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| Author | SHA1 | Message | Date | |
|---|---|---|---|---|
 DottaandPaperclip
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f1911a4c53 |
perf(skills): move repository packages out of Postgres (#18082)
<!-- entire-trail-link-start --> https://entire.com/gh/paperclipai/-/trails/205/changes/paperclip/205 <!-- entire-trail-link-end --> ## Thinking Path > - Paperclip is the open source app people use to manage AI agents for work. > - Agents receive selected company skills before each turn. > - Imported skills can need files from the whole source repository. > - The current path stores those files in Postgres and reads large JSON payloads during preparation. > - This pull request stores verified packages in the configured file or object store and keeps preparation queries small. > - It also converts old rows automatically and restores missing files from the exact saved commit. > - The result reduces database traffic while preserving skill versions and repository dependencies. ## Linked Issues or Issue Description **What existing behavior does this improve?** Company skill import, version storage, and preparation before agent turns. **Current behavior** Repository snapshot bodies live in JSONB. Skill preparation can read those bodies again even when the files already exist on disk. Historical packages and native assets also need a bounded cleanup path. **Proposed behavior** Store package archives and manifests through the existing storage service. Keep version identities, receipts, hashes, and recovery metadata in Postgres. Convert legacy rows after the stored package passes read-back verification. A missing package can use legacy bytes or its exact Git commit under current repository authorization. No separate data-migration command is required. **Reason and benefit** The warm path sends no repository bodies through SQL and reads no object bytes. Cleanup runs through the existing deadline coordinator. Current versions, active runs, explicit pins, and authored content retain their protection. **Breaking changes** The normal application schema upgrade is required. Single-version and skill-file responses keep their existing shape. Version lists, current-version summaries, and test-run version summaries now contain file names and kinds without file bodies. Diff and restore fetch selected versions through the existing single-version endpoint. Older server builds must not write after conversion unless they support the new package format. The storage override and rollback limits are documented in `doc/skill-package-storage.md`. **Additional context** Related work: #15731 preserves repository dependencies; #17923 changes version-cache scheduling; #18080 changes delivery to remote Codex homes. This change owns package persistence, acquisition, and expiry. It does not replace those delivery or scheduler changes. ## What Changed - Add company-scoped archive receipts, exact-commit recovery recipes, migration deadlines, and a durable object-deletion queue. - Add bounded archive upload, read-back verification, extraction, concurrent request coalescing, and verified local caches. - Convert old snapshots and versions automatically. Keep legacy bytes when verification fails. - Recover missing files through current source authorization and the original commit. Validate repository identity, file hashes, modes, and the aggregate hash. - Expire unused recoverable Git packages and native assets after 30 days. Preserve active pins and the durable copy of authored or unproven content. - Keep warm preparation queries metadata-only. Bound file digest caches and avoid repeated body hashing when file identities are unchanged. - Extend the existing storage contract with cancellation. Register package work with the existing coordinator. Optional conversion retries retain the original bytes and may wait for ingress without blocking sleep. - Add regression tests, operating guidance, a deep trace, benchmark receipts, and an optional maintenance command. ## Verification ### Final master integration and review repair — October 29, 2026 Current head: `a6065424249e763dfeac37161f1b52a9f25bd9b7`. Commit `f8bbdd3dbd` resolves the conflicts with master `76a796e964`; the final two commits repair the Apex deletion findings below. - Keep both package-maintenance and version-retention notifications in their write transactions. - Keep the shared run-pin predicate and master's controller-lease deadline metadata. Package expiry reads the updated protected-version result. - Preserve every master migration entry. Generate migration **0415 (`0415_zippy_zemo.sql`)** after master's 0414. Its skill SQL is byte-for-byte unchanged from the previously tested idempotent migration. Retain only the five newest schema snapshots. Migration numbering and safety checks pass. - Repair failed file/folder deletion: preserve a complete temporary subtree until transaction commit, restore on upload or SQL failure, and restore callback failures before releasing the mutation lock. Both PostgreSQL regressions reproduced missing files before the fix and now pass. They cover binary data, executable permissions, empty folders, unlisted files, unchanged database/version rows, successful retry after upload-claim expiry, and historical reads. - Reconcile lost commit replies under the same advisory and row locks. Check the saved version and source identity before restoring. Keep committed deletions intact and preserve backups when the database outcome is unknown or a newer edit exists. Four real-PostgreSQL outcome tests pass; the prior code failed three of them. - Full workspace typecheck and production build pass on the final commit. All **204** focused PostgreSQL package/cache/retention/authoring and filesystem-boundary tests pass, with none skipped. - Apex review **18 passes 5/5**, with zero new comments on the exact final head. All **34** review conversations are resolved. - [Final-head CI](https://github.com/paperclipai/paperclip/actions/runs/40914116508) completes successfully on attempt 2. The head has **55 successful checks**, two neutral reports, two skipped checks, and a successful Snyk status. No checks are pending or failing. All eight browser shards pass. - Runner Vitest 2/2 timed out once in the unchanged ACPX controller-replacement fixture. The same job passed on the preceding commit. One unchanged CI retry passes all five ACPX recovery cases, **2,253** Runner package cases and **126** native server integration cases; their standard one and five skips remain. The initial timeout's root cause is not established. Local diagnosis also hit the fixture's eight-second session.open timeout with an authenticated Runner; no local Runner pass is claimed. - Both full local `pnpm test:run` attempts were stopped when Apex identified deletion defects and source repair became necessary; neither is claimed as a passing full local run. The final **204** focused tests, full workspace typecheck, and production build pass. Full-suite acceptance uses the final-head CI jobs. The superseded merge-head CI included runners terminated