Commit Graph
2005 Commits
Author SHA1 Message Date
DottaandPaperclip ebe8910c29 Merge synchronized native tracing into portable controller runtime
Include the safe evidence-reader module in portable inventory and preserve current master checkbox behavior plus release completion waits.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-26 09:35:35 -05:00
DottaandPaperclip a1f77821b9 perf(tasks): show recent conversation before historical activity (#17593)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - A task page must show the instruction and current conversation
quickly.
> - The current page waits for related task data and historical run
transcripts.
> - These reads grow with task history, even when the reader only needs
the latest answer.
> - This pull request gives cold opens a small initial view and loads
older history on demand.
> - Messages and runs observed while the page stays open remain visible.
> - The benefit is a readable task before historical diagnostics finish
loading.

## Linked Issues or Issue Description

Related: #14667 and #16229. The first changes the reveal gate and scroll
anchors. The second adds general history pagination. This PR adds a core
task read and a folded recent-conversation view. It preserves the
default full-read API contracts. The shared files will need coordination
if either related PR lands first.

**What existing behavior does this improve?**

Cold opening an ordinary task with a long conversation or large run
logs.

**Current behavior**

Task enrichment and historical transcripts delay the readable
conversation. A cold open can fetch several megabytes of tool activity
before revealing saved messages.

**Proposed behavior**

Show the task instruction, recent saved replies, latest human input, and
the latest run's conversation data first. Fetch older messages and full
run activity when the reader chooses **More messages**. Retain new
messages while the page stays open.

## What Changed

- Add an authorized core issue view that skips related enrichment. Keep
enrichment on the existing detail read. Share task mutation, rollback
and invalidation updates with the core cache.
- Add a bounded recent-comment read. Preserve the first human
instruction when no description exists, including legacy rows with a
NULL author type. Keep company and task access checks and comment
redaction.
- Add optional recent activity and run-summary views. Fetch original
input receipts for visible comments separately so delivered messages
stay out of the queue. Reconcile watched unfinished runs after a
reconnect beyond the preview window, removing deleted runs after
reconciliation.
- Filter the latest native run's initial events to assistant messages,
request lifecycles and terminal results. Full event reads remain
available on expansion. Legacy fallback reads use a small tail extended
to the first complete record. HTTP cancellation aborts the storage read.
- Retain observed messages across cursor catch-up and new runs. Apply
local cancellation and deletion to both caches and their task aliases.
Refetch locally seeded history pages on expansion. Preserve expansion
across identifier and UUID links. Keep deep links, classic tasks and
Agent Chat on their existing full-history path.
- Update API documentation, design guidance, capability maps and
regression coverage.

## Verification

- Final acceptance on `9ea0b15ae44d9f6d2c9a9f824b4835f299f92979`: all CI
gates passed, including server/UI tests, all eight browser shards,
runner checks, full typecheck and build. [Final CI
run](https://github.com/paperclipai/paperclip/actions/runs/40326990328).
GitHub reports 55 successful checks, two intentionally skipped checks,
and one neutral Paperclip Review check described below. No checks are
pending or failed; Greptile is 5/5 and no review threads remain open.
- October 26 merge update: merged current `master`. The only conflict
was in task-page imports; both the compact-history hook and the new
live-update hooks remain. All CI tests and build jobs passed on
`044fd6733d`. Fresh review found canceled-comment cache drift, legacy
human-comment filtering, send-then-expand truncation, and partial legacy
log records. These defects were fixed in `af3d66a5bd`.
- Review-fix verification: 470 tests pass across ten affected suites,
including all six PostgreSQL cold-open tests without a helper override.
Cancellation/delete and send-then-expand regression tests failed before
the fixes and pass afterward. Coverage includes task identifier/UUID
reopen, stale in-flight reads, legacy NULL author types, local-file and
object-storage tails cut inside UTF-8 text, route forwarding, and
request cancellation. Full workspace typecheck and production build,
token gates, map validation and diff checks pass.
- Follow-up review found that a failed expanded legacy read lost its
record-alignment state on retry. `9ea0b15ae4` commits the expanded
window only after a successful read. The new regression fails before the
fix and passes afterward; all 19 transcript tests, UI typecheck, UI
build and token gates pass. Greptile reviewed this commit at 5/5 with no
actionable findings, and all review threads are resolved.
- The final Paperclip Review check ended neutral because its execution
did not complete; no passing Paperclip assessment is claimed. Its
earlier four concrete findings were fixed and regression-tested.
Greptile and the security scans completed successfully on the final
commit.
- The preceding `af3d66a5bd` CI run was canceled when superseded by the
retry fix. Its server shard 11 check briefly reported failure, but the
job API records cancellation and its test step passed all 1,750 tests.
This superseded run is not used as final CI acceptance.
- 549 focused tests pass on the final implementation across nine task
UI, activity-route, OpenAPI and PostgreSQL suites. These cover pending
history, desktop/mobile visibility, expansion, retained runs, message
bursts, cancellation recovery and queued-comment removal in both views.
- Legacy expansion keeps the latest answer visible while fetching and
deduplicating older output.
- Five PostgreSQL tests pass for core access denial, recent comments,
missing-description instructions, event paging and bounded activity/run
reads. macOS could not start another PostgreSQL cluster because it
exhausted its semaphore limit. These tests used a separate disposable
database on an existing local server through a temporary test setup
override. The helper was restored afterward.
- Full workspace typecheck and build pass with the final state fixes, as
do token gates and capability-map validation.
- Token gates, capability-map validation and `git diff --check` pass.
- Browser proof used a disposable task with 80 comments and six large
run histories. The cold view showed the instruction and recent exchange.
**More messages** revealed older comments. Navigation away and back
preserved expansion.
- Local HTTP sample: core 50 ms, recent comments 24 ms, recent run
summaries 17 ms. The latest native conversation response was 839 JSON
characters / 8 ms; its full event response was 1,099,005 / 86 ms.
Browser content paint was 1.34 seconds with development assets cached.
These are local observations, not staging latency claims.
- The first CI run passed every job except four board-send browser cases
and the review threshold. Those browser fixtures only mocked the old
comments endpoint; they now serve both recent and full reads, retaining
all message and attachment assertions. Both initial review findings were
fixed with regression tests. The next CI run passed every job. The
deeper review identified core-cache mutation, older delivery receipt and
retained run-status gaps; those are now fixed with regression coverage.
Final review is 5/5 with zero unresolved findings. Final-head CI
initially failed one unchanged runner shutdown test
(`runnerd-codex-transport.test.ts`, timeout-attachment case) with
`NativeSessionCloseUnrecoverableError`; all other CI jobs passed. The
same runner code passed on 971a762f80. A targeted local reproduction
also failed during provider drain. The failure is outside the changed
task loading paths; its underlying cause remains unresolved. The single
failed-job retry passed on the same head; this demonstrates recovery,
not a root-cause fix. All CI gates passed on the previous implementation
head `9004f94f28`: [CI run and
retry](https://github.com/paperclipai/paperclip/actions/runs/40192334629).
- `pnpm test:run` was attempted and stopped after repeated embedded
PostgreSQL startup failures. The native session suite recorded 15
database-related failures; other database suites could not start. No
complete local suite pass is claimed.

## Risks

- The compact view intentionally omits older diagnostics until
expansion. Existing open questions and approvals still use the current
interaction and run paths.
- Previously observed comment and activity rows remain cached while
open. The newest preview and incoming cursor pages refresh; this does
not add a general historical-edit synchronization protocol.
- Recent views are optional. Existing full API callers retain their
response shape and behavior. No migration is required.
- A legacy tail can exceed the requested byte limit by the prefix of its
first log record. Backward reads stop at the preceding record boundary
and honor cancellation.
- Staging has not been deployed or qualified with this change. Instance
startup latency is separate from task history loading.
- The related open PRs touch the same task-history files.

## Model Used

OpenAI Codex, based on GPT-6, with reasoning, repository editing, shell
tools and browser testing. The exact serving model identifier 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 — 549 affected task tests;
the full local suite and unrelated runner failure 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>
2026-10-26 08:11:39 -05:00
DottaandPaperclip 4b89eec644 fix: check selected workspace projects before offering retry (#17552)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Task recovery explains access failures before a user retries saved
work.
> - A task project and its selected workspace are separate settings.
> - Moving a task can retain files from a project that the agent cannot
access.
> - The recovery notice checked only the task project or a past failure
record.
> - This pull request checks the projects required by the current
workspace selection.
> - The notice now offers Retry only after those project checks pass.

## Linked Issues or Issue Description

Follow-up to #17509. Related: #13230 concerns workspace binding
consistency; this fix changes recovery presentation only.

**What happened?**

A task could show “Project access is ready” after moving to an allowed
project while keeping a repository from a denied project. Typed failures
could also keep the notice blocked after an authorized workspace
replacement.

**Expected behavior**

Use the current task, workspace, and source project requirements. Honor
a valid pending selection for the next admission. Keep stale, archived,
or missing selections blocked without offering a project-permission
repair.

**Steps to reproduce**

1. Assign a low-trust agent to a task whose selected source belongs to a
denied project.
2. Persist a project access failure.
3. Move the task to an allowed project without changing its selected
files.
4. Reload the task. The notice must still explain the access block.
5. Select an allowed source through the workspace API. Reload the task.
The notice must offer an explicit retry without starting work.

**Paperclip version or commit**

Reproduced after #17509 on master. The regression failed on the old
projection and passed with this change.

## What Changed

- Batch the current workspace project requirements for tasks with
project access failures.
- Check retained workspace and source projects, plus valid pending
workspace selections.
- Keep unknown historical denial projects unnamed. Do not expose
unrelated project identifiers.
- Keep unavailable workspace selections in the non-retryable failure
state. Adding project permissions cannot repair these selections.
- Add real database regressions for project moves, pending and applied
repairs, stale revisions, archived pending selections, and
foreign-company workspaces.
- Update the recovery contract and verification recipe.

## Verification

- Red-green regression with the real issue update service and execution
access check.
- Focused tests: 17 tests passed across `agent-project-access.test.ts`
and `task-interruption-presentation.test.ts` after rebasing on current
master.
- Browser: the retained source stays blocked when the task project is
allowed. Manage project access opens Permissions / Trust with Allowed
projects and Add project.
- The normal workspace API accepted an allowed pending selection.
Returning to the task showed “Project access is ready” and Retry.
Permissions and run count did not change.
- Full repository typecheck and build passed before the final
presentation adjustment. The final adjustment passed server typecheck,
server build, and all 17 focused tests. The stale, archived, and
foreign-workspace cases failed before this adjustment. Map and
module-boundary checks passed.
- Browser: an archived pending workspace shows the existing failure
notice without Retry or a project-permission action.
- `pnpm test:run` was attempted and stopped after 15 native runtime
database tests failed because embedded PostgreSQL could not initialize
on this host. The focused database tests passed on isolated PostgreSQL
18 in Docker. All technical CI checks passed on `a6e9f977`. Fresh CI and
review are required for the presentation adjustment. One Runner shard
passed on its single rerun after a provider shutdown failure. A fresh
local Runner build also passed that case and its reuse sibling. The
prior Paperclip Review could not publish its assessment. Its saved
presentation finding is addressed. Merge waits for a fresh published
review and all checks on the current head.

## Risks

- Presentation must follow workspace selection precedence. Tests cover
retained bindings, valid pending changes, stale changes, and company
isolation.
- This adds at most three bounded reads for tasks with a project access
failure. It adds no reads for this purpose on unaffected tasks.
- Dispatch remains the authorization authority. This change does not
grant access, move files, or start execution. No migration is required.

## Model Used

OpenAI Codex, GPT-6, with reasoning, repository inspection, code
execution, and browser tools. The exact serving model identifier and
context window were 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
- [ ] 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>
2026-10-26 07:30:27 -05:00
Devin FoleyandPaperclip 7703220d38 perf(github): narrow response authority reads (#17686)
Read current GitHub response identity and policy fields without transferring saved message bodies, instructions, or automatic policy wrappers. Preserve company predicates, shared locks, publication leases, malformed input handling, and stored content.

Verify workspace typecheck, server build, 414 selected GitHub tests, three focused browser cases, all 55 checks, and Apex 5/5. Preserve the original browser cleanup deadlock failure; always restore experiment settings while reporting cancellation errors.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 20:52:09 -07:00
DottaandPaperclip 5cea9c7c0e fix(ui): show eligible wake targets when resuming tasks (#17521)
## Thinking Path

> - Paperclip manages agents and their assigned tasks.
> - A task pause controls execution without changing task status.
> - Resume can remove that pause and request work from eligible
assignees.
> - The preview counted blocked tasks and former executors as wake
targets.
> - The release route correctly skipped those targets, so the dialog
promised work that did not start.
> - Resume also trusted stale pause snapshots after tasks were reopened.
> - This PR aligns preview with execution eligibility and rechecks
current task state when releasing a pause.

## Linked Issues or Issue Description

**What happened?**

Pause an assigned blocked task, then open Resume. The dialog says that
one task will resume and offers to wake one agent. Applying it only
removes the pause. The route skips blocked and backlog tasks. A former
executor can also inflate the wake count after reassignment.

**Expected behavior**

The dialog must distinguish removing a pause from starting work. Its
wake count must use the current assignees and statuses accepted by the
release route. Blocked work must stay blocked.

**Steps to reproduce**

1. Open an assigned blocked task.
2. Choose Pause work, then Resume task.
3. Inspect the wake count and apply Resume work.

Related runtime recovery work is tracked separately in #17097 and
#17439. This PR does not change remote execution recovery.

## What Changed

- Share the resume status list between preview and release. Count only
current assignees on todo, in-progress, and in-review tasks for resume
wakes.
- Explain that Resume removes the pause. Show the existing preview
warnings, including tasks that remain idle.
- Disable and uncheck the wake option when no agents qualify. Send the
same choice to the server.
- Reevaluate previously skipped pause members after reopening or
releasing another hold. Retain active-pause and unsafe-execution guards.
- Add real PostgreSQL and HTTP-route regressions plus browser coverage
for both task interfaces. Keep draft, ancestor-pause, and
Stop/reconciliation coverage.
- Update the task coordination maps. Add an opt-in dedicated test
database URL for hosts where embedded PostgreSQL cannot start.

