Retain the coordinator gates for standby, idle drain, and shutdown.
Future timers do not count as active work. Bound expired deadline
retries during idle reconciliation so a paused worker cannot spin.
- Parse a cron expression once during a next-run search. Skip impossible
UTC dates before time-zone formatting. Preserve the existing calendar
and time-zone matching.
- Add clock, transaction, failure, SQL eligibility, and producer
notification tests. Document the scheduler behavior.

## Verification

- `pnpm -r typecheck`: passed.
- `pnpm build`: passed.
- Full CI, browser tests, and security scan: passed on final head
9fc857dcec. Greptile Apex is 5/5 with no
unresolved comments.
- Final focused startup, deadline, routine, SQL eligibility, native
monitor, cron, and coordinator tests: 159 passed across seven suites.
The crossed-deadline and native-notification regressions failed before
their fixes.
- CI caught the existing startup suppression assertion. It failed
locally before restoring the outer timer-dispatch guard; all 38 startup
tests now pass.
- A canceled-drain regression also failed before the fix. Future timers
keep their saved time; only expired deadlines use the bounded idle
retry. Server typecheck and build passed again.
- The idle-drain regression reproduced 22 checks in 20 ms before its
fix. After the fix, 43 coordinator and related worker tests passed.
Server typecheck and build passed again after the review fixes.
- The broad local `pnpm test:run` attempt reported existing
host-sensitive failures. Two Git fixture tests fail identically on
unchanged c7ea5c0 because the host default `main` leaves an extra branch
in an intended master-only remote. Both pass with a command-scoped
`init.defaultBranch=master` setting. No Git settings were changed on
disk.
- A diagnostics test also fails on both unchanged master and this branch
because its broad `private` substring assertion matches the canonical
macOS temporary source path in an error stack. A local Anthropic hire
assertion failed only in the broad run; all 70 tests in that file pass
on both source revisions when run separately. Its broad-run cause is not
determined. These failures remain recorded. The full exact-head CI
matrix passed; the broad local development attempt was then stopped.
- An earlier full run was interrupted after PostgreSQL reported host
shared-memory exhaustion. One retry was stopped when timing required the
UTC optimization. Acceptance then used an owned database on the existing
local PostgreSQL service. No shared services were stopped or reset.
- Local dispatch: routine record at +0.102 s, routine agent start at
+0.171 s, monitor agent start at +0.159 s. Both scripted agents
succeeded using real run-scoped API authentication. No model provider
was called. No duplicate runs occurred during the 70-second follow-up.
Platform: macOS, Node 25.6.1, isolated database on local PostgreSQL 16,
source checkout. The final run used a fresh database and a clean
checkout of 9fc857dcec.
- The first timing run exposed the repeated cron parsing described
above. A diagnostic run showed the timer fired 1 ms after the deadline
while the annual search blocked the event loop. Parsing once reduced
local dispatch to 5.9 seconds, which still missed the five-second test
target. The next change skips impossible UTC dates before formatting. A
second regression failed before that fix. The final timing result and
duplicate check passed.
- A separate acceptance setup failed because the direct local server had
no agent signing key. That owned fixture was removed. The retry uses an
ephemeral key in its isolated process environment.
- Owned fixtures were deleted, the local runtime exited normally, and
the disposable databases were dropped. Shared services remain running.
- No production deployment or npm publication is part of this PR.

## Risks

- Known deadlines now trigger a scan between heartbeat ticks. Existing
atomic claims, suppression checks, budgets, and execution rules still
decide whether work runs.
- Direct database writers rely on the heartbeat recovery scan. Overdue
blocked work also retains that recovery interval to avoid a tight retry
loop.
- This is not a hard real-time guarantee. Provider startup, queue load,
and other synchronous work can still delay agent execution.
- No database migration or API schema change. Revert this commit to
restore interval-only dispatch.

## Model Used

OpenAI GPT-6 (Codex), with reasoning, repository tools, terminal
execution, and automated tests. The session does not expose a more
specific model version or context-window size.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change and contains no internal
Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass for the changed areas;
full-suite CI and local exceptions are documented above
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-15 22:44:17 -07:00
DottaandPaperclip 67a9d5cc37 perf(runner): bypass skill cache waits for empty selections (#16498)
Native runs with no skill files no longer queue behind company skill-cache work. Preserve saved empty selections and the existing exclusion for selected and legacy operational skills.