by shutdown signals; each source repair started a new full run. - Auto-merge is enabled for squash merge. The final head is conflict-free and all checks pass. GitHub's active master ruleset still requires a code-owner approval for the dependency files. The existing review requests are with `devinfoley`, `nickyleach`, and `forgottendev`; no policy bypass was used. - The earlier hosted stress and full native receipts below remain tied to `a2e597d800`; they are not relabeled as a deployment of this final integration. The earlier local PostgreSQL startup failure remains recorded below; PostgreSQL ran successfully for this integration verification. ### Full native skill execution — October 29, 2026 The full native-agent acceptance gap is closed on candidate `a2e597d800eb989d565780e7aa947d5368676444`. Two qualifying native turns used OpenAI API / `gpt-5.4-mini` in real Daytona sandboxes, on the same disposable hosted TEST tenant as the stress test. A follow-up on the same task consumed a newly saved skill version. The task text asked for the assigned skill workflow. It did not contain the proof nonce or expected receipt. The assigned authored skill contained a Python verifier and a random package-local nonce. The agent read the actual installed skill files and executed that verifier against the imported, automatically converted 1,360-file repository package. It checked the repository file count and reference/binary bytes, and directly executed the repository's executable probe. Independent verification matched the emitted JSON to the nonce and expected byte hashes. The agent persisted the same receipt as its task response; native finalization committed, workspace finalization succeeded, and task state became Done. | Qualifying turn | End-to-end run time | Recorded skills.prepare | Repository files | Binary hex | Shell receipt SHA-256 | |---|---:|---:|---:|---|---| | Initial task | 47.881 s | 1822 ms | 1360 | `00ff07800a` | `a1deb30dc095f2306c7aa9cc5ec396da12c68961cf5b809f4d7c20f7fc68493b` | | Corrected follow-up, new nonce/version | 37.974 s | 377 ms | 1360 | `00ff07800a` | `dbcdc33fa1376b4edc136feae1cdf770560a73292467e93619efdda20e4282a7` | Both successful shell receipts reported `probe: STRESS18082` and `assetSha256: e8ea7a2f15f7bb3b332a46adbef848465884c8996595aa234748befd544d1f3a`. Their proof nonces, selected version IDs and receipt hashes differed, and both ran on the same task. These are observed timings, not latency SLOs; they include real provider work. The service stress-test timings remain a separate measurement boundary. Earlier failures remain in the evidence: - The original five-minute Daytona allocation timeout never reached model execution. After normal owned-stack restore, its durable cleanup record was `expired` / `success`. The cause of that original allocation timeout remains unknown; a later success establishes recovery only. - Initial continuation setup used unsupported generic agent-update fields and returned HTTP 409 before dispatch. Setup was corrected to use the supported skill-assignment and versioned instruction commands. - The intervening completed native turn read repository bytes and ran the probe, but omitted the verifier JSON under the older test agent's overly-specific instruction file. Its strict receipt validator failed; it is not counted as a qualifying turn. Correcting the test agent's instruction file and sending an explicit task-scoped wake produced the qualifying follow-up above. - The pinned application's immutable rate card omits `gpt-5.4-mini`, so completed usage triggered the normal block-on-unpriced budget policy. Supported append-only accounting corrections estimated the three completed runs using the [official OpenAI model rate card](https://developers.openai.com/api/docs/models/gpt-5.4-mini): $0.75 input, $0.075 cached input, $4.50 output per million tokens, assuming standard processing. Estimates totaled 12.482655 cents. Original usage and missing-price records are preserved; the $1 hard stop and unpriced-usage guard stayed active. - Model shell attempts included a missing `xxd` command and incorrect guessed file paths. Those failed calls and subsequent successful actual verifier calls remain visible in complete event streams. No zero-tool-error claim is made. No product source changed during this continuation. The previously measured contention, cold-start and memory limits remain. The later merge resolution is covered by the separate integration checks above; these hosted receipts qualify their recorded candidate. ### Hosted stress test — October 29, 2026 **Hosted acceptance:** full native-agent execution and a changed-skill follow-up pass on the recorded hosted candidate. The final integration section above records the subsequent conflict resolution and its separate checks. Tested baseline `929e840595c8933ca485ac7a2e99413e1e11ca64` and this exact candidate sequentially on one disposable TEST tenant, with external Neon PostgreSQL and actual S3. The fixture contained **1,360 files / 22.4 MB / ten skills sharing one repository**. Measurements cover deployed skill-preparation and native-context services in an adjacent diagnostic process, not a complete agent turn. The container had **24 vCPU / 24 GB**. | Warm workload | Median before → after | p95 before → after | DB returned value bytes/preparation before → after | |---|---:|---:|---:| | One skill, serial | 1,060 → 125 ms | 1,303 → 155 ms | 22,610,389 → 1,771 | | One skill, four concurrent | 4,415 → 297 ms | 5,143 → 328 ms | 22,610,389 → 1,771 | | Ten skills, serial | 5,723 → 535 ms | 6,057 → 600 ms | 224,739,030 → 10,671 | | Ten skills, four concurrent | 24,410 → 1,986 ms | 24,833 → 2,221 ms | 224,739,030 → 10,671 | - Candidate warm preparation performed **zero S3 GETs**. Ordinary-pool queries fell from 16 to 9 for one skill and 61 to 9 for ten, excluding dedicated lock connections. DB numbers measure returned values before Drizzle decoding, not wire bytes. Baseline/candidate sample counts were 30/100, 32/100, 5/50 and 8/48 respectively; the small baseline ten-skill samples are comparative evidence, not SLO estimates. - **Application-UID soak:** 800 ten-skill preparations over 10.3 minutes, four workers paced by 2.5 seconds; **zero failures**, median **559 ms**, p95 **775 ms**, p99 **910 ms**, zero warm S3 reads. All 726 accompanying health/company-list requests returned HTTP 200. Their end-to-end p95 was 569/502 ms, including network latency. The probe overlaps most of the soak. Soak DB-response capture was limited to its first 60 seconds. - **Important remaining costs:** an unpaced 16-way ten-skill burst had p95 **8.32 seconds** because company-level preparation serializes. Cold preparation took approximately **1.1–2.5 seconds** for one skill and **7.4–10.0 seconds** for ten. Ten-skill diagnostic RSS remained about **1.17 GiB** (baseline 1.18 GiB), and the soak peaked at **1.35 GiB**. A concurrent whole-container sample was 3.45 GB. This does not establish suitability for a small-memory host or eliminate per-entrypoint native asset duplication. - **Upgrade without a manual data migration