## Verification

- Final head `9548eb16736f632cc111a5c13a9a994ec1d95a13`: all 55
completed checks pass, with two optional Storybook checks skipped. [CI
40188094904](https://github.com/paperclipai/paperclip/actions/runs/40188094904)
passes, including typecheck, build, all general/serialized suites, and
all eight E2E shards. Greptile is 5/5 on this commit; the reopened-task
finding is fixed and resolved.
- Red: the real PostgreSQL regression receives three agents instead of
the one eligible current assignee on the original code.
- Green: all 27 tree-control service, route, and unit tests pass. They
cover current assignees, blocked/backlog exclusions, reopened tasks,
company boundaries, remaining pause holds, and execution blockers.
- The reopened-task route regression fails on the previous
implementation: skipped members never reach preflight/wake, and an
unsafe replay releases the hold instead of returning 409. All cases pass
with the fix.
- Browser: all five applicable cases pass together (90 seconds):
blocked-work resume in both interfaces, draft/ancestor-pause cases in
both interfaces, and the process
Stop/pause/reconciliation/restart/cancel lifecycle. The optional
native-runner fixture is skipped locally because its fixture binary is
not configured.
- All 157 task-page component tests pass on the prior commit; subsequent
changes affect the server route and Stop fixture only.
- `pnpm -r typecheck` and `pnpm build` pass before rebase, and CI
typecheck/build passed on the previous PR commit. Server typecheck
passes again after the route fix. The final-head CI run also passes
these full checks.
- `node scripts/check-maps.mjs`, `node scripts/check-token-gates.mjs`,
and `git diff --check` pass.
- Full `pnpm test:run` was attempted but did not complete: this host
cannot initialize embedded PostgreSQL, and unrelated workspace-runtime
tests timed out. The focused database tests and E2E suite use disposable
PostgreSQL 18 instead. All general-test and serialized-test CI shards
passed on the previous PR commit; the final-head CI run also passes
every test shard.
- The first CI run caught the existing Stop test trying to check a
disabled wake option for blocked legacy work. It now asserts zero wake
targets and retains the no-execution-before-reconciliation checks.
- Earlier E2E attempts exposed fixture problems: assignment started the
fixture before it was paused, and the classic interface had two matching
editor nodes. The fixture now enables dispatch after the hold exists and
scopes the final assertion to the task composer. No product assertion
was removed.

## Risks

Resume preview is a snapshot. The release route still checks current
status, assignment, and execution blockers. It does not bypass approval,
budget, or recovery gates. Pause, cancel, and restore keep their
existing affected-agent semantics. The test database override only
accepts a dedicated database name ending in `_test`; it runs migrations
before the suite and closes its clients afterward.

## Model Used

OpenAI GPT-6 through Codex, with reasoning, repository tools, browser
control, and code execution. The runtime does not expose a more specific
model ID 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>
2026-10-25 21:49:52 -05:00
Devin FoleyandPaperclip 9f3a5456ac perf(server): bound run reads in authentication and conversation recovery (#17663)
Read compact run identity during authentication and compact turn state during conversation recovery. Preserve fresh checks, durable steering and reply evidence, locking, and complete stored payloads.

Validate 184 targeted PostgreSQL and lifecycle tests, workspace typecheck, server build, full CI, and Apex 5/5.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 15:53:18 -07:00
Naeem AkhtarandPaperclip f9581e533e perf(server): find the native event cursor through the source seq index (#16140)
Find the contiguous native cursor in PostgreSQL while preserving gaps, late arrivals, source isolation, and event replay. Verify a long-history response budget against current master.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 15:35:36 -07:00
Naeem AkhtarandPaperclip 2a45fd95df Reduce newer-run history reads for attention (#15697)
Replace broad newer-run responses with bounded company-scoped existence probes. Read keyless history once per unique agent and preserve existing matching and millisecond rules. Keep all stored run data.

Verify with 31 real PostgreSQL attention tests, workspace typecheck, server build, response-budget counterfactuals, full green CI, and Apex 5/5 review.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 14:15:03 -07:00
Devin FoleyandPaperclip f0b597172b perf(skills): verify bundled releases with current inventory digests (#17652)
Use current scoped database inventory fingerprints and the current on-disk expectation before reusing bounded snapshot verification. Preserve full validation, seeding and access checks when content, expectation or row existence changes.

Verified177 skill and authorization tests, workspace typechecking, server build, all green CI and exact-head Apex5/5. Prior staging release measured and saved Legacy data fingerprints preserved.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 13:37:11 -07:00
Devin FoleyandPaperclip 67aa87a93b perf(recovery): skip unchanged retained workspace evidence writes (#17650)
Guard the retained-evidence update with its existing JSONB comparison. Reuse the full first result when evidence is unchanged, while preserving new evidence delivery, source-bound retention, cleanup, and recovery holds.

Verified with 199 recovery and retention tests, full workspace typechecking, the server build, green CI, and exact-head Apex5/5.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 12:58:50 -07:00
Devin FoleyandPaperclip 1949e726f8 perf(recovery): read only legacy terminal control fields under lock (#17646)
Select only runtime mode, status, complete result evidence and the delivery token from the locked legacy terminal-state read. Keep filters, row lock, guards, writes, full returned rows, source retention and recovery holds.

The synthetic regression reduces a 699,454-byte read to under 4 KB while preserving full stored and returned data. All CI checks, 236 combined tests, workspace typecheck and server build pass. Apex 5/5 after correcting a documentation contradiction, with no unresolved comments.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 11:46:29 -07:00
Devin FoleyandPaperclip 332e4c5df9 fix(native): settle completed results that retain a valid monitor (#17641)
Preserve a valid saved monitor after its successful source releases execution and checkout. Recheck accepted result identity, receipts, ownership and governance under the task lock. Notify the existing scheduler once and preserve accepted live and recovered replies.

Apex 5/5 after fixing its reply-presentation finding. All CI checks, 191 focused tests, 293 broader native tests, workspace typecheck and server build pass. Hosted effects require staging verification.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 10:47:02 -07:00
Devin FoleyandPaperclip 19ec787e5b perf(recovery): release native process identity without saved payload reads (#17622)
Keep locked process and terminal-state evidence plus JavaScript-compatible checkpoint presence. Preserve every host, provider, lease, coordinator and stop-receipt check without transferring saved prompts or checkpoint bodies.

53 focused tests, server typecheck, build, all 55 CI checks, and exact-head Apex 5/5 pass.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 10:06:27 -07:00
Devin FoleyandPaperclip b792165ba4 Expire native runner continuity archives and quarantine (#17616)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Native runner sessions keep durable state under
`<instance>/runtime/paperclip-runner/durable-sessions/`
> - When a session starts a fresh provider session, the retired state is
moved into `<session>/continuity-breaks/<epoch>-<uuid>/`; when state
loses authority, it is moved into
`quarantine/<session>.<reason>.<epoch>.<pid>.<uuid>/`
> - Nothing ever removes either, and each can hold a full Codex home of
several gigabytes
> - A sleep-aware sweep already expires failover backup copies in the
same tree
> - This pull request extends that sweep to remove both kinds of
evidence after a retention window, while keeping anything recovery may
still read
> - The benefit is that native runner disk use stops growing without
bound

## Linked Issues or Issue Description

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

**What happened?**
On one instance, one day of native runs produced 20 continuity-break
archives totaling 4.8 GB, one session alone holding 4 GB. The quarantine
folder held 12 entries totaling 2.1 GB, the oldest a month old. Neither
is read again by normal operation (continuity-break archives are written
by `archiveContinuityState` and never read), and nothing deletes them.
They were removed by hand to free space and will regrow.

**Expected behavior**
Evidence older than a bounded window is removed automatically, as
failover backup copies already are, without removing anything a live
session or recovery path still needs.

**Steps to reproduce**
1. Run a native Codex session that hits a continuity break (fresh
provider session), or whose state is quarantined (for example
`identity_indeterminate`).
2. Inspect `durable-sessions/<session>/continuity-breaks/` and
`durable-sessions/quarantine/`.
3. Wait any length of time: the entries stay forever.

**Paperclip version or commit:** `master` at e335265568.
**Deployment mode:** any with native runner sessions.
**Agent adapter(s) involved:** native runner (Codex, and any provider
whose state lands in these folders).

## What Changed

-
`server/src/services/native-runtime/native-harness-backup-expiration.ts`:
the existing tick also retires evidence.
- **Continuity-break archives** (`<epoch ms>-<uuid>` under each
session): removed when older than the window. Age is the epoch in the
name, or the folder mtime when that epoch is in the future.
`archiveContinuityState` refuses to archive state with warm-transition
evidence, and no code path reads `continuity-breaks`.
- **Quarantine entries**
(`<session>.<identity_indeterminate|identity_mismatch>.<epoch
ms>.<pid>.<uuid>`): removed by the same age rule. Native cleanup source
archives (`<session>.identity_indeterminate.cleanup.<uuid>`) are
referenced from recovery history, have no epoch, and keep their original
inode's mtime, so they are always kept.
- Every entry is skipped while its session is executing, initializing,
warm, or closing in this process; this is checked again just before
removal. Symlinked entries and symlinked
`continuity-breaks`/`quarantine` folders are reported as `unsafe_path`
and never followed.
- Removal renames to `.expired-<uuid>` in the same folder and then
deletes; later sweeps finish interrupted deletions. An empty
`continuity-breaks` folder is removed.
- Archives, quarantine entries, and leftover deletions count toward
`maxEntries` and `maxRemovals`, and stop on `shouldContinue`. Paging
resumes inside a session's archives and then in quarantine, so a bounded
or dry-run batch always makes progress and never recounts a session's
backup.
- New result fields: `evidenceCandidates`, `evidenceCandidateBytes`,
`evidenceRemoved`, `evidenceReclaimedBytes`, and skip reasons
`recent_evidence` and `cleanup_archive`. The service also exposes
`noteEvidence(writtenAt)`.
- `server/src/services/native-runtime/native-runner-evidence-signal.ts`
(new): a process-local signal. `native-session-executor.ts` raises it
with the entry's epoch right after `archiveContinuityState` creates an
archive and after `quarantineRunnerdStateRoot` moves state into
quarantine; `server/src/index.ts` subscribes the sweep and unsubscribes
on shutdown.
- `server/src/config.ts`:
`PAPERCLIP_NATIVE_RUNNER_EVIDENCE_RETENTION_DAYS` (default `7`, minimum
`1`).
- `server/src/index.ts`: passes the window and logs a batch when it
found evidence candidates.
- `doc/recoverable-disk-cleanup.md`, `doc/DEVELOPING.md`: document the
variable and behavior.

**Sleep-aware background work**
(`rules/sleep-aware-background-work.mdc`):
- *Trigger:* each entry's own expiry deadline (its epoch plus the
window), plus a direct call from the executor when it writes new
evidence. No timer, interval, or polling loop is added; the pass runs
inside the existing sweep's tick and keeps its drain, warm-standby, and
shutdown handling.
- *Source of truth:* the filesystem entries themselves. After a restart
the first sweep reconstructs the next deadline from them.
- *Pending-work predicate / next deadline:* after a full pass the sweep
keeps the earliest due time of the entries it retained; ticks before
that time skip the evidence pass entirely (no readdir, no SQL). A busy
session, a failed removal, or a full batch makes it due on the next
sweep while that obligation remains.
- *Quiet condition:* no evidence, or only evidence not yet due. The pass
never queries the database, so retained evidence never causes recurring
SQL. Dry run reports each candidate once rather than every hour.

No code comments were added.

## Verification

- `pnpm exec vitest run src/__tests__/native-harness-backup-expiration`
(in `server/`, embedded Postgres): 52 passed. New cases:
- old archives and quarantine entries are removed, recent ones kept; the
empty `continuity-breaks` folder is removed;
- age comes from the name, with mtime used for a future epoch;
non-archive folders are ignored;
- a busy session keeps its evidence, including when it becomes busy
after the first check, and it is retried on the next tick;
- dry run reports candidates and bytes, changes nothing (including
leftovers), and reports each candidate once until new evidence comes
due;
- symlinked entries and symlinked evidence folders are skipped without
touching the target;
- an old quarantine entry is removed even when its session's issue is
still open; cleanup source archives are kept;
- the pass stays quiet until retained evidence is due, and a
`noteEvidence` signal schedules newly written evidence;
- inspected archives and leftovers count against `maxEntries`, and
leftover removal stops on `shouldContinue` and resumes next tick;
- a due pass stopped by drain before any session stays pending;
one-entry batches finish without recounting a resumed session;
- interrupted `.expired-*` deletions are finished; paging across ticks
with `maxRemovals`, in normal and dry run, with no recount of the backup
when resuming.
- `native-session-executor.test.ts`: quarantining a legacy root raises
the evidence signal with the epoch in the entry name.
- `native-harness-backup-expiration-config`: default, explicit, minimum,
and fallback parsing.
- **Mutation checks**, each failing at least one test: removing the age
check, the future-epoch fallback, either busy check, the busy retry
deadline, the recent-entry deadline, the due gate, the `noteEvidence`
update, merging the pass deadline, the entry and both folder symlink
checks, the dry-run return, the dry-run leftover guard, leftover
removal, the leftover budget check and its retry deadline, counting
archives against `maxEntries`, the cleanup-archive skip, the
empty-folder removal, the resume cursor, the per-archive budget check,
the resume skip of the backup pass, not charging a resumed session,
keeping the pass active across drain, and the executor's quarantine
signal.
- `pnpm exec vitest run config native-harness
native-workspace-sync-retention native-session-executor server-startup`
(in `server/`): 1272 passed on the previous commit; `config
native-harness native-workspace-sync-retention server-startup`: 450
passed on the head commit.
- `pnpm run typecheck` (in `server/`): pass.
- Not run: server build and boot smoke. The continuity-archive signal
call is exercised only by a runner integration test that needs the
runnerd binary.

## Risks

- **Quarantine as a fail-closed fence:** recovery
(`recoverQuiescentRunnerdState`) and failed-run retry
(`nativeFailedRunRetryStateIsSafe`) treat a quarantined entry for a
session as a reason not to bootstrap fresh. Once such an entry ages out,
a later run of that session can start a fresh provider session instead
of failing with `quarantine_owner_unverified`. This applies only after
the window, matching what backup expiry already accepts for closed work.
- **Signal coverage:** the signal is process-local. Evidence written by
another process sharing the same state directory is picked up when the
next retained deadline is due or after a restart, not immediately.
- **Legacy-path quarantine:** entries quarantined from legacy roots
carry a legacy digest, so the in-process busy check cannot match them;
they are removed by age only.
- **Remote sandboxes:** archives moved aside on a remote runner
(`<root>.continuity-break-<token>`) are outside this sweep.

## 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
- [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>
2026-10-25 09:20:30 -07:00
Devin FoleyandPaperclip 7ebf98eafd fix(recovery): avoid duplicate terminal run status notifications (#17614)
Retain pending status deliveries when Native or legacy terminal recovery projects the same state. Preserve completion time on unchanged Native terminal status. Real state, metadata, error, explicit patch, and retained-file changes still notify. The publisher acknowledgement, accepted results, retry deadlines, recovery holds, ownership checks, and workspace cleanup remain intact.

Correct the queued Retry browser fixture race by releasing its old-process guard at the exact Retry request, requiring a successful response, and retaining fixture cleanup after failure.

Validated by 159 focused tests, 653 wider Native recovery tests, six real Chromium/PostgreSQL browser cases, five queued Retry repeats, build/typecheck, exact-head Apex 5/5, and green required CI. The original detached-button CI timeout is documented in the PR. The additional full local repository Vitest command is still running and is not claimed complete.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 08:22:53 -07:00
Devin FoleyandPaperclip bf9a8551c3 perf(issues): filter queued comment wakes by task (#17613)
Apply the existing typed task identity filter in PostgreSQL before returning queued-comment wake controls. Preserve queue selection, ordering, payloads, and current run ownership checks.