Verified with real PostgreSQL held-lock regressions, 20 distinct affected cases, full repository typecheck/build, fresh full CI/E2E/security and exact-head Apex 5/5. Hosted latency remains to be verified.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-15 17:01:57 -05:00
Dotta f1d925b726 fix(issues): keep workspace restoration failures retryable (#16489)
## Thinking Path

> - Paperclip manages agent work and its saved files.
> - Finished Git workspaces can expire and restore from a saved commit.
> - A task comment must restore a closed workspace before the comment is
saved.
> - Failed restoration returned HTTP 503 and hid the restoration
message.
> - The composer treats 5xx writes as uncertain, so it blocked the draft
instead of offering a clear retry.
> - This change returns a definite rejection before the write and
preserves the restoration message.
> - Users can restore repository access and retry the same draft.

## Linked Issues or Issue Description

Refs #16457 and #16476.

Live acceptance found this gap with a disposable expired workspace and
an unavailable upstream. The saved commit and unique-file control stayed
intact. No fallback workspace or comment was created. The UI still
showed an uncertain comment result because the route returned 503.

## What Changed

- Return HTTP 409 for a rejected workspace rebuild before the consuming
write.
- Preserve the service's safe restoration message in the response.
- Cover rejected comment, comment-update, and checkout paths.
- Document the response and draft retry behavior.

## Verification

- `pnpm exec vitest run
server/src/__tests__/issue-closed-workspace-routes.test.ts
ui/src/api/issues.test.ts`: 38 passed in 26.80s.
- Route tests assert that failed restoration does not save a comment or
update the task.
- Existing client controls preserve 409 rejections and still treat
network failures and 5xx writes as uncertain.
- `pnpm -r typecheck` and `pnpm build` passed. Full PR CI passed on
attempt 2: [run
38804449401](https://github.com/paperclipai/paperclip/actions/runs/38804449401).
The first attempt timed out in the unrelated fresh personal-AI
connection browser case while waiting for its first reply. Logs and
browser evidence were inspected and retained; only failed jobs were
rerun once, and that shard passed.
- Retained live fixture will verify the error, retry, exact saved
commit, and subsequent persisted work after deployment.

## Risks

Clients now receive 409 instead of 503 for this known pre-write
rejection. They must retry after repository access is restored. The
route uses the service's fixed messages, not raw Git errors. This change
does not alter restoration, authorization, cleanup, or genuine
uncertain-write handling.

## Model Used

OpenAI Codex, GPT-6 family, with code execution and browser tools. The
exact deployment model ID and context-window size are not exposed in
this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change and contains no internal
Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge
2026-10-15 15:59:31 -05:00
DottaandPaperclip 59a70dc9e2 fix(workspaces): expire reproducible Git files and restore exact commits (#16457)
## Thinking Path

> - Paperclip manages AI agents and their task workspaces.
> - Isolated Git worktrees and private repository copies remain on the
host after tasks finish.
> - These files can fill the disk even when every commit is available
upstream.
> - Cleanup must retain unique files, local Git state, live work, and
recovery data.
> - This pull request records and verifies an exact-commit restoration
recipe before expiration.
> - Normal reopening restores that commit even after upstream advances.
> - The benefit is lower host disk use while finished tasks remain
available for later work.

## Linked Issues or Issue Description

Refs #10285 and #2022. Follows #16433 for skill-cache expiration.
Related #11936 provides separate host-local cleanup tooling; this change
extends the existing company-scoped lifecycle worker and normal
workspace reopening. ROADMAP.md does not specify a competing
implementation.

## What Changed

- Add opt-in expiration for verified Paperclip-owned Git worktrees after
their whole task tree has been done or cancelled for 24 hours.
- Preserve active and scheduled runs, previews, pending reopening,
unresolved recovery, dirty files, unknown ignored files, and unsupported
or unique Git state.
- Verify an authenticated fetch in a fresh object store. Save repository
identity, exact commit, branch, and ownership before any deletion.
- Rename eligible files into recorded managed trash. Resume interrupted
cleanup under source and lifecycle locks.
- Expire private base clones only after consumer, file, reference,
reflog, and object checks pass. Preserve shared project base clones.
- Rebuild missing bases and worktrees through normal reopening at the
recorded commit. Return an explicit retryable error when repository
access fails.
- Add independent workspace/base switches, dry-run reports,
reclaimed-byte counts, and operational documentation. No table, public
API, UI, or recovery-retention change.