passed:** legacy snapshot JSON shrank from 22,465,691 bytes to `[]`, with a stored package and zero pending conversions. - **Recovery passed:** sixteen concurrent cold requests coalesced into two S3 GETs; full bytes/binary/executable modes matched; same-size corruption repaired; an injected storage failure preserved warm access and failed cold access safely. A disabled public-Git source denied recovery, and after the actual five-minute backoff its exact SHA reconstructed all 229 files. Cross-company descriptor access was denied. Private-Git credential revocation was not tested. - **Retention passed:** reclaimed 27,754,496 allocated cache bytes, deleted an unreferenced package row and both objects, preserved aged authored history, and expired/reacquired reconstructible Git content. A version pinned by the failed native run was correctly retained. Only owned fixture timestamps were aged. - **Browser UI passed:** authored skill creation, saved edit surviving reload, version history, and restoration of earlier content. - **Initial native attempt (superseded by the qualifying turns above):** one real run failed at Daytona allocation after five minutes (`setup_failed`), before any model execution. Provider cleanup also reported failure. That attempt does not count as a passing native turn. Its receipt and all evidence remain preserved; its cleanup later recorded success after normal restoration. - Initial A/B commands ran as SSH root. Diagnostic-owned lock/cache permissions caused one setup HTTP 500 and the first UID-1000 soak to fail; exact fixture paths were repaired. The final soak, retention and recovery ran as application UID 1000. A fresh UID-1000 one-skill batch also passed (30 samples, median 116 ms, p95 321 ms, 1,771 DB value bytes/preparation). Earlier harness-export, SSH, npm provenance, backoff and UI-wait failures remain recorded alongside their successful retries. - Private evidence includes raw timings, assertions, HTTP probes, screenshots and failure/cleanup receipts. Initial failed-campaign cleanup suspended and retained the owned TEST tenant and released the shared QA account lease at **15:22:41 UTC**. The tenant was subsequently resumed under its existing ownership for the native execution qualification above. Final cleanup completed at **15:53:09 UTC**: the account lease is released and the tenant is suspended/retained under the original October 30, 12:24:52 UTC retention deadline. Its separate stack lease remains held; no active or pending-cleanup environment lease remained. The original retention window is deliberately preserved even after successful continuation. - Earlier hosted-tested head: `a2e597d800eb989d565780e7aa947d5368676444`, integrated with master `929e840595`. The earlier merge conflicts were resolved at this head. [Current-head CI](https://github.com/paperclipai/paperclip/actions/runs/40884087629) passed; all checks are complete with 55 successes, two neutral reports, two skips, and no failures. [Apex review 15](https://github.com/paperclipai/paperclip/pull/18082#issuecomment-6480257258) passed 5/5 with zero findings on this exact head. All review conversations are resolved. - Ten real-filesystem boundary cases and server typecheck pass locally for the security fix. Coverage includes cache roots, descendants, individual files, symlink aliases, recursive ancestors, a future concurrent cache fill, and allowed sibling directories. [Current-head private-project integration tests](https://github.com/paperclipai/paperclip/actions/runs/40884087629/job/123483306405) passed all 29 cases, including authorized and unauthorized imports of a cached private package. Full typecheck, build, server suites, all eight browser shards, and Runner checks passed in current-head CI. Local database tests could not run because PostgreSQL could not initialize; this limitation is recorded below. - The earlier generated migration preserved the newest five snapshots. The final integration renumbers its unchanged SQL to 0415. Migration safety/numbering checks pass. Its SQL is byte-for-byte identical to the previously verified idempotent skill migration; repeated application on this latest schema was blocked by the same local database startup failure. - The broader verification before the final migration-only rebase passed 1,025 package, lifecycle, remote-launch, native-session, and asset-retention tests, 52 focused UI tests, full workspace typecheck/build, token gates, and map checks. The linked complete CI run passed before the latest focused fixes. - A disposable MinIO instance passed multipart upload, verified read-back, and cold restoration of an 18 MB archive. - Twenty warm samples with a synthetic 1,349-file, 22.8 MB repository retained five metadata queries and zero object reads. Median preparation was 256 ms for one selected skill and 691 ms for ten, with 5 ms emulated network delay each way. These are local measurements, not production latency guarantees. - No production instance was changed. Earlier verification failures and their disposition are retained below. <details> <summary>Earlier failures, review findings, fixes, and rerun evidence</summary> - The first CI pass found a stale inventory-span expectation and a missing repository-read span. Both are fixed; all three observability tests pass. One browser test copied page text into its YAML parser after reload; its first unchanged-head retry passed, but the race recurred after rebasing. The test now waits for the renamed URL and completed reload before copying the editor, retaining its original assertions. The earlier full local suite did not complete cleanly: it reported setup timeouts and assertions, while isolated relevant reruns passed. The complete current-head CI run closes that broad verification gap. No production instance was changed. - The first Apex review scored 2/5 and identified six issues. The fixes protect authored history even when it shares an in-flight Git upload, recheck upload expiry during orphan deletion, bound failed-upload cleanup, retain per-version kind/encoding metadata, add sanitized failure diagnostics, and correct the migration guide. The final focused run passes all 140 tests; the preceding eight-file run passed all 149 tests, including local storage and S3 diagnostics. Server typecheck and migration safety/numbering checks pass after the fixes. The second Apex review scored 1/5 and found unbounded maintenance storage calls and mismatched package/Git batch limits. Those are fixed with a 30-second cancellable cleanup deadline, shared 100 MiB/10,000-file scanner and storage limits, and bounded Git read batches. The proposed manual lockfile edit was rejected with evidence of the enforced CI-owned lockfile policy. All 19 storage/recovery unit tests and server typechecking pass. The new database-backed cleanup/conversion tests were locally skipped because the host exhausted its PostgreSQL semaphore capacity (confirmed directly by initdb). That gap is closed by current-head CI: [package-store tests](https://github.com/paperclipai/paperclip/actions/runs/40771320775/job/123109300889) pass all 18 cases and [package-worker