All 84 route tests, build, typecheck, exact-head Greptile 5/5, and required CI pass. The old source fails the new deferred and queued byte budgets; corrected reads preserve the complete response and all saved rows.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 07:51:28 -07:00
Devin FoleyandPaperclip a09ef344b3 perf(agents): avoid duplicate configuration reads (#17612)
Reuse one complete company roster for list responses and narrow other-agent eligibility checks to their five consumed fields. Preserve full selected-agent configuration, terminated-manager evidence, current spend, authorization, and fresh reads.

Verified with 170 affected tests, four rejected regression mutations, build and typecheck, exact-head Greptile 5/5, and green required CI.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 07:38:18 -07:00
Devin FoleyandPaperclip 3536b3649f Read only task creation provenance fields (#17604)
Narrow saved-run provenance reads to current identity, scope, and typed legacy bindings. Preserve binding precedence, current viewer checks, and complete stored runs. Real PostgreSQL and route tests pass 23 cases; legacy full-context and type-coercion regressions are caught. Exact-head required CI is green; Greptile is 5/5 with Low impact and no unresolved comments.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 06:30:25 -07:00
Devin FoleyandPaperclip bd77ffe78d perf(connections): scope profile rule and binding reads (#17589)
Read current company/agent profile bindings and rules matching the exact catalog rows being evaluated. Preserve all five selector kinds, null application matches, exclusions, and the existing access evaluator without a cross-call cache.

Verified with full build and typecheck, 652 affected tests across ten suites, all 18 strengthened effective-assignment tests, exclusion mutation and byte counterfactuals, complete exact-head CI, and Greptile 5/5 Medium with no unresolved comments.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 04:12:14 -07:00
Devin FoleyandPaperclip c4c4f7eecb perf(environments): reuse provider schemas after content validation (#17581)
Add a separate schema-only provider lookup with current plugin identity and SHA-256 content validation in one statement. Retain bounded schema definitions, return independent objects, and preserve current full driver and secret access paths.

Build, repository typecheck, 485 affected tests, the supported-host database tests, and the complete required CI matrix passed. Greptile scored this exact head 5/5 at medium impact with no unresolved findings.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 03:20:45 -07:00
Devin FoleyandPaperclip 3f36947e0c perf(realtime): batch task and run authorization per event (#17579)
Use one fresh authorization batch for each live event task and run binding. Preserve current membership, grant, company, and payload disclosure checks.

Build, typecheck, 70 affected local tests, and the complete required CI matrix passed. Greptile scored the exact head 5/5 at medium impact with no unresolved findings. The separate full local suite remains in progress.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 02:43:17 -07:00
Devin FoleyandPaperclip 50797ea03c perf(issues): narrow queued comment wake display reads (#17570)
Read only typed queue display inputs from saved wake payloads and only runtime mode from queued runs. Preserve complete rows for locked edits, discard, steering, and interruption.

Validation: 93 focused route and policy tests, full build and repository typecheck. PostgreSQL fixtures preserve identical queue responses and saved input with less than 4 KB of read values; restoring the full wake read fails at about 1.8 MB. Exact-head Greptile 5/5 (medium), all CI checks green, and zero unresolved comments.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 00:41:14 -07:00
Devin FoleyandPaperclip 7494b8dd4c perf(auth): batch current run history read decisions (#17569)
Reuse the existing authorization batch owner for current run-history read decisions after company-scoped existence checks. Preserve missing-task denial, per-request freshness, and the decide-only adapter path.

Validation: 97 focused tests, full build and repository typecheck. A real PostgreSQL fixture returns identical decisions with 4 queries instead of 327; the original path fails the query-bound regression. Exact-head Greptile 5/5 (medium), all CI checks green, and no unresolved comments.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 00:35:07 -07:00
Devin FoleyandPaperclip 0d73505098 perf(git): narrow operation identity snapshot reads (#17567)
Select only the run context used by GitHub operation credential checks. Preserve the default complete identity capture for Muse and other consumers, current trust checks, grants, and saved run evidence.

Validation: 72 focused GitHub, identity, Slack, chat-project, and project-route tests; full build and typecheck; exact-head Greptile 5/5 (medium), all CI checks green, and zero unresolved comments. Real PostgreSQL tests prove current revocation and response-size bounds. No live external GitHub push was performed.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 00:31:41 -07:00
Devin FoleyandPaperclip f978a521ff perf(heartbeat): narrow workspace operation access reads (#17565)
Read only the current run access fields and typed workspace binding for workspace-operation polling. Keep the current privacy decisions, operation checks, and complete run storage.

Verified focused run-state, live-event, and real database privacy-route tests, full build and typecheck, all CI checks, and exact-head Greptile 5/5 with no unresolved threads.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 00:21:15 -07:00
Devin FoleyandPaperclip 75dbd3050b perf(git): filter managed identity connection reads (#17563)
Apply the existing exact GitHub source marker predicate in the company-scoped connection query. Keep the JavaScript guard and every current install, grant, consent, identity, and credential check unchanged.

Validation: 74 focused tests, full build and typecheck, exact-head Greptile 5/5 (medium), full green CI, and no unresolved threads. Both marker locations, malformed JSON types, changed/disabled connections, and retained unrelated configuration are covered. The unfiltered counterfactual fails both row-count regressions.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-25 00:09:56 -07:00
Devin FoleyandPaperclip 1ad8f25c77 perf(heartbeat): narrow queued comment polling run reads (#17560)
Read current control facts and typed issue/adapter bindings for queued-comment polling. Keep full mutation and execution reads, native preparation and steering, authorization, and stored evidence.

Validation: full build and typecheck, 160 focused tests plus two assembled route regressions; exact-head Greptile 5/5 (medium), full green CI, zero unresolved threads. Old-route counterfactual transfers 2.5 MB versus less than 2 KB.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-24 23:53:39 -07:00
DottaandPaperclip 8415f4a679 fix(github): drain queued pings during active App setup (#17551)
## Thinking Path

> - Paperclip connects external work to an agent and its ordinary tasks.
> - A dedicated GitHub App must prove signed webhook delivery during
setup.
> - Cloud queues the original bytes until the tenant can authenticate
them.
> - An older personal connection can leave a long empty-queue backoff in
that tenant.
> - Active App setup can then time out before the queued ping is read.
> - This change lets active setup request the existing event drain with
a short rate limit.
> - The same webhook handler still owns signature verification and setup
state.

## Linked Issues or Issue Description

Refs: #17457, #17513.

**What happened?**

Cloud accepted a new App's ping, but the tenant read it only after the
setup wait timed out and cleanup archived the draft. An existing
personal GitHub connection had left an empty-queue backoff. The poller
checked that deadline before it read the new App state.

**Expected behavior**

An active manager setup request must be able to read the queued ping
promptly. It must not bypass signature checks or create another App.

**Steps to reproduce**

1. Let a personal GitHub connection build its empty-queue backoff.
2. Start a dedicated App and complete its installation.
3. Return to the waiting setup screen while the signed ping is queued.

**Paperclip version or commit**

This behavior is present on the base commit of this PR.

## What Changed

- Let the authenticated wizard request a queue drain only while its
Cloud App still lacks signed-delivery verification. Existing manager,
credential, and installation checks run first.
- Register a narrow callback to the server-owned GitHub poller. Keep
provider handling in the GitHub services. Remove the callback on server
close.
- Share one in-flight attempt between setup and background requests.
Limit setup attempts to one per five seconds, including after errors.
- Retain the existing passive backoff, sealed queue, acknowledgement
rules, and canonical webhook signature handler.
- Add regressions for the old backoff, concurrent requests, failed
requests, and wizard signature verification. Update the setup
documentation and map.

## Verification

- Observed the backoff regression fail against the old service: active
setup made no additional Cloud lease request. It passes with this fix.
- Three focused event-poller tests pass. They use the real
admission/backoff code with stubbed SQL and Cloud boundaries.
- All 39 startup tests pass. Server TypeScript, map checks, and diff
checks pass.
- The Postgres integration suites could not start locally because this
host exhausted its semaphore limit. They remain required CI checks. This
is not a passing local integration result.
- Full current-head CI passes, including the Postgres and chat
integration suites. Greptile scored this exact head 5/5 with no
unresolved findings.
- The additional Paperclip review check ended neutral because its
execution did not complete. It did not publish a validated assessment.
- A fresh deployed setup attempt remains required before live
qualification.

## Risks

A waiting setup screen now makes a bounded readiness request to Cloud.
The existing connector request timeout still applies. Concurrent calls
share the same drain, and failures release it for a later retry. The
request stops after persisted verification or when the browser stops
advancing setup. No timer, durable queue, fleet setting, or sleep
blocker is added or removed. The existing background reconciliation path
still has its existing sleep restrictions. Live setup-to-review behavior
is not established by these local tests.

## Model Used

OpenAI Codex, based on GPT-6. The exact runtime model ID and
context-window size are not exposed in this session. Used for code
execution and regression analysis.

## 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 <paperclip@paperclip.ing>
2026-10-24 21:58:43 -07:00
Devin FoleyandPaperclip 2f637fe8c4 perf(tools): scope connection readiness assignment reads (#17541)
Connection readiness reads current permitted connection identities without unrelated catalog rows or complete profile-rule payloads. Reuse profile precedence and selector logic, preserve full public/runtime summaries, and keep installed connections, identity checks, and gateway authorization current.

Verified with 106 focused tests, the full build, and typecheck. The direct catalog inventory regression fails at 102 rows when the scope filter is removed and passes at two rows with the filter. One unrelated CI timing assertion differed by 1 ms; the exact local test and the single failed shard rerun passed on unchanged source. CI is green and exact-head Greptile is 5/5 at Medium impact with no unresolved comments.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-24 20:05:45 -07:00
Devin FoleyandPaperclip ac15d883f7 fix: preserve remote-tracking history when expiring nested worktrees (#17535)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Nested project repositories are now worktrees of one shared clone
per project repository, and existing standalone clones are converted in
place
> - Conversion keeps the clone's remote-tracking refs as task-owned
branches (`paperclip/<id>/remotes/...`) so commits only they hold
survive
> - Expiration then required every task-owned branch, including those,
to be on the remote
> - Remote-tracking refs for branches deleted or force-pushed upstream
never are, so converted checkouts were kept forever
> - This pull request treats those refs the way the standalone-clone
path already does: commits missing upstream go into the restore point
instead of blocking
> - The benefit is that converted workspaces can expire and free disk
without losing any history

## Linked Issues or Issue Description

Refs #17407, #17382, #17289. Bug report described in-PR (bug report
template).

**What happened?**
On one instance, 17 closed workspaces in a two-repository project were
kept on every expiration sweep with
`unpushed_managed_checkout_branches`. Each nested checkout is a
converted worktree whose task-owned refs include
`paperclip/<id>/remotes/origin/<branch>` for upstream branches since
deleted or force-pushed (dependabot, squashed feature branches). Their
commits are on no remote, so `provenNestedWorktreeHistory` refused. The
task's own branch was fully pushed.

**Expected behavior**
As in the standalone-clone path (#17289), remote-tracking commits
missing upstream are preserved in the restore point, and only genuinely
local branches block expiration.

**Steps to reproduce**
1. Fetch an upstream branch into a standalone nested clone, then delete
that branch upstream.
2. Convert the clone into a worktree (nested clone migration).
3. Close the issue and let expiration inspect it: kept with
`unpushed_managed_checkout_branches`.

**Paperclip version or commit:** `master` at cb47dbb2da.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

- `provenNestedWorktreeHistory` in
`server/src/services/git-workspace-restoration.ts`:
- splits task-owned refs into those under `<prefix>remotes/` and the
rest;
  - still requires the rest (and their reflogs) to be on the remote;
- returns commits under `remotes/` that are missing upstream, and their
reflogs, as `preserve`, which the restore point bundles. This matches
the standalone-clone path.
- `restorePointHistoryDigest` in
`server/src/services/git-restore-point.ts`: for a linked worktree, it
fingerprints the task's own refs and their reflogs instead of the shared
clone's `refs/remotes`. Other tasks change those whenever they fetch,
and they never covered the task-owned remote refs. It loads
`nested-repository-worktrees` lazily to avoid an import cycle.

No code comments were added.

## Verification

- `pnpm exec vitest run nested-clone-migration` (in `server/`). New
cases:
- A converted checkout whose only extra history is a remote-tracking
commit deleted upstream expires with a restore point. After its refs are
removed and the shared clone is garbage-collected, reopening restores
the commit.
- The digest ignores the shared clone's remote refs and changes when the
task's own refs move.
- **Mutation checks**, each failing its test:
  - reverting the prover split;
  - dropping the preserve list;
  - reverting the digest change.
- The existing case where a converted checkout with a genuinely unpushed
branch is kept still passes.
- `pnpm exec vitest run git-restore-point nested-repository-worktrees
nested-clone-migration git-workspace-expiration
git-reproducible-managed-checkouts isolated-task-directory
isolated-repository-rehome git-credentials execution-workspace` (in
`server/`): 591 passed.
- `pnpm run typecheck` (in `server/`): pass.
- Not run: server build and boot smoke.

## Risks

- **Misclassified branches:** a local branch literally named
`remotes/...` in a standalone clone becomes `<prefix>remotes/...` after
conversion and is now preserved in the restore point instead of blocking
expiration. Its commits are still saved, not lost.
- **Leftover refs:** after expiry, the task's other owned refs stay in
the shared clone, as they did before this change, so their commits stay
in two places.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, tests, read-only diagnosis 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>
2026-10-24 19:26:27 -07:00
Devin FoleyandPaperclip cb47dbb2da fix: resolve git credentials with the issue's identity in background jobs (#17515)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Git cache expiration, isolated source re-home, nested clone
migration and workspace reopen fetch from the workspace's remotes to
prove history is on the remote or to rebuild workspaces
> - They built git credentials from the issue id alone, but the managed
GitHub identity is selected from the run's responsible user and agent
> - So the credential never resolved, they fell back to anonymous
access, and private repositories were unreadable
> - This pull request resolves credentials with the issue's responsible
user and assigned agent, the same identity agent runs use
> - The benefit is that workspaces with private repositories can expire,
re-home, migrate and reopen like public ones

## Linked Issues or Issue Description

Refs #17464, #17407, #17369. Bug report described in-PR (bug report
template).

**What happened?**
On one instance, 18 long-closed workspaces in one project were kept on
every expiration sweep with `managed_checkout_upstream_unavailable`.
Their nested checkout is a private GitHub repository. Expiration called
`createGitRemoteAuthProvider(db, companyId, { issueId })`. With that
context, `resolveManagedGitHubCredential` returned "No managed GitHub
identity is available for this run". `withAnonymousGitFallback` then
tried anonymous access, which cannot read the private repository. Called
with the issue's `responsibleUserId` and `agentId`, the same lookup
returned a credential.

**Expected behavior**
Background workspace jobs authenticate as the issue's identity, as agent
runs do, and can verify private repositories.