## Verification

- Real local bare remote plus Postgres: create at A, advance upstream to
B, expire the worktree and private base, reopen at A, then make and
retain a subsequent commit.
- Final lifecycle suite: all 20 tests passed in 46.41 seconds at
`d72947a2e45be5d0c912debb03c46b15863b4798`. Review fixes cover
second-cycle expiration, newer-branch recovery, normal preparation after
restoration, branch adoption, and Git administration path controls.
Eleven existing branch reconciliation controls also passed. Covers
unique files and Git state, live descendants, scheduled runs, recovery,
previews, unauthorized access, upstream failure, concurrent reopening,
interrupted deletion, shared bases, and nested private worktrees.
- Final guard regressions: 3 affected tests passed. Existing
workspace/runtime/preparation/source controls: 328 tests passed in
238.69 seconds.
- Full repository typecheck and build passed locally. The full local
test attempt did not pass: initial native-session cases hit macOS
Postgres shared-memory exhaustion, source changes invalidated two
discovery cases, and the checkout disappeared near the end. The
final-code retry of the remaining skill and unrelated controls passed
all 103 tests. All checks passed on this exact head, including
typecheck, general and serialized tests, Runner checks, build, canary
dry-run, browser E2E, and security scans. Greptile reviewed the head at
5/5 with all findings resolved.
- Fixed a blocking CI policy false positive for
`docker-compose-secrets.test.mjs`. The test still rejects GitHub secret
expressions, including dot, bracket, and multiline forms. Its full
15-test suite passes.
- Map validation and `git diff --check` passed.
- Staging dry-run inspection, measured reclamation, and ordinary product
acceptance remain pending. No live acceptance is claimed.

## Risks

- Git restoration depends on continued upstream availability and
credentials. Cleanup skips unverified commits; restoration never
substitutes the default branch.
- File deletion requires multiple conservative proofs. Unknown or
unsupported state is retained and can limit reclamation.
- Source and lifecycle locks serialize preparation, reopening, and
expiration. Remote verification has a deadline but can delay work on the
same source.
- Start with both expiration switches disabled. When enabled, dry-run
remains the default. Rollback disables further deletion while retaining
restoration support.

## Model Used

OpenAI GPT-6 through Codex, with reasoning, repository inspection, tool
use, and code execution. The exact backend model ID and context-window
size are not exposed in this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass (focused tests; full local
limitation documented above)
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-15 13:09:59 -05:00
DottaandPaperclip 68a09dcb5f perf(ci): shorten the test execution critical path (#16434)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Contributors wait for the full PR workflow before they can deliver
fixes.
> - Server shards still execute independent files in series, and a
single Runner file serializes two long real-clock waits.
> - Faster work outside the critical path does not prove a faster
workflow.
> - Overlap independent files while preserving isolation, test cases and
real production deadlines.
> - Compare complete baseline and candidate workflows, separating queue
delay from execution cost.

## Linked Issues or Issue Description

Refs #16429. Related duration refresh: #12577.

**What existing behavior does this improve?**

The elapsed time from PR CI creation to the last required check.

**Current behavior**

General server shards use one worker. One Runner transport file takes
about 333 seconds on Linux, including over 100 seconds in two real-clock
regressions. These are the longest verification lanes after #16429.

**Proposed behavior**

Run independent general-server files in at most two isolated forks. Move
the two intact Runner deadline regressions into a separate file to
overlap their waits in the existing pool. Run two chat partitions per
existing job, each with its own temporary home and embedded PostgreSQL.
Preserve serial execution within files and every assertion and timing
boundary.

## What Changed

- Qualify both serial and parallel forks with real worker processes,
isolated homes/configuration, timers, globals and environment.
- Require both parallel workers to arrive before either exits.
- Use two isolated forks for sharded general-server tests; retain one
worker with an explicit shared test database. Other test groups keep
their existing concurrency.
- Extract the lease-expiry and Pi cold-admission regressions verbatim
into a separate Runner test file; retain real waits and process/lease
assertions.
- Split each sharded chat job into two independent invocations; preserve
serial shared-database execution. Await both children before failing the
parent. Prove disjoint coverage and failure propagation.
- Update the paired Linux benchmark to compare a complete general-server
shard with identical case inventories.
- Document concurrency and deadline-test placement. No production
behavior, workflow topology or runner count changes.
- Allow 15 seconds for snapshot integration cases that cold-start
multiple real TypeScript workers. On the repeat, one-worker cases took
2.5–3 seconds, so queued or sequential starts could exceed the default
five seconds. Preserve all cleanup, queue-release and filesystem
assertions; these cases do not enforce a production latency deadline.