tests](https://github.com/paperclipai/paperclip/actions/runs/40771320775/job/123109301157) pass all 7, with no skips in either suite. The corrected YAML browser shard passes. A separate planning-fixture test failed its cleanup DELETE with an activity-log foreign key violation after its behavior assertions passed; its one unchanged-head retry passed. The third Apex review scored 1/5 and identified a one-slot pool deadlock, projected path limits, cleanup holding the preparation lock during archive reads, and a publication/expiry race. These are fixed with transaction-local reads, prefix-aware bounds, isolated verification, and shared package row locks with a publication grace. The separate Paperclip review also found stale historical inspection, eager history downloads, and conversion retries blocking sleep. Those are fixed. Local PostgreSQL capacity recovered: the new database regressions ran, including the one-slot fork, paused storage during a warm turn, and a locked publication during expiry. The expanded run passed 144/145 tests; its remaining assertion still expected file bodies from the version list and was updated to fetch the selected version. The corrected company-skill suite passes all 81 tests, and the final package/projection run passes all 27. All 52 focused UI tests pass after updating their query-provider fixtures; the first UI run exposed a fixture remount, and the follow-up exposed an editing syntax error, both corrected. Full workspace typecheck and build, token gates, and map checks pass. The sandbox initially blocked the build tool’s local IPC socket; the authorized build rerun passed. Master then claimed migration 0401. The branch is rebased on |
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DottaandPaperclip
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15176963b1 |
fix: stop idle skill-source polling (#17008)
## Thinking Path > - Paperclip manages agent work and the skills that agents use. > - Project repositories create durable import jobs, and installed sources can refresh automatically. > - The server queried these records every five seconds, even when no work existed. > - Idle tenant databases need to stop receiving those discovery queries. > - This change uses the existing transaction notifications and delivery coordinator. > - Saved refresh, retry, and lease deadlines determine when the worker runs next. > - Cloud does not yet wake these deadlines, so outstanding skill work retains the instance. ## Linked Issues or Issue Description **What existing behavior does this improve?** Skill-source background synchronization. This continues the idle-work migrations in #15625 and #17000. A search found no overlapping open polling-removal PR. **Current behavior** On master `b11010b0d4`, startup installs a five-second skill-source interval and also calls it from the external-object scheduler. Each sweep queries active companies, import capacity, pending imports, and automatic refreshes. **Proposed behavior** Run at startup, after a relevant transaction settles, or at a saved deadline. Stay SQL-quiet when no eligible work remains. Preserve import admission, authorization, atomic claims, retry backoff, and the existing five-minute upstream check. **Reason and benefit** Remove recurring database activity from inactive tenant instances without requiring new tables or a new scheduler. ## What Changed - Replace both recurring skill-sync calls with one delivery-coordinator registration. - Notify from attachment/detachment, source creation/settings/manual refresh/disconnection, project/company deletion, and company status changes, including budget resume. - Restore the earliest eligible `nextSyncAt` or lease-expiry deadline. Due backlogs and conflicts retry after five seconds; no idle recovery cadence remains. - Admit deferred imports again after a batch frees capacity. Preserve requests through drain, standby, restart, and commits during a sweep. - Add sleep-safety predicates for imports and eligible automatic sources until Cloud supports these deadlines. - Document the lifecycle and process-local writer contract. No schema or API changes. - Guard external test database URLs before migrations or cleanup: require a `_test` database name and reject database/options overrides. ## Verification - 147 targeted tests pass: 39 server-startup tests, 14 new real-PostgreSQL lifecycle tests, 20 shared coordinator/scheduler tests, 63 existing import/refresh/retry regression tests, and 11 test-database guard cases. - CI exposed a stale startup mock without the new `start` method. The fixture is updated and all 39 startup tests pass locally. - Tests exercise real enqueue/settings/company-reactivation producers, nested commit, rollback, saved retry/lease restart, manual refresh failure, capacity admission, concurrent commit, shutdown cancellation, and SQL quiet after startup or pause. - Sleep-safety tests reject sleep for future imports and automatic refreshes, and accept inactive retained state. - `pnpm -r typecheck` and `pnpm build` pass. - `pnpm test:run` was attempted and stopped after repeated embedded-PostgreSQL startup failures in unrelated suites. The two existing import/refresh suites initially skipped for the same host limitation; after adding explicit disposable-database options, all 63 regression tests passed against PostgreSQL 17. Full CI passed on `ddb3ee51369baa8c7153bae9fd88efb8b903f2bc`: 55 successful checks, one neutral review check, and two intentional skips. ## Risks - Notifications are process-local. Independent SQL writers and separate live replicas do not wake this worker; startup reconstructs persisted work. - Enabled automatic sources still contact GitHub every five minutes. Their upstream changes have no event ingress here. - Cloud scheduled wakes currently cover routines and issue monitors, not skill sync. This change retains instances with outstanding skill obligations. It does not claim measured host/database suspension or fleet savings. - No change to source authorization, installed content on failure, or existing claim semantics. ## Model Used OpenAI Codex, GPT-6 family, with reasoning, repository tools, and code execution. The host does not expose an exact model revision or context-window size to this session. ## Checklist - [x] I have included a thinking path that traces from project context to this change - [x] I have specified the model used (with version and capability details) - [x] I have checked ROADMAP.md and confirmed this PR does not duplicate planned core work - [x] I have searched GitHub for duplicate or related PRs and linked them above - [x] I have either (a) linked existing issues with `Fixes: #` / `Closes #` / `Refs #` OR (b) described the issue in-PR following the relevant issue template - [x] I have not referenced internal/instance-local Paperclip issues or links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip` URLs) - [x] My branch name describes the change (e.g. `docs/...`, `fix/...`) and contains no internal Paperclip ticket id or instance-derived details - [x] I have run tests locally and they pass - [x] I have added or updated tests where applicable - [x] I have updated relevant documentation to reflect my changes - [x] I have considered and documented any risks above - [x] All Paperclip CI gates are green - [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups - [x] I will address all Greptile and reviewer comments before requesting merge --------- Co-authored-by: Paperclip <noreply@paperclip.ing> |
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Nicky LeachandPaperclip