**Steps to reproduce**
1. Configure a project with a private GitHub repository and a managed
GitHub identity tied to the issue's responsible user.
2. Close an issue whose workspace includes that repository and let git
cache expiration inspect it.
3. It is kept with `managed_checkout_upstream_unavailable`.

**Paperclip version or commit:** `master` at fe85fd7ac4.
**Deployment mode:** any with managed GitHub identities.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

- `createIssueGitRemoteAuthProvider(db, companyId, issueId)` in
`server/src/services/git-credentials.ts`:
- looks up the issue's `responsibleUserId` and `assigneeAgentId` once,
lazily, scoped to the company;
- builds `createGitRemoteAuthProvider` with `{ issueId,
responsibleUserId, agentId }`;
  - falls back to the issue-only context when the issue is missing.
- Callers switched from the issue-only context:
  - git cache expiration (`expirationGitAuth`);
  - isolated source re-home;
  - nested clone migration;
- both credential sites in
`reopenClosedIsolatedExecutionWorkspaceForIssue`.
- Anonymous fallback for public repositories is unchanged.

No code comments were added.

## Verification

- `pnpm exec vitest run src/__tests__/git-credentials.test.ts
src/__tests__/git-expiration-auth-fallback.test.ts` (in `server/`): 32
passed. New cases:
- the helper passes the issue's responsible user and agent to the
credential lookup;
  - it looks the issue up once across calls;
  - it falls back to the issue-only context when the issue is missing.
- **Mutation check:** dropping the identity fields from the context
fails two cases.
- **Live instance:** for an affected workspace, the managed credential
resolved only with the responsible user and agent; with the issue id
alone, or with standing delegation, it did not.
- `pnpm exec vitest run git-credentials git-expiration-auth-fallback
git-workspace-expiration git-restore-point isolated-repository-rehome
nested-clone-migration` (in `server/`): 296 passed.
- `pnpm run typecheck` (in `server/`): pass.
- Not run: server build and boot smoke.

## Risks

- **Whose identity is used:** background jobs now use the issue's
responsible user's managed GitHub identity, which agent runs on that
issue already use. They only read: fetch, ls-remote and clone for
verification and restore.
- **Unchanged failure behavior:** if the identity is unavailable (for
example, the user is no longer a member), the existing anonymous
fallback applies, as before.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), 1M context, through Claude Code
with tool use (shell, file edits, tests, read-only diagnosis 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>
2026-10-24 16:49:21 -07:00
DottaandPaperclip d0c8f0b090 fix: explain project access denials and add an authorized repair path (#17509)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Low-trust agents may read only the projects in their allowed scope.
> - Workspace setup correctly stops a task outside that scope.
> - The task previously showed a generic failure, and agent settings did
not offer an additive repair.
> - This pull request explains the denial and lets authorized operators
add projects while preserving other restrictions.
> - The saved task then offers an explicit retry. Saving access does not
start work.

## Linked Issues or Issue Description

**What happened?**
A project access denial appeared as an ordinary failed attempt.
Operators could not add a second allowed project from agent settings.

**Expected behavior**
The task should explain the denied access and link to a working
permission editor. The editor should preserve existing scope and
restrictions, enforce operator authority, and retain drafts after a
failed save.

**Steps to reproduce**
1. Assign a low-trust agent to a task whose project is outside its
allowed projects.
2. Let workspace setup deny project access.
3. Open the task, follow Manage project access, add the project, save,
reload, and return to the task.
4. Confirm that the saved message remains and Retry task is a separate
action.

## What Changed

- Record a typed, non-retryable project denial before provider dispatch.
Project denials do not enter automatic continuation or provider comment
policy.
- Project current and historical setup denials into a safe task notice.
Keep unrelated failures, prior assignees, and approval/pause/budget
gates separate. Recheck current project authority, including standard
trust and root-issue grants. Accepted retries keep their working state.
- Add board-only project-access reads and additive saves under the agent
row lock. Enforce company scope, agent-management authority,
pending-approval restrictions, and an audit record for new additions.
- Add the production notice and searchable multi-project editor,
including read-only, saving, cancellation, and failed-save states.
Preserve the return-to-task query through canonical agent redirects.
- Register board-only project-access routes in OpenAPI with a strict
request schema.
- Add production Storybook examples and API/persistence/concurrency
regressions. Retain the approved design snapshot and update the behavior
maps and implementation contract.

## Verification

- Passed: `pnpm -r typecheck`, `pnpm build`, `pnpm build-storybook`,
`pnpm check:token-gates`, `node scripts/check-maps.mjs`, and `node
scripts/storybook-catalog.mjs`.
- Passed: 11 permission/projection tests and 30 run-completion tests
against an isolated PostgreSQL database. These cover historical
failures, concurrent additions, idempotent audit, preserved
restrictions, foreign projects, read-only users, agent self-grants, and
no automatic wakeup.
- Passed: all 27 OpenAPI route tests, including route coverage and the
new board-only request/response contract.
- Browser: the real app displayed a historical denial; Manage project
access opened the editor; saving retained the original project and
survived reload; Return to task showed the ready notice. Saving created
one audit event and zero runs. Explicit Retry returned 202 and reached
the separate sandbox requirement, which remained enforced. No external
provider was used.
- All five production Storybook interaction checks pass: blocked task,
save, cancellation, failed-save recovery, and read-only settings. These
use fixture callbacks; durable authorization is covered separately
above.
- `pnpm test:run` was attempted locally but stopped after repeated
embedded PostgreSQL startup failures caused by macOS semaphore
exhaustion. Full-suite CI is required before merge. The separate UI
suite passed all 9,095 tests. The 41 focused server regressions also
passed after rebasing onto the latest master. A further 26
recovery-classification tests pass, including a red-to-green regression
for automatic continuation after a project denial.

## Risks

- No schema migration. The new endpoint only adds same-company project
IDs and preserves the rest of the stored policy.
- The historical notice recognizes one exact setup denial message. It
does not display arbitrary run errors or disclose a different source
project's identity.
- The retry still passes all current admission and isolation checks. The
notice does not promise that other execution requirements are satisfied.
- Related open work: #13309 covers inherited secret restrictions; #11234
covers the broader repository catalog. This change does not replace
either policy surface.

## Model Used

OpenAI Codex (GPT-6), with code execution and browser tools. The precise
runtime model ID and context-window size were 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
#` 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 server and full UI
suites; full-suite infrastructure limit 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>
2026-10-24 16:16:29 -07:00
DottaandPaperclip 4e719ac4c4 fix(evals): align portable receipt bounds before publication
Also cover createdFromIssueId in the list and count UUID rejection tests from the master merge.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-24 16:03:27 -07:00
b6591c93a0 fix(issues): validate UUID query parameters on list and count endpoints (#17389)
Reject malformed UUID filters (participantAgentId, projectId, workspaceId, executionWorkspaceId, parentId, parentIssueId, descendantOf, createdFromIssueId, labelId) on GET /api/companies/:companyId/issues and /issues/count with a 422 instead of letting Postgres fail the uuid cast with a 500.

Fixes PAPERCLIP-BACKEND-4M.

Co-Authored-By: Devin Foley <devinfoley@users.noreply.github.com>
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
2026-10-24 14:31:24 -07:00
Devin FoleyandPaperclip a7006a9506 Reclaim finished isolated task directories with restore points (#17472)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Agents do task work in execution workspaces on the instance disk
> - A task without a project repository runs in a plain (non-Git) task
directory under `<instance>/isolated-workspaces/<company>/<issue>/`
> - Nothing removes these directories after the work is done, so the
disk fills up
> - The directories can hold the only copy of agent work, so plain
deletion is not safe
> - This pull request saves each finished task directory in an encrypted
restore point, removes it, and restores it when the work reopens. It
also removes orphaned directories after a grace period
> - The benefit is that finished task directories stop using disk, and
no agent work is lost silently

## Linked Issues or Issue Description

**What happened?**
On one instance, `instances/<id>/isolated-workspaces/` held 251 task
directories and 12 GB, and it grew every day. 61 directories belonged to
open workspace rows whose issues closed more than 7 days before (3.9
GB). 12 belonged to issues closed 3 to 7 days before (0.7 GB). 4.0 GB
were directories with no open workspace row (the row was archived or
missing).

The cause has two parts:
1. The terminal workspace reaper archives a workspace only when it
proves delivery through Git (a merged pull request or a merged branch).
A task directory is not a Git checkout, so the Git status inspection
fails and the reaper always skips the row as "undelivered". Git cache
expiration handles only `git_worktree` workspaces.
2. When a person archives such a workspace by hand, artifact cleanup
removes a `local_fs` directory only when `metadata.createdByRuntime` is
true. Task directory rows never set it, so the directory stays and the
row becomes `cleanup_failed`.

**Expected behavior**
Paperclip reclaims the task directories of finished work by itself. It
must not lose files that only exist in those directories.

**Steps to reproduce**
1. Run an agent on an issue without a project repository (for example a
low-trust sandbox task, or an issue with no project), so it works in
`isolated-workspaces/<company>/<issue>/`.
2. Let the agent write files there, then mark the issue `done`.
3. Wait any number of days. The directory and its workspace row stay.
The reaper logs the row as skipped (undelivered).
4. Archive the workspace by hand. The directory still stays.

**Paperclip version or commit**
`master` at fe85fd7ac4

**Deployment mode**
Self-hosted, local disk storage.

**Agent adapter(s) involved**
Any adapter that runs in a task directory (seen with local and sandbox
runs).

## What Changed

- Added `isolated-task-directory-snapshot.ts`: a deterministic snapshot
of a plain directory (files with modes, directories, symbolic links as
links). It never follows symbolic links, refuses special files, and
enforces the restore point limits (20,000 files, 64 MiB per file, 256
MiB in total). A `node_modules` directory next to a `package.json` is
left out. Restore writes to a staging directory, verifies the digest,
then renames it into place.
- Added `isolated-task-directory-retention.ts`:
- `expireIsolatedTaskDirectory` saves the directory in a restore point,
archives the workspace with the `isolatedTaskDirectoryRetention` state
in one transaction, checks again that the directory did not change,
renames it to trash and deletes it. A change after the capture rolls the
workspace back to active and drops the restore point. An interrupted
removal finishes on a later sweep.
- It uses the git cache expiration consumer checks
(`isGitWorkspaceExpirationEligible`): no live run, unsettled
finalization, live lease, live runtime service, unresolved recovery
action or reopen fence, and no other open workspace or project workspace
in the directory. It also requires the source issue to be bound to the
workspace, because reopen restores through that binding.
- `restoreIsolatedTaskDirectory` restores the directory on reopen. It
replaces an empty directory and fails closed on a non-empty directory
that does not match. When the restore point expired, it reopens an empty
directory and posts a system comment.
- `sweepIsolatedTaskDirectories` walks `isolated-workspaces/` in bounded
batches (8 per sweep, with a cursor). A closed workspace that its issue
is still bound to is saved and removed like an open one. Other folders
are orphans and are removed after a grace period when no live row,
project workspace, runtime service, run, finalization, lease or recovery
action refers to them.
- Reused the git restore point ledger, storage and encryption.
`storeSealedRestorePoint` and `readRestorePointObject` were extracted
from `storeGitRestorePoint`. `markGitRestorePointExpired` now also marks
a task directory restore point as expired.
- `isGitWorkspaceExpirationEligible` takes `closedSiblingsAllowed`, so
closed rows for the same issue directory do not block a task directory
forever. Git expiration keeps its old behavior.
- Terminal workspace reaper (`execution-workspaces.ts`): handles open
task directory rows after the terminal delay and registers that moment
as a deadline. It finishes pending removals, runs the folder walk at the
start of a rotation (once per server start, then only at real
deadlines), and saves at most 8 directories per sweep.
- Reopen accepts a closed `shared_workspace` row that holds task
directory state. The run path also reopens (and restores) a closed
workspace with that state before preparing the run.
- Settings: `PAPERCLIP_TASK_DIRECTORY_RETENTION_ENABLED` (default
`false`), `PAPERCLIP_TASK_DIRECTORY_RETENTION_DRY_RUN` (default `true`),
`PAPERCLIP_TASK_DIRECTORY_ORPHAN_GRACE_DAYS` (default `7`, minimum `1`).
The delay is `PAPERCLIP_GIT_RESTORE_POINT_TERMINAL_DELAY_DAYS`. Removal
needs `PAPERCLIP_GIT_RESTORE_POINTS_ENABLED=true`.
- Logs: `execution_workspace.task_directory_retention`,
`execution_workspace.task_directory_cleanup` and
`execution_workspace.task_directory_restore`, with outcome, skip reason,
candidate bytes and reclaimed bytes.
- Documented the behavior in `doc/recoverable-disk-cleanup.md` and the
settings in `doc/DEVELOPING.md`.

**Preservation decision.** The code shows that these directories are not
scratch space. Nothing pushes or copies their contents, and the next run
of the same issue reuses the same path. So the files are saved before
removal, with the same ledger, encryption and retention as git restore
points, and restored on reopen. Orphans are not saved: no workspace row
can reopen them. The docs and the Risks section state this.

**Scheduling.** The work follows
`rules/sleep-aware-background-work.mdc`. It adds no timer and no
polling. Open rows use the existing reaper and its per-workspace
deadlines (the end of the terminal delay, or one hour after a retryable
skip). The folder walk runs once at startup. After that, workspace
archive and issue close notifications (the existing terminal workspace
hints) point the reaper at the affected folder, and a kept folder is
checked again only at its own deadline (end of a grace period or
terminal delay, or one hour after a busy lock or live consumer). When
the tracked state is full, the reaper schedules another walk instead of
dropping work. With nothing pending, it registers nothing.