## Verification

All 48 jobs passed on scheduling head `5d718e18` in [attempt
1](https://github.com/paperclipai/paperclip/actions/runs/38763885288/attempts/1).
The [bounded
repeat](https://github.com/paperclipai/paperclip/actions/runs/38763885288/attempts/2)
failed two existing snapshot-worker tests at their default five-second
timeout. Its shorter duration is **not** counted as a successful
performance sample. The latest head `3c894462` adds a targeted
test-budget repair and [passes all 48 CI
jobs](https://github.com/paperclipai/paperclip/actions/runs/38768433532)
in **8m06s** (workflow creation to final required workflow job). This is
**70 seconds / 12.6% shorter** than the 9m16s intermediate run, but the
earlier 9m23s result remains part of the evidence: a stable average
improvement is not established. Both branch-protection checks (`ci /
verify` and `ci / e2e`) pass. The non-required Superagent Security Scan
is still running; external PR scans are separate from this workflow
duration.

| Measurement | Before | After | What it establishes |
| --- | ---: | ---: | --- |
| General-server shard, paired on one Linux host | 430.94s | 292.99s |
32.0% faster; identical 1,047 case inventory |
| Chat job 1 | 460s | 211s | Same full chat inventory spread across
isolated partitions |
| Chat job 2 | 408s | 274s | Serial cases within each child, separate
PostgreSQL instances |
| Chat job 3 | 408s | 216s | Total chat runner time fell from 1,276s to
701s |
| Full PR workflow, first chat candidate | 9m16s | 9m23s | Not an
end-to-end win in this pair: unchanged Build rose from 365s to 465s |
| Full PR workflow, final repaired head | 9m16s | 8m06s | All 48 jobs
pass; 70 seconds faster observed, not a controlled causal estimate |

- Latest [paired
benchmark](https://github.com/paperclipai/paperclip/actions/runs/38763885223)
passes. Earlier paired server measurements were 33.3% and 37.4% faster.
Unchanged fixture timing noise is not attributed to this PR.
- All **1,337 chat case identities and outcomes match exactly** across
[before-chat](https://github.com/paperclipai/paperclip/actions/runs/38760937988)
and
[after-chat](https://github.com/paperclipai/paperclip/actions/runs/38763885288/attempts/1),
without duplicates or removals. Whole-suite records rose from 44,563 to
44,574: three new launcher checks and eight upstream warm-owner tests.
Remaining name differences were generated fixture IDs/timestamps/PIDs,
not removed tests.
- The final run used `m7i-flex.xlarge` for Build (408s), with all chat
jobs completing in 238s / 318s / 280s. It used the same actual merge
base `afe5b341` as the first chat candidate. Optional profiling was
disabled after the bounded measurement experiment; the full 48-job
correctness workflow still ran.
- The fleet used `m7i.xlarge` for the earlier Build and `m6a.xlarge` for
the first chat candidate Build. Several unchanged compile/install/probe
phases slowed together. This does not prove hardware alone caused the
difference, and full-run attribution must account for runner/cache
variance and the upstream base change.
- Original full baseline: [all 48 jobs
passed](https://github.com/paperclipai/paperclip/actions/runs/38753547876/attempts/2),
12m07s, including a server job that queued over five minutes. It is not
a clean basis for attributing the whole elapsed-time reduction to this
PR. An interrupted baseline and two misrouted candidate attempts were
excluded and preserved; routing/trust rules were not weakened.
- Local: 32 sharding/launcher checks pass, including disjoint coverage,
shared-database fallback and a failed child that waits for its sibling.
Real paired chat partitions passed 416 cases in 217.63s on independent
embedded databases.
- Both extracted Runner deadline regressions pass unchanged with real
waits. An initial local attempt rejected a Node executable under the
controller home; the identical binary in an owned non-home path passed
without weakening that guard.
- Real worker-isolation proof, actionlint and diff checks pass.
Latest-head Greptile is **5/5**, with no review threads or actionable
findings.
- The eight snapshot-worker cases pass locally with a private
`PAPERCLIP_HOME`. The first direct local invocation failed to open the
default-home lock database under the sandbox; no production guard was
changed.

## Risks

Parallel files and paired chat databases may expose shared-state
assumptions or increase peak memory. Cases stay serial within each
invocation, and explicit shared databases keep the serial path. Complete
server coverage and the full 48-job CI workflow pass. Check external
required PR scans before merge; the full-workflow measurements are
observational and do not establish a steady 12.6% speedup. Queueing,
cache state and runner variance must be distinguished from execution
improvements.

## Model Used

OpenAI GPT-6 through Codex, with repository inspection, code execution
and GitHub tools. The exact serving model suffix and context capacity
are not exposed to this session.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green (48 jobs; both required
branch-protection checks pass; non-required external security scan
pending)
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-15 12:22:59 -05:00