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5fbece9dcc |
Synchronize assigned skills through agent runtime hooks (#16501)
## Thinking Path > - Paperclip manages shared skills and agent assignments. > - Runtime plugins need installed skills before a task starts. > - Skill content can change without changing the agent row. > - Source access and version pins also affect delivered files. > - This pull request feeds those changes into the durable runtime stream. > - The runtime reader resolves the same immutable skill sources used for execution. ## Linked Issues or Issue Description Builds on merged PR #16499. This pull request now targets `master` and contains only the five skill synchronization commits. **Problem** Plugins receive no durable notification when an assigned skill changes. A saved assignment can also become inaccessible after private-source access changes. **Proposed solution** Invalidate referencing agents at installed skill mutations. Invalidate inherited access when source bindings, project privacy, or policy change. Return authorized skill sources and version IDs through the owning runtime reader. **Alternatives considered** Activity-only subscriptions miss service writers. Per-task synchronization adds preparation work. Copying current files would ignore version pins. **Roadmap alignment** This extends existing skills, source synchronization, and plugin runtime support. ## What Changed - Defer multi-skill source runtime hooks until commit, after publication holds all skill rows. Keep file-save journaling immediate to preserve filesystem rollback. - Add transactional invalidations for skill content, companion files, versions, rename, deletion, policy, source access, and pin-setting changes. - Recognize canonical keys and supported legacy aliases. - Reuse the execution skill resolver, current agent access, and instance version-pin rules. - Resolve and materialize sources outside the agent row lock. Recheck ownership and runtime revision afterward. - Keep task-only mentions and running-task snapshots in the execution path. - Document conservative invalidations for pinned assignments and inherited access. ## Verification - Rebased onto origin/master `9f4a956b90`, which contains merged PR #16499. All five commits are unchanged according to `git range-diff`; no conflict resolutions or source changes were needed. - On rebased head `58b065941`, all 237 focused tests passed: runtime skill hooks/source publication (41), plus content service, assignment routes, policy routes, and project source access (196). - Server typecheck passed after rebuilding Runner with the installed Rust toolchain. Migration numbering/safety and map checks passed; snapshot pruning made no changes. Migration CLI checks required local IPC permission. - Real PostgreSQL coverage includes concurrent source publication/version saves, policy-only tightening/restoration, referencing-agent fanout, company isolation, no-op counters, supporting files, rename/deletion, rollback, private-source access, pinned/latest bytes, and unassignment. - Earlier stack validation passed workspace typecheck/build. Fresh hosted CI and review must verify the rebased head before handoff. - The broad local suite was previously limited by an unchanged diagnostic test that rejects "private" in an error stack under this /private/tmp worktree; that unchanged suite passed all 108 tests in the original checkout. Hosted full-suite checks provide exact-head verification. - Diff whitespace and full PR secret/PII scan passed. - All hosted CI/security checks are green on `58b065941`; fresh standard Greptile and Apex both returned 5/5 with no findings or unresolved threads. The PR targets master and is mergeable without conflicts. ## Risks - Apply migration 0348 after the runtime-stream migration in #16499. - Content invalidations include pinned assignments. The resolved version stays pinned; consumers can avoid writes when its version/hash is unchanged. - Project access and source changes invalidate only agents assigned skills from the affected sources. Company policy still invalidates the company. Source polling bookkeeping and popularity counters do not create work. - The reader rebuilds installed caches without upstream requests. Concurrent changes cause a bounded retry and then a conflict. - Private transport integration and live remote computer qualification remain separate. ## Model Used OpenAI Codex, GPT-6, with reasoning, repository inspection, code execution, and testing. The exact deployment model ID and context window 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 references) - [x] My branch name describes the change and contains no internal Paperclip ticket id - [x] I have run tests locally and they pass (focused suites; broad local limitation documented above) - [x] I have added or updated tests where applicable - [x] I have updated relevant documentation to reflect my changes - [x] I have considered and documented any risks above - [x] All Paperclip CI gates are green - [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups - [x] I will address all Greptile and reviewer comments before requesting merge --------- Co-authored-by: Paperclip <noreply@paperclip.ing> |
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DottaandPaperclip
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4460785534 |
fix(skills): preserve referenced files in large repository imports (#16308)
## Thinking Path
> - Paperclip is the open source app people use to manage AI agents for
work.
> - Agents use skills imported from project repositories.
> - Large repositories fall back to isolated skill folders.
> - That fallback drops shared files and turns advisory links into
import failures.
> - This pull request retains bounded referenced files and keeps missing
references advisory.
> - Users can import valid skills such as test-audit without editing the
source repository.
## Linked Issues or Issue Description
Refs #16066. Refs #16256. Refs #16288. Related draft #15730 adds
optional reference selection to individual skill packages. This fix
applies automatic repository fallback and does not add that selection
UI.
**What happened?**
A project source showed 86 warnings. It rejected 23 skills solely
because references were absent from the isolated package. It also
treated web routes and inline Markdown examples as files. For
test-audit, repository scripts were resolved inside the skill folder.
**Expected behavior**
Retain referenced files that fit the package limits. Missing references
must not block an otherwise valid selected skill. Preserve content
validation and installed shared files.