## Verification

- `cd server && pnpm exec vitest run
src/__tests__/isolated-task-directory-retention.test.ts
src/__tests__/isolated-task-directory-retention-config.test.ts
src/__tests__/heartbeat-task-directory-restore.test.ts` (embedded
Postgres): 48 tests pass. They cover:
- a closed issue's task directory is archived and removed after the
delay by the reaper, and reopen restores files, modes and symbolic links
exactly;
- the same through reopen for a `shared_workspace` row, and through a
real heartbeat run (the run restores the files and runs in them);
- the directory stays before the delay (and the deadline is the end of
the delay), while the issue is open, and when retention is off;
- the directory stays while each consumer check fails: live run, live
runtime service, reopen fence, unsettled finalization, live lease,
unresolved recovery action, issue bound elsewhere, live sibling
workspace in the directory;
- no removal without restore points, with a non-durable key, before
`notBefore`, or over the limits;
- dry run changes nothing; a change after the capture rolls back; an
interrupted removal finishes on the next sweep; an expired restore point
reopens empty with a warning; a diverged directory fails the reopen and
stays untouched;
- folder sweep: an orphan is removed after the grace period, kept when
recently modified, in dry run, when a live row points into it, and when
its issue is open; an archived unbound row's folder is removed; an
archived bound row's folder is saved, removed and restored on reopen;
the walk is bounded and continues from its cursor;
- review follow-ups: a file name with a backslash saves and restores;
after the startup walk, a workspace archived later is found through its
change hint; an orphan used by a live run is retried; skipped rows do
not starve later rows of the per-sweep budget; overflowing tracked
deadlines schedule another walk instead of being dropped; a closing
child sends the reaper back to its archived parent's folder; a pending
lease cleanup on a closed workspace keeps an orphan; a deep path at the
platform path limit restores; an expiry recorded during removal survives
and the archive and removal are recorded as activity; a task closed
beyond retention keeps its new restore point for the full period;
- symbolic links: a task directory that is a link, an orphan that is a
link, and a link inside a directory are never followed; the link targets
stay untouched.
- Mutation checks. Each change below made at least one of the tests
above fail, and the test passed again after revert:
- drop the run-path reopen condition; drop the skipped-row cache; drop
hint tracking; reject backslashes again; drop the live-consumer retry
for folders; evict overflowing folder deadlines; skip ancestor hints;
ignore workspace-attached leases for orphans; stage restores under the
old longer name; overwrite the whole metadata on the final write; retain
task directory restore points from the tree close only; drop the removal
activity; force `closedSiblingsAllowed` off; make live siblings not
block; skip the digest recheck before rename; skip the issue binding
check; remove both symbolic link refusals (task directory); remove the
orphan symbolic link refusal; ignore live rows in the folder walk; skip
the orphan modification grace; ignore dry run for orphans; skip the
restore on reopen; skip the terminal delay; skip the restore points
requirement; skip the orphan open-issue check.
- Removing only one of the two task directory symbolic link checks did
not fail a test, because the other check still refuses the link.
Removing both fails the test.
- Related suites: `pnpm exec vitest run execution-workspaces
isolated-task-directory workspace-runtime git-restore-point
git-workspace-expiration terminal-workspace workspace-reaper
heartbeat-git-restore heartbeat-task-directory
isolated-repository-rehome nested-clone-migration environment-selection`
in `server/`: 34 files, 749 tests pass, 4 skipped. Two
`workspace-runtime.test.ts` tests fail (`does not diagnose a missing
remote branch as a rejected credential`, `rejects explicit main on a
master-only remote ...`). They fail the same way on unchanged `master`
on the local machine, so they are not caused by this change.
- `pnpm run typecheck` in `server/`: passes.
- Not run: the full server suite, a live instance rollout, and a check
that the host disk usage drops after removal.

## Risks

- The feature is off by default, and it starts as a dry run when
enabled. It needs restore points to remove anything. Rollback: set
`PAPERCLIP_TASK_DIRECTORY_RETENTION_ENABLED=false`. Saved restore points
and restore on reopen keep working.
- Orphan folders are removed without a restore point. This applies only
when no workspace row is bound to the issue at that path. If such an
issue is reopened later without another workspace, its next run starts
in an empty directory. The grace period (default 7 days of a closed tree
and no changes) and the dry run limit this risk.
- A directory over the restore point limits stays on disk (logged with
its reason). Special files keep a directory too.
- `node_modules` next to a `package.json` is not saved. A reopened task
must install its packages again.
- The restore point lives as long as git restore points (90 days by
default), counted from the later of the tree close and the removal. Only
task directory restore points use the removal time; git restore points
keep their retention. After that, reopen starts with an empty directory
and posts a warning comment.
- Reopen now accepts a closed `shared_workspace` row, but only when it
holds task directory state written by this feature.
- No schema migration. The ledger table and its columns are unchanged.

> 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

## 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>
2026-10-24 14:16:58 -07:00
Devin FoleyandPaperclip 1cfaf973cd Read release evidence and telemetry without unused output (#17485)
Read execution release evidence and terminal telemetry without unused output. Keep full stored history, in-flight guards, and accepted messages.

Validated with real PostgreSQL tests, build, typecheck, green CI, and Greptile 5/5.

Co-Authored-By: Paperclip <noreply@paperclip.ing>
2026-10-24 14:01:41 -07:00
Devin FoleyandPaperclip fe85fd7ac4 Expire closed workspaces that open descendants do not use (#17464)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Git cache expiration removes closed issues' worktrees and saves
restore points for unsaved work
> - It treated a workspace as closed only when the source issue and
every descendant were done or cancelled
> - A routine that closes a parent and leaves children open for days
therefore kept every parent worktree, although the children work in
their own workspaces
> - The idle path did not help, because the children are updated every
day
> - This pull request counts only the issues that use the workspace when
it decides that a closed workspace can expire
> - The benefit is that closed parent worktrees are removed while their
children work elsewhere, and a child that later binds to the workspace
gets it back from the restore point

## Linked Issues or Issue Description

Refs #17271. Bug report described in-PR (bug report template).

**What happened?**
On one instance, an hourly routine creates a parent issue, works it in
its own worktree, marks the parent done, and leaves child issues open
(`blocked`, `in_review` or `in_progress`) for days. The children work in
their own workspaces. They are not bound to the parent's workspace. Git
cache expiration kept every parent worktree (about 300 MB each), because
the closed-tree check and the workspace reaper required all descendants
to be closed. In one project, 18 of 19 long-closed parent worktrees were
kept only by open children that did not use them. The idle path never
ran, because the children were updated daily.

**Expected behavior**
A closed issue's worktree expires while descendants are open, as long as
no open descendant uses that workspace.

**Steps to reproduce**
1. Enable git cache expiration and restore points.
2. Close an issue that has an isolated git worktree, and leave a child
issue open that works in its own workspace (or has no workspace
binding).
3. Wait past the terminal delay and run the workspace reaper: the parent
worktree stays, and the reaper counts it as `skippedNonTerminalTree`.

**Paperclip version or commit:** `master` at 410e5c6eed.
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

- `isGitWorkspaceExpirationEligible` (closed path, not the idle path):
the "tree closed for one day" check now covers only the issues in the
tree that use the workspace. An issue uses the workspace when it is the
source issue, when its `execution_workspace_id` is the workspace, or
when its current `workspace_selection` or its
`workspace_pending_selection` selects it as the `existing` workspace.
Inheritance from a parent (`reuse_existing`) and `existing` selections
are both stored as `execution_workspace_id`, and heartbeat workspace
resolution reuses an existing workspace only through that binding or a
run's persisted native binding. An open descendant without one of these
references gets a new workspace on its next run, so it no longer keeps
the parent's worktree.
- All other checks stay the same: any open issue bound to the workspace,
live or unsettled runs of any issue in the tree or of the workspace
(including a run whose context names the workspace), finalizations,
leases, recovery actions, runtime services, shared cwd and the reopen
fence.
- Workspace reaper: when the source issue is closed, git cache
expiration applies, and no reopen is pending, the reaper routes the
workspace by the same rule. It takes the restore point due time from the
source issue and the descendants that use the workspace, also after
every descendant is closed. A recently closed child that used the
workspace still holds it for the terminal delay. The compaction delay
and the archive cooldown still use the whole tree when it is closed.
- Workspace reaper: compaction and the normal archive path keep their
behavior. While any descendant is open, the reaper does not compact the
worktree, and the expiration branch handles the workspace and continues.
The archive path still requires a closed subtree. With expiration off,
or a pending reopen, routing is unchanged.
- New exported helper `listIssuesUsingGitWorkspace` shares the SQL "uses
the workspace" predicate between eligibility and the reaper.
- Docs: `doc/recoverable-disk-cleanup.md` and the
`PAPERCLIP_GIT_RESTORE_POINT_TERMINAL_DELAY_DAYS` entry in
`doc/DEVELOPING.md`.
- The existing `preserves live descendants and pending reopening` case
now binds its open child to the workspace. An unbound open child no
longer keeps the worktree by design.

## Verification

- `pnpm exec vitest run
src/__tests__/git-restore-point-expiration.test.ts
src/__tests__/git-workspace-expiration.test.ts
src/__tests__/heartbeat-git-restore-point-resume.test.ts` in `server/`:
all pass.
- `pnpm exec vitest run src/__tests__/git-workspace-expiration
src/__tests__/git-restore-point src/__tests__/execution-workspace
src/__tests__/heartbeat-git-restore-point-resume
src/services/heartbeat/environment-selection
src/__tests__/isolated-repository` in `server/`: 15 of 17 files passed
in one parallel run. The other failures were the updated descendant case
(now fixed) and 45-second timeouts in restore point tests while 17
embedded Postgres files ran at the same time. Both files pass when run
on their own.
- `pnpm run typecheck` in `server/`: passes.
- New embedded Postgres cases with real git repositories:
- A closed parent with open `blocked`, `in_review`, `in_progress` and
`todo` children and a grandchild in their own workspaces (or with none):
the worktree expires with a restore point and the reopen restores it
exactly.
- The reaper archives it, timed from the issues that use the workspace.
A child closed one minute ago with its own workspace does not delay it.
- A recently closed child bound to the workspace holds it until its
terminal delay passes.
- When every child is closed and the most recent one used its own
workspace, the reaper does not restart the restore point delay.
- The worktree is kept when an open child is bound to it, when an open
grandchild under a child with its own workspace is bound to it, when a
child created later with `issueService.create` inherits it with
`reuse_existing`, when an open child selects it through
`workspace_selection` or `workspace_pending_selection`, when a child run
that references it is live, and when the parent was closed inside the
delay.
- The reaper never compacts the worktree while children are open, with
expiration on or off. A pending reopen keeps its current fence handling.
- After expiry, an open child that binds to the workspace reopens it
with the saved commits, index, working tree and untracked files.
- Heartbeat: a queued run for an open child that binds to the expired
workspace of a closed parent restores the workspace and runs the agent
in it with the saved state.
- Mutation checks (each run against the two restore point test files):
  - Closed-tree check restored to the whole tree: 7 tests fail.
  - `execution_workspace_id` removed from the rule: 3 fail.
  - `workspace_selection` removed from the rule: 1 fails.
  - `workspace_pending_selection` removed from the rule: 1 fails.
  - Reaper `latestTerminalAt` from the whole tree: 3 fail.
  - Reaper routing by the whole tree: 2 fail.
- Reaper restore point due time from the whole tree once it is closed: 1
fails.
  - Pending-reopen gate removed: 1 fails.
- Compaction gate (`!treeOpen`) removed: no test fails. Compaction's own
guard under the lifecycle lock still rejects open trees, so the gate
only skips work that cannot succeed.
- Not run: the full server suite and the UI suites. CI covers them.

## Risks

- Closed parent worktrees now expire while their children are open. A
child that later binds to the workspace depends on the restore point and
on the run-side reopen from #17271. The new tests cover this path. When
restore points are off, only exactly reproducible worktrees expire.
- An open child with no workspace binding no longer keeps the parent's
worktree. Heartbeat resolution never reuses a workspace without a
binding, so this does not change where the child runs.
- The rule is conservative. A workspace selected only by an issue's
current or pending selection is kept, and live runs of any issue in the
tree still block.
- The reaper runs one extra indexed query for each closed workspace when
git cache expiration applies. No migration.

## Model Used

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

## 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>
2026-10-24 12:43:57 -07:00
Devin FoleyandPaperclip 3a2c56780c fix(server): avoid execution payloads in run authority checks (#17467)
## Thinking Path

> - Paperclip manages AI agents and their tasks.
> - Each operation must use current task and user authority.
> - Chat recovery also checks the exact source-run ancestry.
> - These checks can repeatedly read full run payloads.
> - Their decisions need identity fields and two typed task keys.
> - This change selects those fields and keeps the current checks and
locks.
> - Complete execution context and output remain stored and available.

## Linked Issues or Issue Description

**What happened?**

Ancestry checks, instruction identity reads, task locks, and identity
activation
receipts transfer full execution context or full run rows for metadata
decisions.

**Expected behavior**

Select only required identity and binding fields. Keep fresh membership
and key
revocation checks, task-before-run locking, native task precedence, and
strict
validation of legacy JSON task identifiers.

**Steps to reproduce**

1. Store a run with large context, Runner profile, and output fields.
2. Read chat recovery ancestry or authorize an instruction operation.
3. Initialize or refresh its run identity.
4. Observe full context or full-row responses in these metadata paths.

**Paperclip version or commit**

Baseline: `14e1f59fbf4d9cc7875ed35ebaa9e997f6e2ea7c`.
Complementary work: Refs #17460 and Refs #17463.
Searched open and closed PRs for ancestry projections and run read
optimizations.
No duplicate was found. This PR has no dependency on #17463.

**Deployment mode**

External PostgreSQL. Tests and measurements use disposable real
PostgreSQL.

## What Changed

- Share a SQL projection of typed legacy issue/task keys with
task-binding readers.
- Select only source identity and retry links while checking chat
ancestry.
- Select current identity fields during instruction authorization.
- Narrow identity task-lock reads and activation receipts to task
binding fields.
- Preserve existing authorization, ancestry proof, revocation checks,
and lock order.

## Verification

- **72 focused tests pass** across read projections, run identity,
instruction authority, and chat admission retry.
- **49 assembled heartbeat recovery tests pass** for chat and automatic
ancestry; 359 unrelated tests were outside the filter.
- Real PostgreSQL tests include large payloads, task/company/agent
mismatch, current membership revocation, malformed JSON types, native
binding precedence, and invalid legacy identifiers.
- Real ancestry service SQL: 526,477 to 306 serialized response bytes
(99.942% smaller) with three 174,764-byte incompressible execution
fields.
- Every selected non-context value matches the baseline. Both complete
service calls return the same result. Typed binding cases are checked in
PostgreSQL.
- Five alternating warm samples after two warmups: median 2.152 ms
before, 0.812 ms after. These are local query/client timings, not hosted
request latency.
- Full build and recursive typecheck pass. The full local stable suite
is running; no full local pass is claimed. Current-head CI and review
must pass before merge.
- The first new-fixture run failed eight tests because it reused a
unique company prefix. Each fixture now has its own prefix; the focused
rerun passes all 72 tests.
- All current-head CI checks pass on
`ecc951b25d67fddc7dc2e0e3e2de861a40ee5ed0`. Greptile: **5/5, medium
impact**, no findings or unresolved threads.
- Staging effect is not measured yet.

## Risks

Missing identity fields could change an authorization or recovery
decision.
The tests exercise current authority and fail-closed behavior. The
change keeps
full execution reads intact, preserves JSON types, and does not cache
authority.
There is no migration, message deletion, timing change, or data
truncation.

## Model Used

OpenAI GPT-6 through Codex, with source inspection, code execution, and
GitHub tools.
The exact served 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>
2026-10-24 12:25:33 -07:00
Devin FoleyandPaperclip 7bd449dbb6 fix(recovery): project context evidence for latest-run checks (#17463)
## Thinking Path

> - Paperclip manages AI agents and their tasks.
> - Recovery sweeps decide whether tasks have a valid next step.
> - Those decisions inspect saved run metadata.
> - Latest-run queries also return full prompts and execution setup
data.
> - This repeats large responses when a sweep leaves a task unchanged.
> - This change projects the context evidence recovery actually reads.
> - A row-version check keeps stale evidence from changing a task.

## Linked Issues or Issue Description

**What happened?**

The latest-run recovery queries retrieve large stored contexts for each
candidate.
The decision usually consumes small recovery, message, or workspace-mode
fields.

**Expected behavior**

Keep all decision evidence while selecting a small response. Preserve
complete
stored contexts and full execution reads. Detect concurrent source
changes.

**Steps to reproduce**

1. Store a terminal run with large task Markdown, wake, workspace, and
continuation bodies.
2. Call `reconcileStrandedAssignedIssues` for its assigned task.
3. Observe the full context returned by the latest-run query on each
sweep.

**Paperclip version or commit**

Baseline: `410e5c6eedba98588a87e4104153898fb0437532`.
Related read optimization: Refs #17405. Complementary fix: Refs #17460.
These PRs have no code dependency. Searched existing PRs and issues for
run
projections, recovery reads, and database transfer. No duplicate was
found.

**Deployment mode**

External PostgreSQL. Verification uses disposable real PostgreSQL and
synthetic data.

## What Changed

- Project typed context evidence in all three latest-run recovery
queries.
- Keep only the used workspace mode and external-interaction flag from
nested setup objects.
- Preserve original JSON types, message references, retry evidence, and
existing query scopes and order.
- Read PostgreSQL `xmin` with the run. Require the same row version
during native blocked-wait repair.
- Retain the original full-context comparison for callers that supply a
full run without a row version.
- Test large payloads, malformed JSON shapes, review-message recovery,
and concurrent source edits.

## Verification

- Final-source integration checks: **450 passed** across context
projections, native finalization recovery, and the assembled heartbeat
recovery service.
- Focused issue-lock race check: **9 passed** (401 outside the filter),
including omitted-context and late-output edits and successful repair on
a fresh sweep.
- Final-source recursive typecheck and full build pass. The full local
stable suite is still running; current-head CI must also pass before
merge.
- Real-service SQL capture against the baseline: one returned row falls
from 699,724 to 573 serialized JSON bytes (99.918% smaller).
- The fixture uses four 174,764-byte incompressible execution fields.
All unaffected returned columns compare equal. Regression tests check
the retained decision evidence and unchanged stored records.
- Five alternating warm samples after two warmups: baseline median 1.479
ms, treatment 1.084 ms. Ranges overlap; no request-latency speedup is
claimed. Plans were captured outside the timing interval.
- An initial full-context hash projection cut bytes but raised the local
median to 7.457 ms. The final row-version check removes that cost.
- One integration run overlapped the hash-export rename and failed seven
tests on the removed export. A fresh final-source run passed all 450
tests. The earlier mixed-source failure remains recorded and is not
counted as a pass.
- All current-head CI checks pass on
`17add20e391c30ed0496f4b39eb9c59779efa6b4`. Greptile: **5/5, medium
impact**, no findings or unresolved threads on that head.
- Hosted transfer and product behavior remain to be verified on staging
after merge.

## Risks

The context selection must track its recovery consumers. Tests preserve
typed
flags, retry budgets, external-chat references, and malformed-input
behavior.
The row-version guard is conservative: any intervening run update defers
native
blocker repair to a fresh sweep. Concurrent omitted-context and output
edits are
covered through the real service and issue-lock wait; a fresh sweep must
still repair.
There is no migration, prompt truncation, history deletion, or
authorization cache.

## Model Used

OpenAI GPT-6 through Codex, with source inspection, code execution, and
GitHub tools.
The exact served 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>
2026-10-24 12:14:41 -07:00
Nicky Leach 60ca3a903a Keep warm sessions across project revision transitions (#17461) 2026-10-24 12:11:26 -07:00
Nicky Leach 988fe0180b fix(heartbeat): keep source-free project policy stable across turns (#17447) 2026-10-24 10:54:28 -07:00
DottaandPaperclip 0eb2c964a7 fix(agents): allow runner qualification with agent configuration permission (#17448)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Agent owners configure the harness and computer used for that work.
> - A legacy runner upgrade must first qualify an unverified sandbox.
> - The upgrade called an instance-admin probe, so a company owner with
agent configuration permission received HTTP 403.
> - This pull request qualifies the saved computer through the agent's
existing configuration authorization.
> - Company owners can complete the upgrade while general instance
environment management stays restricted.

## Linked Issues or Issue Description

Refs #17361. Related: #17122.

**What happened?**

Upgrade runner displayed for an existing Claude agent on a Daytona
Paperclip Computer. Clicking it returned “Instance admin access
required” for a cloud company owner. The agent remained on the legacy
runner.

**Expected behavior**

A caller permitted to update the agent can qualify that agent's saved
computer and upgrade. Instance-admin access is not required for this
agent-scoped operation.

**Steps to reproduce**

1. Sign in as a cloud company owner with `agents:configure` and no
instance-admin role.
2. Open an existing legacy Claude agent on an unqualified Daytona
snapshot.
3. Select Upgrade runner.

## What Changed

- Add `POST /api/agents/{id}/qualify-runner` with the existing
`agent_config:update` guard.
- Reuse the server's effective environment resolver. The submitted
environment ID only detects stale state; it cannot select a different
computer.
- Preserve company binding checks, check binding again at lease
acquisition, and record agent-scoped audit activity.
- Return qualification status and the lease receipt without
instance-level provider metadata or raw provider errors.
- Use the new endpoint for the existing-agent upgrade. Keep the generic
environment probe restricted to instance admins.
- Disable Upgrade runner when an unsaved computer change resolves to a
different target, with a save-first explanation. Other draft settings
still accompany an upgrade.
- Add real-database authorization regression tests and update the API
contract and access maps.

## Verification

- Red: the existing UI called the instance-wide probe and failed the new
agent-scoped call assertions in eight upgrade cases.
- Green: 349 related route, provider qualification, runner selection,
and UI tests passed.
- Green: 12 authorization cases passed with real PostgreSQL, real HTTP
routes, real saved role grants, and a simulated provider boot. They
cover the cloud owner, removed grants, foreign agent/computer, inherited
targets, stale target, invalid body, archived/local target, redacted
failure, audit scope, and unchanged agent settings.
- Review regression: two cases first reproduced the enabled upgrade
button after an unsaved computer change; both now pass, along with all
168 related UI tests. Qualified/unqualified computers and restoring the
saved selection are covered.
- All 26 OpenAPI cases passed; the 12 real-database authorization cases
also passed after rebase.
- The host exhausted PostgreSQL semaphores. For the 12 cases, a
temporary local-only setup used disposable PostgreSQL 18 in Docker
instead of the embedded database launcher. The committed tests use the
normal embedded database helper. No authorization decisions were mocked.
- `pnpm -r typecheck`, `pnpm build`, `pnpm check:token-gates`, map
validation, module-boundary validation, and `git diff --check` passed.
- `pnpm test:run` was attempted but did not establish a full local pass:
the host could not start embedded PostgreSQL clusters. All current-head
CI gates passed, including the full suite in CI. The commitperclip
review workflow timed out before reporting any executed steps on its
first attempt and passed on one retry.
- Fresh staging acceptance remains pending deployment. Verify persisted
native configuration and a successful runtime test on the existing
Daytona computer after merge. Earlier live Daytona proof from #17361 is
separate evidence.

## Risks

- Qualification can start a fresh, temporary sandbox. It uses the
existing probe lifecycle and cleanup contract.
- The new path must remain scoped to the saved agent and its company.
Denial and redaction tests cover that boundary. General instance probe
authorization is unchanged.
- No migration, role change, credential change, or automatic agent
upgrade is included.

## Model Used

- OpenAI GPT-6 through Codex, with reasoning, code execution, and
browser tools. The exact deployed model variant and context-window size
were 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>
2026-10-24 10:31:40 -07:00
DottaandPaperclip 7ae81c9fa7 fix(slack): support rich questions and complete review delivery (#17255)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Questions and review decisions must work in the conversation where a
task started.
> - Slack omitted question context and did not publish several review
kinds.
> - Some answers saved in Paperclip also lost their authorized
continuation or their final Slack reply.
> - A settled card and a successful run did not prove that the user
received the result.
> - This pull request preserves complete questions and follows the
existing answer and delivery receipts through continuation.
> - Users can read the request, submit an authorized decision, and
receive the resumed task's result in the same conversation.

## Linked Issues or Issue Description

Refs #17045 and #17218.

**What happened?**

Slack question cards could omit instructions and editable starting text.
Checkbox reviews, item verdicts, task suggestions, and connection
requests had no publication path. Complex question answers submitted in
Paperclip could fail continuation authorization. Several review
continuations completed without delivering their result to Slack.

**Expected behavior**

Show the actual question and context. Use native Slack controls when
they preserve the form contract. Otherwise provide an explicit Paperclip
review link. Persist one authorized response, resume through the
existing delivery path, settle the card, and deliver the useful result
to its originating conversation.

**Steps to reproduce**

1. Start a task in Slack and ask a text or choice question with
instructions and help text.
2. Submit native text and choice responses, then submit a complex form
through Paperclip.
3. Accept a checklist, submit item decisions, select suggested tasks, or
decline a connection request.
4. Inspect the saved answer, continuation run, original Slack card, and
final Slack reply independently.

## What Changed

- Preserve full prompts, context, descriptions, recommendations, help,
and editable starting text. Use direct buttons for short choices, inline
searchable selects for longer lists, and native checkboxes with explicit
submission for multiple choices.
- Add native custom-answer and validated-text modals, ordinary
confirmation buttons, checklist decisions, per-item verdicts with
reasons, suggested-task creation/dismissal, and connection decline. Keep
governed approvals, permission grants, and forms that cannot be
represented faithfully in the full Paperclip review surface.
- Keep Slack-specific canonical-validation feedback in its owning
platform module. Shared callbacks delegate without interpreting provider
presentation.
- Reuse the existing canonical interaction transactions, callback
receipts, publication queue, and continuation delivery. Share ordinary
confirmation handling across Telegram and Slack. Recheck current
authorization and commit response receipts atomically.
- Settle cards with the saved answer and remove stale controls. Ignore
passive Slack link callbacks so opening a task does not display a false
answer error.
- Validate exact multi-select receipt mappings during native
continuation. Recover automation-origin connection replies from their
published prompt after validating the durable connection receipt.
- Keep oversized multi-select handoffs free of unused native tokens, and
retain the complete Paperclip form for 101–128 choices plus Other. Make
the original-conversation audience explicit before submitting a Slack
modal.
- Add rollback, provider serialization, callback, continuation, and
negative authorization regressions. Update the connector playbook and
feature/access maps. No React or application UI changes are included.
- Add a durable Q01–Q11 qualification index and provider coverage
matrix. Require distinct functional, good-experience, and
best-available-control assessments; real unanswered/answering/settled
evidence; saved results, continuation and navigation proof; and retained
failures. Mark other providers unaudited rather than assuming Slack
parity.

## Verification

Candidate: `e0017d446b1016a38d65382366cd1408cce33039`. The
eleven-core-format live Slack gallery is pinned to
`c3d458b2a06b660448940fd8cf33c5906f0058d5`; subsequent boundary fixes
and the sharing notice have automated verification, not new live
screenshots.

- Real Slack UI testing covered all 11 formats: text, closed choice,
long single select, multiple choices, choices with a custom answer,
pattern-validated text, confirmation, checklist, item verdicts,
suggested tasks, and connection requests. Each has
unanswered/answering/answered screenshots as applicable, an inspected
saved result, one continuation, and an individual experience review in
the local HTML gallery.
- The dedicated private QA app/channel used signed callbacks to the
local candidate. A separately approved password-protected, read-only
preview proved connection-review, suggested-task review, and
created-task navigation. Anonymous access, writes, and credential routes
were denied. No OAuth grant was attempted.
- Real testing exposed and repaired a multi-select continuation failure
and a misleading error on link-button clicks. Failed attempts remain in
the evidence. The final navigation replay opened the exact pending
connection request and declined it in Slack without granting access.
Suggested-task creation produced the selected child with the correct
parent and description.
- Final review-fix verification: **32 form tests**, **28
provider/form-rendering tests**, **30 publication tests**, and **171
native continuation/authorization tests** passed. Earlier **3
atomic-resolution rollback**, **9 targeted
callback/publication/Telegram**, and **28 review-continuation** cases
passed. The final Slack/Teams modal subset also passed. The
automation-origin connection cases, 101/128 custom-choice cases, and
oversized multi-select continuation reproduced before their fixes and
passed afterward; failing logs remain retained. These counts describe
relevant runs, not a reliability percentage.
- CI on `b5885b85fd` exposed a test fixture that assumed every Slack
modal block was an input; the new sharing notice correctly renders a
non-input block. The fixture now selects input blocks safely. The exact
signed-modal correction/one-continuation test passed locally, together
with 14 Slack form/modal tests. The failing CI log and its specific
cause remain recorded.
- `pnpm -r typecheck` and `pnpm build` passed. Server typechecking was
repeated after the final source changes. Map and module-boundary checks
and `git diff --check` passed.
- The full `pnpm test:run` was attempted and stopped after repeated
embedded PostgreSQL semaphore exhaustion on this host. Its 1,395-test
chat suite found two stale native-control assertions; both were
corrected and re-tested in a focused run. Focused database suites used
separate disposable databases on existing local PostgreSQL. The full
suite is not claimed green; new-head CI must complete before merge.
- Final-head CI passed on `e0017d446b1016a38d65382366cd1408cce33039`:
all test/build jobs and required `ci / verify` and `ci / e2e` gates are
green
([run](https://github.com/paperclipai/paperclip/actions/runs/40115430194)).
Greptile and Ponytail both reviewed this exact head at 5/5, the security
scan passed, and all review threads are resolved.
- All three QA app callbacks were restored to staging. Both temporary
tunnels and local proxies were closed. The local endpoint was archived
and its local credential copies removed. The candidate app was stopped.

Limits: provider execution used a deterministic Claude protocol fixture,
not an LLM. This is local real-provider UX proof, not deployed staging
or broader Codie/Claude qualification. The public preview intentionally
blocked ancillary artifact routes, so its destination pages could show a
partial-history warning. The complete permission-grant flow and every
oversized/mixed-form branch were not driven manually. Earlier fixture,
test, and provider failures remain recorded.

## Risks

- New reply routes require durable origin proof. Incorrect receipt
matching could lose a reply or route it incorrectly. Tests cover
missing, forged, mismatched, and revoked authority.
- Governed forms keep their Paperclip resolution checks. This change
does not grant new approval authority to Slack.
- Existing completed review results can become deliverable through the
repaired publication path without another provider run.
- No schema, lockfile, workflow, public task-status model, or
runtime-instruction change is included. This branch is not deployed.

## Model Used

OpenAI Codex, GPT-6 family, with code execution and tool use. 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 linked existing issues or described the issue in-PR
following the relevant issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links
- [x] My branch name describes the change and contains no internal
Paperclip ticket id
- [x] I have run focused 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 on the new head
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
on the new head
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-10-24 10:29:15 -07:00
DottaandPaperclip b7506671b9 fix: preserve qualified snapshots during native setup validation (#17445)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Native agent setup can validate a selected sandbox before the agent
runs.
> - A qualified snapshot binds the saved environment and resolved
runtime to an immutable provider snapshot.
> - Setup validation changes lease retention so each test starts fresh
and leaves an archived sandbox for inspection.
> - The test passed that changed config as the saved environment, which
made valid snapshot proof appear stale.
> - This pull request keeps saved qualification separate from the two
test retention settings.
> - Native setup can use the qualified snapshot and still clean up its
test lease.