**Steps to reproduce**
Import paperclipai/paperclip at commit
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DottaandPaperclip
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df4ee06e2f |
feat(skills): select and validate tracked GitHub branches (#16288)
## Thinking Path > - Paperclip is the open source app people use to manage AI agents for work. > - Skills can track a branch in an authorized GitHub repository. > - Sources previously offered only a default-branch repair action. > - People need to select a listed branch or enter a branch that GitHub has not listed. > - The server must validate the selected ref with the caller's authorized connection. > - This pull request connects the approved branch picker to production APIs. > - Installed skills remain usable while the source changes its tracked ref. ## Linked Issues or Issue Description **Subsystem affected** Skills UI, shared API contracts, GitHub source services, and agent API discovery. **Problem or motivation** The default-branch repair action does not let people choose another branch. The settings service also validates the old ref when a caller supplies a new ref other than HEAD. A missing tracked branch can prevent connection repair even when the selected account has repository access. **Proposed solution** Load a bounded branch list with the authorized connection. Mark the default branch. Search listed branches or accept a typed ref. Validate the selected ref before saving. Keep the chosen value after a load error, invalid ref, or concurrent update. Save the selected connection and branch together during connection repair. **Alternatives considered** A default-branch button does not support a named branch. A text field alone does not help people find the repository default or available branches. **Roadmap alignment** This improves the existing Skills source manager. It does not add a new skill import system. **Additional context** Refs #16066 and #16256. This is the production implementation of the approved branch-selection Storybook journeys. ## What Changed - Add an authorized branch-list endpoint and shared response/query types. Register it in agent API discovery. - Validate the requested ref, including the returned commit SHA. Preserve source leases, revision checks, project ownership, skill identities, selections, and installed versions. - Add the searchable branch picker to Sources and connection repair. Allow typed refs during branch discovery and after discovery fails. - Keep save errors in the dialog. Retain the selected branch through a concurrent source update. - Use the production components and API client in Storybook. Add keyboard, touch, loading, retry, invalid-ref, connection-repair, and concurrent-update browser journeys. - Update product documentation and the feature/access maps. ## Verification - Red/green: two new database regressions fail against the previous service and pass against the implementation. - Linux database/service suite: 85 tests passed. This includes source visibility, human/agent authorization, selected connections, immutable versions, and invalid refs. - Rebased branch and review fixes: 94 focused UI, route, branch-validation, and fixture tests passed. Two conflict-message regressions and the stale-retry fixture regression fail before the fix and pass after it. - Storybook build passed. All 26 focused browser journeys passed. - Repository typecheck and build passed. Final UI typecheck passed after the review fixes. - The full local Vitest run was interrupted when the checkout and its dependencies disappeared. It reported missing working-directory/Postgres files and worker startup errors. Its two timed-out tests pass after the checkout was restored. The complete CI suite passed on the final head, `cf5d4c8f0a`: [CI run](https://github.com/paperclipai/paperclip/actions/runs/38571068332). One unchanged workspace timestamp test required a single rerun. Its release-minus-one-millisecond value can equal the original confirmation time. The rerun passed. - Live acceptance passed on implementation head `5dd935bf14` in an isolated macOS arm64 instance with Node 24.21.0 and an authorized private GitHub repository. The UI loaded the actual default branch, saved branch and selected connection together, and preserved the installed skill/version IDs after reload. An invalid typed ref retained the draft and showed the provider error. A valid typed HEAD ref then saved successfully. The owned runtime and database were stopped after the test. Focused unit, Linux database, and browser suites passed again after the error-handling review fixes. - Greptile reviewed final head `cf5d4c8f0a` at 5/5. Both review threads are resolved; the fresh review has no remaining findings. - Token gates and map/catalog checks passed. - Review entry points: `Skills / Project repository skills / 03 Branch selection components` and `04 Branch selection journeys`. Run `pnpm storybook` to inspect them. - Browser command: `pnpm exec playwright test --config tests/storybook-visual/playwright.config.ts tests/storybook-visual/skill-source-branch-selection.spec.ts tests/storybook-visual/project-repository-skills.spec.ts`. - Manual check: open an independent GitHub source, choose a new branch, select the default or type a ref, save, and reload. Try an invalid ref and confirm the selection remains in the dialog. For a project-bound source, change its ref in project settings. ## Risks - GitHub discovery is bounded to 100 listed branches. The default branch is always included. Typed refs remain available. - A source can change while the dialog is open. The API rejects a stale revision and the UI keeps the draft for retry. - A ref change schedules the existing refresh pipeline. Installed versions remain available until a successful refresh imports new content. - No database migration or credential storage change is required. Existing HEAD requests remain supported. ## Model Used OpenAI Codex, GPT-6 family. The serving model's exact identifier and context-window size are not exposed in this session. Used reasoning, repository tools, code execution, and browser tools. ## 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> |
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DottaandPaperclip
|
c36281d639 |
fix(skills): repair missing branches and show grouped import progress (#16256)
## Thinking Path > - Paperclip lets people manage AI agents and their reusable skills. > - GitHub skill sources must keep their installed content usable during updates. > - A source can track a branch that no longer exists. > - The UI treats that GitHub error as a connection problem, so saving a valid account does not resolve it. > - Project workspaces also show the same repository several times, and long imports give little feedback. > - This pull request adds explicit branch repair, groups repository imports, and shows import progress. > - People can repair the actual problem and see when their import is working. ## Linked Issues or Issue Description Refs #16066 and #14713. This fixes the Sources experience introduced by those changes. Related adapter-source PRs #14340 and #14341 cover runtime mounting, not this source-management flow. No overlapping source-management fix was found. **What happened?** An installed source tracked `main` while its GitHub repository used `master`. GitHub returned HTTP 422. The UI showed a general read error and asked for a new connection after a valid account was saved. The project repository list repeated the same repository/ref for each project. Import had no spinner or explanation of queued work. **Expected behavior** Identify an unavailable branch and offer an explicit repair. Retain the selected connection and installed versions. Show one repository/ref row with its projects. Give immediate feedback and show the queued and active import states. **Steps to reproduce** 1. Install a source with an immutable commit and a saved tracked branch that does not exist. 2. Refresh it, or try to save a valid GitHub connection. 3. Add the same repository/ref to two legacy project workspaces and open Sources. 4. Import that repository and observe the row until installation completes. ## What Changed - Distinguish a missing GitHub revision from access denial and temporary read errors. - Validate both repository identity and the tracked revision when saving a connection. - Offer Use default branch on independent sources and in connection repair. Keep `HEAD` as the default-branch alias after refresh. Preserve skill IDs, versions and selections. - Keep active project refs under project configuration. Reject source-level changes that would alter their tracking. Recheck the ref under the source lock when project attachment races with branch repair. - Group matching repository/ref workspaces. Adopt eligible workspaces and skip pending workspaces. Keep remaining project links inside the existing source card. Allow remaining imports while another workspace is pending. - Show a spinner, busy state and queued/importing text. Keep the saved authorized account selected in connection repair. - Update shared contracts, feature/access maps, database notes and production-component Storybook journeys. ## Verification - Red/green: three local regressions failed on the original code: missing-ref classification, duplicate repository rows, and branch repair instead of another connection prompt. The changed UI/reader tests pass after the fixes. - Live local app with a real authorized GitHub credential: reproduced HTTP 422 for the unavailable branch; used the UI to restore default-branch tracking; confirmed the same connection, skill ID and single immutable version remained. - Live local grouped Paperclip import: one source, two project associations and 52 installed skills. Sources survived reload. No staging data was changed. - All 16 project repository Storybook browser journeys pass on the final head, including keyboard focus recovery after branch repair. These include branch repair, grouped imports, connection selection, recovery, removal and responsive layouts. - Repository typecheck, production build, Storybook build, token gates and 28 map/catalog tests passed. Final UI typecheck and build also passed after grouping remaining project links. - Linux qualification: all 94 focused source, project import, GitHub reader and UI tests pass with supported Node 24. No database tests were skipped. Both review findings failed before their fixes and pass after them. - The full local `pnpm test:run` attempt was stopped after macOS database suites exhausted the host shared-memory limit. The complete Linux CI matrix is the full-suite gate. The complete Linux CI matrix passes for head `f886e3ac073ec1c6f051fd6429496234f5143694`. - Greptile rates head `f886e3ac073ec1c6f051fd6429496234f5143694` 5/5. Both findings are fixed and all review threads are resolved. - Storybook: `skills-project-repository-skills-02-journeys--missing-branch` and `--duplicate-projects`. ## Risks - Default-branch repair changes the tracked branch only after an explicit user action. Existing execution version pins stay intact. - A selected connection now needs access to the tracked revision, not only repository metadata. - Grouping is by repository and ref. Project access and provenance remain separate and are checked by the existing services. - Legacy source errors contain safe text. The repair-action classifier maps known errors and treats other failures as retryable. No credentials or provider response bodies are returned. - No schema migration, workflow change, lockfile change or staging deployment. ## Model Used OpenAI Codex, GPT-6 family. The exact serving model identifier and context-window size are not exposed in this session. Tool-assisted implementation, code execution and browser verification. ## Checklist - [x] I have included a thinking path that traces from project context to this change - [x] I have specified the model used (with version and capability details) - [x] I have checked ROADMAP.md and confirmed this PR does not duplicate planned core work - [x] I have searched GitHub for duplicate or related PRs and linked them above - [x] I have either (a) linked existing issues with `Fixes: #` / `Closes #` / `Refs #` OR (b) described the issue in-PR following the relevant issue template - [x] I have not referenced internal/instance-local Paperclip issues or links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip` URLs) - [x] My branch name describes the change (e.g. `docs/...`, `fix/...`) and contains no internal Paperclip ticket id or instance-derived details - [x] I have run tests locally and they pass - [x] I have added or updated tests where applicable - [x] I have updated relevant documentation to reflect my changes - [x] I have considered and documented any risks above - [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> |
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DottaandPaperclip
|
473c80d13f |
Automatically import and update project repository skills (#16066)
Automatically import skills from new GitHub project repositories and update enabled sources in the background. Preserve project-derived access, saved selections, immutable execution versions and explicit pins; add legacy adoption, refresh and connection repair in Sources. Include durable scheduling and bounded work credits, production Storybook journeys, real GitHub-to-routine acceptance receipts and final-head CI/security/Greptile qualification. Co-Authored-By: Paperclip <noreply@paperclip.ing> |
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DottaandPaperclip
|
2ad36f4ff2 |
Fix skill source removal with a keep-or-delete choice (#16150)
## Thinking Path
> - Paperclip is the open source app people use to manage AI agents for
work.
> - GitHub sources import skills and keep their updates together.
> - Disconnect only disabled a source and kept its read-only imports.
> - A disabled source could not be removed or imported again.
> - Removing a source needs an explicit decision about its imported
skills.
> - This pull request removes the source after the user keeps editable
copies or deletes the imports.
> - Existing disabled sources use the same removal flow.
## Linked Issues or Issue Description
Refs #15731, #14713.
**What happened?**
Disconnect left the repository on Sources. Its Disconnect action was
then disabled. The saved repository still blocked a new import.
**Expected behavior**
Remove the repository from Sources. Require a choice to keep editable
copies or delete its imports. Allow removal of sources that are already
disconnected.