## Linked Issues or Issue Description

Related: #15997, #17262.

**What happened?**

Native setup validation can return `environment_lease_acquire_failed`
for a sandbox whose saved snapshot qualification is valid. The test
changes `reuseLease` and `archiveOnRelease` before the runtime checks
the saved configuration fingerprint.

**Expected behavior**

The test must qualify the original saved environment, acquire a fresh
lease from its immutable snapshot, and preserve archive-on-release in
the lease metadata. A changed image, provider, runtime config, or stale
proof must still fail.

**Steps to reproduce**

1. Save a Daytona snapshot environment with `reuseLease: true` and
`archiveOnRelease: false`.
2. Store valid company-scoped snapshot qualification for the saved and
resolved runtime configurations.
3. Run native agent setup validation against that environment.
4. Observe that the validation retention overrides invalidate the saved
fingerprint before a provider lease is acquired.

**Paperclip version or commit**

Reproduced from master at `785d54636e1c8513ee5503d602daf6a5ee1970d6`.
The fix is based on `62f60bf158746c5807763778326b1eba4f2ed18a`.

**Deployment mode**

Any server with a qualified native Daytona sandbox environment.

## What Changed

- Pass the original saved environment to native setup lease acquisition.
- Allow only `reuseLease` and `archiveOnRelease` to differ in the run
configuration. Apply those fields after saved snapshot qualification.
- Keep both retention fields in the acquired lease metadata so provider
release still archives the test sandbox.
- Add service-to-runtime cases for valid and stale proof, immutable
snapshot selection, fresh lease retention, release behavior, and
rejected non-retention overrides.
- Extend the route regression to require the original saved
configuration.

## Verification

- The focused route regression failed before the fix because acquisition
had no `configuredEnvironment`.
- All 101 focused route, snapshot, and orchestration tests passed on the
exact rebased head.
- Full repository typecheck and build passed on exact head
`15e13e119941090e85638005de54b2d14ea52c00`.
- The local database regression could not start PostgreSQL because macOS
could not allocate system semaphores. The full `pnpm test:run` attempt
also reported database startup failures and was stopped as incomplete.
Neither attempt is counted as passing.
- Exact-head Linux CI passed all 179 environment runtime integration
tests, including the seven new regression cases. Its server shard passed
3,635 tests with 16 existing skips. All exact-head CI gates passed. The
final repository review must also complete before merge.
- No live provider or model call is part of this verification. This PR
does not deploy the fix.

## Risks

The acquisition boundary now accepts two explicit retention-only
differences. All other config fields, environment identity,
company-scoped proof, resolved runtime fingerprint, and template binding
remain subject to the existing checks. Regression cases reject changed
snapshot, image, provider, and environment variables before provider
dispatch. No schema or API contract changes.

No user-facing command or documentation contract changes.

## Model Used

OpenAI Codex, GPT-6 family, with reasoning, repository inspection, code
execution, and test tools. The session does not expose an exact backend
model identifier 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>
2026-10-24 09:59:35 -07:00
DottaandPaperclip 5db5734774 fix(plugins): scope operational reads to the caller's companies (#17435)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - One instance hosts many companies, and company boundaries are the
main isolation contract
> - Plugin worker logs, job runs and webhook deliveries store a
`company_id` attribution (NULL for instance scope)
> - The plugin diagnostics routes checked board org access, but they did
not filter those rows by the caller's companies
> - A board member of one company could therefore read another company's
log messages, run errors and delivery errors
> - This pull request scopes those reads to the caller's companies and
keeps the instance-wide view for instance administrators
> - The benefit is that plugin diagnostics obey the same tenant boundary
as the rest of the plugin routes

## Linked Issues or Issue Description

**What happened?**
A board user who is a member of only company A could read plugin
operational rows attributed to company B. `GET
/api/plugins/:pluginId/logs` returned log rows with `company_id` values
outside the caller's companies. `GET
/api/plugins/:pluginId/jobs/:jobId/runs` returned other companies' run
rows, including their error text and run logs. `GET
/api/plugins/:pluginId/dashboard` returned other companies' recent job
runs and webhook deliveries. The routes only required board org access
and filtered on plugin id or job id.

**Expected behavior**
A board member sees only operational rows for companies the member can
access. An instance administrator (and the local implicit board) keeps
the instance-wide view, which includes instance-scope rows where
`company_id` is NULL.

**Steps to reproduce**
1. Create two companies, A and B, on an authenticated instance.
2. Install a plugin and produce a log row, a job run and a webhook
delivery for company B.
3. Sign in as a board user who is a member of company A only.
4. Call `GET /api/plugins/:pluginId/logs`, `GET
/api/plugins/:pluginId/jobs/:jobId/runs` and `GET
/api/plugins/:pluginId/dashboard`.

Before this change, the responses included company B rows. After this
change, they do not.

**Paperclip version or commit**
Reproduced on `2e6d3f7` (`master`, 2026-10-24). The report came from a
scoped security audit of `52a66af29ddccf1fcac25f1f6efa9e9958e11fbd`.

**Deployment mode**
Self-hosted server, authenticated mode. The defect does not depend on
the deployment mode, but `local_trusted` always yields an instance-admin
actor and hides it.

## What Changed

- Added `pluginOperationalReadCompanyIds()` in
`server/src/routes/plugins.ts`. It returns `null` for instance admins
and the local implicit board, and the actor's company ids for every
other board actor.
- Scoped `GET /api/plugins/:pluginId/logs` with
`inArray(pluginLogs.companyId, companyIds)`.
- Scoped `GET /api/plugins/:pluginId/jobs/:jobId/runs` through a new
optional `companyIds` argument on `pluginJobStore.listRunsByJob()`.
- Scoped the dashboard's recent job runs through the same optional
argument on `pluginJobStore.listRunsByPlugin()`, and scoped its webhook
delivery query.
- Added
`server/src/__tests__/plugin-operational-reads-tenant-scope.test.ts`. It
starts embedded Postgres, seeds two companies plus instance-scope rows,
and asserts the single-company view and the instance-admin view for all
three routes.

## Verification

- Red first: with the test added and the route unchanged, 3 of 4 cases
failed and the response contained the company B rows.
- Green after the fix: `pnpm exec vitest run
server/src/__tests__/plugin-operational-reads-tenant-scope.test.ts`
passed (4 tests).
- Related suites: `pnpm exec vitest run
server/src/__tests__/plugin-routes-authz.test.ts
server/src/__tests__/plugin-tenant-isolation.test.ts
server/src/__tests__/plugin-install-route-security.test.ts` passed (59
tests).
- Typecheck: `pnpm --filter @paperclipai/server typecheck` passed.

## Risks

- Behavior change for non-admin board members: they no longer see
instance-scope rows (`company_id` NULL) or rows for companies they
cannot access. Instance administrators keep the full view. For a
single-company instance the visible rows are the same, except
instance-scope rows.
- No schema or migration change. No API shape change. Row-level
filtering only.
- A plugin that writes diagnostics without a `company_id` will show
fewer rows to non-admin users. That is the intended tenant boundary.

## Model Used

- Provider: OpenRouter
- Model: `deepseek/deepseek-v4.1-flash-1017` (DeepSeek V4.1 Flash)
- Harness: OpenCode, with tool use, code execution, and multi-agent
delegation
- Reasoning: enabled (thinking mode)
- Context window: not exposed by the harness

## 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
- [ ] 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>
2026-10-24 09:28:17 -07:00
Devin FoleyandPaperclip 785d54636e Delete re-homed isolated clones when their contents are reproducible (#17410)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Isolated task workspaces are Git worktrees on the server disk, and
the terminal workspace reaper keeps that disk usage bounded
> - #17369 moves old workspaces off their private per-issue clones onto
the project's shared clone and then deletes the private clone
> - On one instance, the first live sweep moved 12 workspaces but
deleted none of their clones (about 600 MB each), and 3 workspaces could
not move because their restore point was "too large"
> - The kept clones are not referenced by any workspace, so no other
cleanup removes them
> - This pull request replaces the clone check with a real
reproducibility check, sweeps the orphaned clones, lifts the restore
point limits for local transfers, and fixes a false
`source_identity_changed`
> - The benefit is that the disk space #17369 was meant to reclaim is
reclaimed, without deleting unique work

## Linked Issues or Issue Description

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

**What happened?**
On one instance, with `PAPERCLIP_ISOLATED_SOURCE_REHOME_ENABLED=true`
and dry run off, the first sweep re-homed 12 workspaces, skipped 5 with
`live_or_unresolved_consumer` and 3 with `restore_point_too_large`. No
clone was removed: 11 logged `cloneKeptReason:
"clone_checkout_has_files"` and 1 logged `"source_identity_changed"`.
Each clone's own checkout was clean (`git status --porcelain
--untracked-files=all` empty). Its only history that the shared clone
lacked was remote branches and release tags that the shared clone never
fetched, which exist on the remote. An operator removed 11 clones by
hand after verifying them.

**Expected behavior**
A re-homed clone whose checkout is clean and whose local history is in
the shared clone or on the remote is deleted. A clone with real unique
work is kept. Workspaces whose changes exceed the upload limits still
move, because the transfer is local.

**Steps to reproduce**
1. Use a project repository whose `.gitignore` (or the clone's
`info/exclude`) contains `.paperclip/`, with a release tag on a commit
that is not on any branch.
2. Re-home an isolated workspace of that repository with #17369.
3. The old worktree is removed, the empty `.paperclip/worktrees`
directory stays, and `git ls-files --others --ignored --directory` lists
`.paperclip/`. The clone is kept with `clone_checkout_has_files`.
Without the ignore line, the local release tag keeps it with
`unique_clone_history`.
4. Add a file larger than 64 MiB to a workspace. The move skips with
`restore_point_too_large`.

**Paperclip version or commit:** `master` at aa0037a137 (rebased on
ee29e2850d, after #17407).
**Deployment mode:** any.
**Agent adapter(s) involved:** not adapter-specific (core).

## What Changed

- New clone reproducibility check (`cloneDisposable` in
`server/src/services/isolated-repository-rehome.ts`), used before
deleting a re-homed clone:
- `git worktree prune`, then only the clone's own worktree may remain
(`base_has_worktrees`);
- no tracked changes and no untracked files
(`clone_checkout_has_files`); the only untracked exception is
Paperclip's compaction trash;
- ignored files only inside regenerable directories (`node_modules`,
`dist`, ...) or Paperclip's compaction trash. Ignored entries are listed
with `--no-empty-directory`, and a non-regenerable ignored directory is
expanded file by file, so empty directories such as the old worktree's
`.paperclip/worktrees` parent no longer count;
- only `refs/heads`, `refs/tags` and `refs/remotes` (no stash, notes or
replacement refs: `unsupported_clone_refs`);
- every commit reachable from local branches, local tags, non-remote
reflogs, `ORIG_HEAD` and `HEAD` (so a detached checkout counts) must be
on a remote-tracking ref, present in the shared clone, or on the remote.
The remote check reuses `hasCommitsMissingUpstream` (now exported),
which fetches the remote's branches and tags into a temporary store, and
it runs only when some commit is in neither place. A local tag is
accepted when its commit is on the remote. Otherwise the clone is kept
(`unique_clone_history`), or kept with
`managed_checkout_upstream_unavailable` when the remote cannot be read;
- existing 5,000 budgets for refs, reflog entries and unique commits
(`clone_history_budget`), plus at most 1,000 ignored directories outside
regenerable ones, read in one Git call (`clone_file_budget`);
- the log entry now includes `cloneKeptPaths`: up to five paths,
worktrees, refs or commits that kept the clone.
- Cleanup also checks that the clone's `origin` still matches the
workspace `repoUrl` before deleting it.
- Old worktree ownership (#4): it is proven by `git rev-parse
--git-common-dir`, or, when that fails, by the worktree's `.git` pointer
into `<clone>/.git/worktrees/`.
- Orphan sweep (`sweepOrphanedIsolatedRepositorySources`): at the first
reaper rotation after server start (feature on), it walks
`isolated-repository-sources/<company>/<issue>/checkout`. It holds the
isolated source lock and skips clones that a workspace still needs (an
open workspace with matching `isolatedRemoteSource`, a closed one that
is not expired with its worktree removed, a project workspace or a
running service), clones with a pending move, and clones whose re-homed
workspace still has its own cleanup pending. The repository URL comes
only from the database: the issue's workspaces must record exactly one
URL and the clone's `origin` must equal it (`unproven_repository` or
`source_identity_changed` otherwise), so a rewritten `origin` is never
fetched. It then applies the same check (using the shared clone of a
workspace of the same issue and repository when one exists), renames to
trash and deletes. It logs `event:
"execution_workspace.isolated_source_orphan_cleanup"` and removes
leftover trash directories from interrupted removals. It inspects at
most eight issue directories per reaper sweep and resumes from the saved
position in the next sweep, so slow remotes cannot hold up other
cleanup. When a full walk kept any orphan, it registers a deadline one
day later in the reaper's existing deadline set. Otherwise it registers
nothing until the next server start. No new timer.
- Restore point limits for re-home (#3):
`ISOLATED_REHOME_RESTORE_POINT_LIMITS` (500,000 files, 1 GiB per file
and in total, 1.5 GiB bundle, 1,000,000 commits) replaces the upload
defaults for this local transfer. Verification is unchanged (exact
snapshot equality). In `git-restore-point.ts`, `applyRestorePoint` now
streams `git diff --binary` into `git apply` instead of buffering it
(and skips the pipe when there is no diff, so no new Git version is
needed). On a failure it kills both processes and waits for both. The
ignored-file read sizes its buffer from the tree instead of the default
limit.
- Docs: `doc/recoverable-disk-cleanup.md`.

### What I found for `source_identity_changed` (#4)

In #17369, cleanup ran `git rev-parse --git-common-dir` in the old
worktree and used `""` when the command failed. Then it compared that to
the clone's `.git` path, so any Git failure in the old worktree was
reported as `source_identity_changed`. Git fails there when the old
worktree's registration in the clone (`<clone>/.git/worktrees/<name>`)
is gone while the directory still exists. Its `.git` file then points to
a missing directory. I reproduced this by deleting the registration
after a re-home: the old code keeps the clone with
`source_identity_changed`, the new code removes the old worktree and the
clone. I could not inspect the instance, so the exact event that removed
that one registration is not confirmed. The check was a false positive
in that case, and the fix proves ownership from the `.git` pointer
instead. A worktree whose pointer leads outside the clone is still kept.

## Verification

- `pnpm exec vitest run
src/__tests__/isolated-repository-rehome.test.ts` in `server/`: 28
passed (real Git repositories, embedded Postgres). New cases:
- a clean clone whose only extra history is a remote branch and a
release tag on a commit outside any branch, both absent from the shared
clone, with `.paperclip/` ignored in the clone: deleted;
- a clone with a local branch commit that is neither upstream nor in the
shared clone: kept (`unique_clone_history`, the commit is in
`cloneKeptPaths`);
- a clone with a tracked change, then an ignored non-regenerable file
next to an ignored `node_modules`, then an untracked `build/notes.txt`:
each kept (`clone_checkout_has_files` with the path), then deleted after
cleanup;
- a clone with a second registered worktree: kept
(`base_has_worktrees`);
- a clone whose detached `HEAD` holds the only copy of a commit (reflogs
expired): kept (`unique_clone_history`);
- an old worktree whose registration was pruned: old worktree and clone
removed;
- an orphan whose `origin` was rewritten is kept with
`source_identity_changed`, and with `unproven_repository` once no
workspace records its repository;
  - 1,001 ignored directories keep a clone (`clone_file_budget`);
- orphan sweep: a batch of one returns a resume position and the next
batch finishes the walk; a dry run changes nothing. Then an orphan whose
history is in the shared clone or on the remote is deleted, and an
orphan with no workspace rows and an unpushed commit is kept, with the
next deadline one day later;
- a workspace with 65 MiB untracked and ignored files (default capture
refuses them with `restore_point_too_large`) moves with an exact
snapshot match.
- After rebasing on #17407 (nested clone migration, which reuses helpers
from the re-home module): `isolated-repository-rehome`,
`nested-clone-migration`, `execution-workspaces-service`,
`execution-workspaces-routes`, `execution-workspace-reopen`,
`execution-workspace-compaction`, `execution-workspace-policy`,
`execution-workspace-runtime-control-conflict`,
`execution-workspace-runtime-lease-route`, `git-workspace-expiration`,
`git-restore-point`, `git-restore-point-expiration`: 405 passed;
typecheck passes.
- Related suites in `server/` (before the rebase):
`git-workspace-expiration`, `git-restore-point`,
`git-restore-point-expiration`, `execution-workspace-reopen`,
`execution-workspaces-service`, `execution-workspace-compaction`,
`heartbeat-git-restore-point-resume`, `heartbeat-project-repositories`,
`git-reproducible-managed-checkouts`,
`isolated-remote-workspace-source`, with the new suite: 398 passed.
- `pnpm run typecheck` in `server/` passes.
- Mutation checks, each failing a test:
- remote proof replaced by "always unique": the unfetched-history and
orphan tests fail;
- remote proof replaced by "never unique": the local-commit and orphan
tests fail;
  - `.git` pointer fallback removed: the pruned-registration test fails;
  - re-home limits removed: the large-file test fails;
  - orphan sweep removed from the reaper: the orphan test fails;
  - worktree count check removed: the second-worktree test fails;
- regenerable-directory exception applied to untracked files: the
dirty-checkout test fails;
  - orphan batch limit removed: the orphan test fails;
- orphan URL taken from the clone again: the rewritten-origin test
fails;
  - ignored directory budget removed: the many-directory test fails;
- `HEAD` left out of the checked commits: the detached-HEAD test fails.
- Dropping only `--no-empty-directory` does not fail a test, because the
per-directory expansion also accepts an empty ignored directory. The two
mechanisms are redundant on purpose.
- Not run: the full server suite, or the change on a live instance.

## Risks

- Deleting a clone now depends on reading the remote when some local
commit is neither on a remote-tracking ref nor in the shared clone. If
the remote cannot be read, the clone is kept.
- Commits that only remote-tracking refs hold (for example a remote
branch deleted upstream after the clone fetched it) are treated as not
unique, as before. They were pushed once.
- The orphan sweep deletes clones that no workspace refers to. A closed
workspace that is expired with its worktree removed does not count as a
user, because reopening it rebuilds from the shared clone or clones
again.
- Re-home transfers can now use up to about 1.5 GiB of memory for a
single restore point payload, so a very large workspace uses more memory
during its move than before.
- The orphan sweep runs once per server start and then only while it
keeps an orphan, so a clone that becomes orphaned later waits for the
next restart.
- 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>
2026-10-24 09:17:28 -07:00
DottaandPaperclip 71c04c0bfb fix: stop idle environment cleanup polling (#17145)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Agent environments can leave pending teardown or unverified provider
resources.
> - Recovery must preserve those resources until ownership and workspace
safety allow cleanup.
> - Empty maintenance scans keep an idle instance and its database
active.
> - The existing rows, transaction signals, and scheduler can represent
the actual recovery obligation.
> - This pull request schedules pending cleanup and historical
verification only while work remains.
> - An empty or fully verified instance stops these scans without losing
cleanup recovery.

## Linked Issues or Issue Description

**What happened?**

The server scanned pending environment cleanup on its maintenance tick.
The run reaper also scanned it even when it recovered no runs or active
leases. Historical resource verification scanned every five minutes,
including when all history already had valid cleanup proof.

**What did you expect?**

Writes should wake cleanup. Pending rows, deferred orphan buffers, and
unverified history should retain recovery deadlines. When none remain,
these workers should make no periodic database or provider calls.

**Steps to reproduce**

Start a configured instance with no pending leases and fully verified
history. Leave it idle. Observe repeated pending-cleanup and
historical-verification reads from the maintenance paths.

Related: #17106 supplies the preceding login-cleanup migration. #13523
improves lease-reaper query indexes. #16809 addresses reusable-sandbox
recovery authority. This PR keeps those authority checks in their
existing services.

## What Changed

- Register two workers with the existing delivery coordinator and shared
scheduler. Remove their unconditional maintenance-tick calls. Run the
reaper's inline pending cleanup only after it recovers actual work.
- Add commit-aware signals to the audited lease and custom-image
writers. Existing transactions notify directly; other writers use one
small transaction helper. No tables or migrations are added.
- Derive pending cleanup deadlines from the existing row backoff and
retry or claim metadata. Retain a historical retry only while an
unverified candidate exists.
- Register unwritten orphan buffers across runtimes that share the
database handle. Buffer registration wakes recovery without a database
connection. Load the existing spool at startup and retry failed or
capacity-limited loads while needed.
- Isolate spool failures per runtime. Attempt all buffers and persisted
pending rows, then retain a retry for any failed spool.
- Document producer coverage, idle behavior, and remaining blockers.
Update the sleep inventory.
- Repair the inherited CSS-recovery E2E test: the current build no
longer emits task-page CSS. Exercise the actual lazy environment
stylesheet, preserving real network failure, recovery, and bounded
reload assertions.

## Verification

October 24 integration update: merged current master and resolved the
runtime/spool conflicts. Preserve serialized ingestion of records
appended after startup. Plugin replacement failures now register
deferred recovery with an idle hold; concurrent callers share one
persistence attempt. The producer audit includes this new writer.

- Focused cleanup selection: 270 tests now pass across five suites. The
initial run lacked a built plugin SDK and executed no tests; building
the SDK fixed setup. The new concurrent-flush assertion then reproduced
duplicate rows; a single-flight guard fixed it and all 18 plugin
integration tests passed on rerun.
- Server typecheck passed. After review fixes, all 211 tests across the
cleanup worker, real orphan spool, environment runtime, and plugin
integration suites passed. These overlap the earlier focused selection.
The rate-limit test initially expected a write after twenty idle minutes
to wait; corrected it to assert that subsequent writes cannot accelerate
the five-minute cadence.
- Review fixes preserve retries for unreadable spool
directories/records, keep historical provider checks off the startup
wait while joining them at shutdown, and restore their independent
five-minute minimum spacing. The complete [CI
matrix](https://github.com/paperclipai/paperclip/actions/runs/40108905033)
passed on final commit `79ae1589c3c7b924db4bedb337d0c7ed3d95020b`,
including all E2E shards, server/workspace tests, runner checks,
typecheck, build/public-install verification, and security checks.

- CI found a stale E2E asset matcher: `issue-detail-*.css` is no longer
emitted. Both corrected browser tests passed against a fresh production
UI build and disposable local instance. Fresh Greptile review is 5/5 on
that same final commit, with all review threads resolved.

Previous implementation verification:

- `pnpm -r typecheck` and `pnpm build` passed.
- New PostgreSQL worker suite: 12 tests passed. Covers quiet configured
state, verified history, writes, outer commit and rollback, retry
deadlines, restart, drain, deferred orphan buffers, spool failure,
pagination, provider uncertainty, shutdown, and the idle run-reaper
path.
- Worker and environment runtime suites after review fix: 183 tests
passed. A new assertion reproduced buffer starvation before the fix.
Updated transaction fault injection and isolated simulated-instance
database handles. Server typecheck also passed after the fix.
- Run-recovery suites: 58 tests passed. Pending-cleanup suite: 38 tests
passed after updating the logging fixture to seed real orphan recovery;
an idle reaper no longer invokes cleanup.
- Stop and workspace-recovery integration selection: 268 tests passed;
two live-provider tests skipped by their environment gate. This overlaps
the worker suite and is not an additional unique-test count.
- Started the full local `pnpm test:run`, then stopped that older
duplicate run after CI found the fixture mismatch. The corrected 38-test
suite passed locally. The full sharded [CI
matrix](https://github.com/paperclipai/paperclip/actions/runs/39678174479)
passed on final commit `fc0ff3c4554ca4190a8b0b81ec06ef7065b8ad2c`,
including build, typecheck, runner, server, workspace, and E2E checks.
This is not a claim that the local full run completed.

## Risks

- Missing a future producer signal could delay discovery until restart.
The producer audit is documented in `doc/idle-environment-cleanup.md`.
Independent SQL writers and another server process are outside the
existing process-local notification contract.
- Historical candidates blocked by ownership or provider uncertainty
keep a five-minute retry until they can be verified. Provider
destruction, claim fencing, Stop retention, and workspace safety remain
controlled by their existing services.
- This does not remove orphan-active discovery or legacy shutdown
settlement from run recovery. Active custom-image expiry is also still
periodic. External wake coverage does not change.
- Local tests prove these workers become quiet and recover. They do not
establish deployed instance suspension or fleet cost savings.

## Model Used

OpenAI Codex (GPT-6), with code execution and reasoning. The exact
serving model ID and context size were not exposed.

## 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>
2026-10-24 09:04:49 -07:00
Nicky Leach e5c9e60c5a Avoid session resets when reusing default task directories (#17419) 2026-10-24 08:26:57 -07:00
Nicky Leach f7716ec65b Allow exact warm-state reads during retained task retirement (#17418) 2026-10-24 08:26:48 -07:00
DottaandPaperclip 87bf89756e fix: support Daytona runner upgrades and ignore obsolete Claude options (#17361)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Existing Claude and Codex agents can upgrade to Paperclip Runner.
> - A Daytona computer needs platform qualification before Runner
becomes its default.
> - The upgrade notice required that default, so it hid the action that
could start qualification.
> - Saved Claude turn limits also caused conversion to fail even though
Runner can run without them.
> - This pull request verifies the computer on click and ignores
obsolete Claude options with a warning.
> - Agents retain their model, account, environment, instructions, and
permission policy.

## Linked Issues or Issue Description

Related: #17122.

**What happened?**

A legacy Claude agent on a Daytona snapshot had no upgrade button until
its environment had platform qualification. A saved `maxTurnsPerRun:
1000` then caused conversion to return HTTP 422.

**Expected behavior**

The upgrade action verifies a supported Daytona computer and converts
the agent. Unsupported tuning options produce a visible warning and do
not block execution.

**Steps to reproduce**

1. Create a legacy Claude agent with `maxTurnsPerRun: 1000` on an active
Daytona snapshot.
2. Open Runtime before the environment has platform qualification.
3. Try to upgrade to Paperclip Runner.

**Paperclip version or commit**

After #17122, reproduced against `9c442cf48e`.

## What Changed

- Offer upgrade on probe-capable Daytona snapshots and immutable sandbox
images. Perform the public environment probe only after a click. Save
after fresh adapter discovery confirms support.
- Resolve the actual computer for explicit, instance-default, and hidden
managed environments. Preserve pending edits and reject stale probe
results.
- Ignore Claude `maxTurnsPerRun`, `chrome`, `warmHandleIdleMs`, and
`acpWarmHandleIdleMs`. Return structured warnings from create, hire, and
update. Show warnings in Runtime and after a save.
- Keep validation for commands, credentials, filesystem, network, and
permission settings.
- Retain the legacy turn limit in the existing live conversion fixture.
Update regression tests, upgrade stories, and capability maps.

## Verification

- Red: the old route returns HTTP 422 for the saved turn limit; the old
form hides the Daytona upgrade notice.
- Green: 417 focused server and form tests pass. A further 188 tests
pass after the review fixes. Qualification coverage includes failed
probes, unsupported targets, changed settings, managed defaults, unsaved
environment variables, and forced Kubernetes targets.
- `pnpm -r typecheck` and `pnpm build` pass. Token gates, map checks,
map tests, and Storybook catalog checks pass.
- Real local Claude Opus 5.5 conversion and task pass, with the
downloaded artifact checked against seeded source bytes, SHA-256, and
Git commit.
- Real browser upgrade and full Claude Opus 5.5 task on a disposable
named Daytona snapshot pass at `b81cec7d8c`. The saved agent retains its
model, high effort, credentials, timeout, and grace settings while
dropping the turn limit with a visible warning. Exactly one successful
run completed the task. The downloaded artifact matched independently
seeded source bytes, SHA-256, and Git commit; the source was unchanged,
no interactions remained pending, and the delivery link survived a
browser reload. The snapshot used current runtime assets built from
public source. The supplied Daytona account could not access the
original staging snapshot, so this verifies an equivalent local fixture
rather than that exact snapshot. Disposable test resources were cleaned
up.
- Earlier live attempts remain recorded: an image-based sandbox creation
failed, and the first named-snapshot probe returned failure with
unresolved provisional cleanup identity. Later named-snapshot probing
and the task succeeded; the initial creation failures are not attributed
to this PR or declared resolved. A separate attempt using the Oct 18
cached runtime failed the current provider-pack compatibility check;
rebuilding the runtime from matching public source removed that
mismatch. Owned resources were identified and cleaned up, with
diagnostic databases retained.
- 54 checks passed at `b81cec7d8c`, with no failed checks; Greptile and
Paperclip Review both scored 5/5, with both review threads resolved.
Master advanced during the live proof, so the branch was rebased with
both sides of additive import/test conflicts retained. On the rebased
head `2b74222b94`, 472 focused tests, UI typecheck, and UI build pass.
All required CI gates pass; Greptile and Paperclip Review both score 5/5
on this head, with no unresolved review threads. The PR is mergeable.
The serial local `pnpm test:run` was stopped after the CI test lanes
passed; that local run is not claimed as a pass.

## Risks

- An explicit upgrade can allocate a temporary probe sandbox and take
several minutes. Probe failures leave the agent on its existing runner.
- Ignored options no longer enforce a turn cap, Chrome integration, or
legacy idle-time tuning. The UI warns about each active ignored option.
- Unsafe or ambiguous execution settings still fail validation. This
change does not weaken environment qualification or runtime artifact
checks.

## Model Used

OpenAI Codex, GPT-6, with reasoning, 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 (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>
2026-10-24 07:59:18 -07:00