**Steps to reproduce**
1. Import a repository in Skills → Sources.
2. Choose Disconnect source.
3. Observe the disconnected row and disabled removal action.
4. Try to import the repository again.
**Paperclip version or commit**
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Dotta
|
a9830414c7 |
Preserve repository dependencies when importing GitHub skills (#15731)
## Thinking Path > - Paperclip is the open source app people use to manage AI agents for work. > - Its Skills library imports reusable instructions from GitHub. > - Some skills depend on shared files and sibling skills outside their folders. > - Directory-only imports lose those dependencies. > - This pull request keeps repository files together and lets users select which skills appear in the library. > - Agents receive the original files and paths through the existing skill delivery system. ## Linked Issues or Issue Description Refs #14713. Related: #13656. **Current behavior** GitHub imports copy independent skill directories. Shared scripts, policies, helper skills, and credit files can be omitted. One shared-file error can block every skill. **Proposed behavior** New imports keep repository files together at the scanned commit. Show all skills with their folders and select every skill by default. Collapse individual package files. Omit unsupported or oversized files with a warning. Import available content without repair choices or an extra confirmation. Keep warnings on the saved source. **Reason and benefit** Skills can read their shared repository files after Paperclip delivers them to an agent. Original instructions stay unchanged. Users can inspect included files and understand omissions before and after import. ## What Changed - Store immutable company-scoped repository snapshots and associate them with skill versions. Regenerate the migration after merging master. - Preserve original bytes, binary encoding, and executable modes. Shared-file changes version each usable selected skill. Pinned versions retain their original files. - Deliver a discovery wrapper with the original tree under `.paperclip-repository/`. Preserve invocation policy when present. Fork and create-from-existing retain repository files. - Keep repository files together for new UI imports. Show every skill, select all by default, and collapse package files. Remove the packaging-mode menu. Keep the mobile import footer visible. - Warn about symlinks, submodules, oversized files, missing references, and invalid optional manifests. A malformed skill remains selected with a Needs setup warning. Usable skills still publish, and its original file remains repository support content. Source warnings persist through refresh. Unsafe execution and secret-disclosure findings omit the affected files before snapshot publication. - Expose saved repository files in the installed skill viewer, including binary encoding and executable flags. Reads use the immutable company-scoped snapshot; relative instruction links resolve from their original repository directory. - Audit delivered inventories and derive trust from all repository files. Accept evaluation prose while retaining dynamic-execution findings. Read blobs in one bounded Git batch and check budgets before reading support files. Imports never execute setup commands. - Add scanner, database, delivery, UI, and browser regressions. Update Storybooks, screenshots, and documentation. ## Verification - 69 focused scanner, Git snapshot, delivery, and PostgreSQL lifecycle tests passed. They cover partial imports, warning persistence, missing references, binary files, executable modes, copies, pinned versions, cancellation, company isolation, and batched Git reads. - 110 import, skill-detail, selection-tree, saved-file link, and Markdown renderer tests passed. A file-switch regression failed before the resolver fix and passed afterward. Browser walkthroughs cover the all-selected open tree, repository preview, non-blocking warnings, missing references, setup problems, warning persistence, and mobile layout. - Full workspace typecheck and build passed. Runner E2E TypeScript checks and design-token gates passed. The full serial local suite was attempted and stopped after over an hour. The existing 40,000-file Git streaming stress test failed after 303 seconds on macOS; the broad local suite is not counted as passed. All 55 applicable PR checks passed on the final commit, including the full sharded CI suite. Two optional Storybook workflows were skipped; the five local Storybook walkthroughs passed. - On October 12, live campaigns imported the private Poteto repository through the production GitHub Sources UI, selected architect and bro, and invoked them with native Codex on local and Daytona. The source connection was disabled before invocation. Independent filesystem inspections matched every supported Git blob, size, and executable mode. Both tasks completed and cleanup passed. Campaigns: `local-2026-10-12T15-07-39-504Z` (both environments), `local-2026-10-12T16-08-39-682Z` (local), and `local-2026-10-12T16-03-33-938Z` (Daytona). Each of the two selected skills received all 234 supported repository files. Later changes only affect the installed-file viewer and documentation. This qualifies skill delivery and instruction reads, not every Poteto workflow or adapter. - A manual source-checkout test drive imported a synthetic private GitHub repository with a symlink, an oversized file, a missing reference, and malformed skill metadata. Available skills published with their shared checklist. The walkthrough found duplicate warning text after import; the final UI fix removes that duplicate. The file viewer exposes saved repository dependencies and resolves authored relative links without changing the instructions. A follow-up live refresh omitted unsafe helper files with warnings, preserved every safe file byte, and survived a server restart. Screenshots below use the production UI with Storybook fixtures. They do not replace the live GitHub and runtime checks. <details> <summary>All skills visible and selected by default</summary>  </details> <details> <summary>Import stays available with warnings</summary>  </details> <details> <summary>Repository file inspector</summary>  </details> <details> <summary>Mobile import</summary>  </details> ## Risks - Each selected skill carries a repository copy in the runtime. The database stores each snapshot once. Runtime transfer and storage increase with the number of assigned skills. - Runtime budgets remain: 9,990 repository entries, 1 MiB per file, and 61 MiB total. File omissions are recorded as warnings. Source-access or download failures retain installed versions. - Import success does not prove that every skill can run. Environment dependencies, credentials, delegation tools, and schedules still need configuration. Imported setup scripts are not executed. - Live runtime coverage is native Codex on local and Daytona. Other adapters use the shared delivery path but were not exercised in these campaigns. The roadmap marks Skills Manager as shipped. This extends the existing importer. Related pull requests were checked. ## Model Used OpenAI Codex, based on GPT-6, with repository inspection, code execution, automated tests, and browser tools. The exact deployment identifier 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 - [ ] 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 |
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DottaandPaperclip
|
d432dc7fa3 |
Add GitHub-synced skill sources (#14713)
## Thinking Path > - Paperclip is the open source app people use to manage AI agents for work. > - Company skills supply instructions and files to those agents. > - GitHub imports already exist, but users cannot manage repositories as skill sources. > - Repository refresh also needs caller-authorized access and complete local packages. > - This pull request adds Sources inside Skills and reuses GitHub connections from Apps. > - Installed snapshots let agents use skills without fetching GitHub during a run. > - Manual refresh preserves skill identity and leaves failed imports on their last good version. ## Linked Issues or Issue Description **Subsystem affected** Cross-cutting: skills UI, server, database, shared contracts, and runtime materialization. **Problem or motivation** Users keep skills in GitHub repositories. They need a clear way to select, import, and refresh those skills. Existing imports do not expose repository management or consistently preserve supporting files. **Proposed solution** Add company-scoped skill sources. Browse repositories from all accessible GitHub connections, or paste a public repository or branch URL. Select whole skill packages, inspect included files and reference warnings, and install complete, immutable snapshots. Refresh each source manually. **Alternatives considered** Project repository settings hide the workflow from Skills. A second GitHub connector would duplicate credentials and grants. Upstream editing and PR creation are separate work. **Roadmap alignment** This implements the Skills Manager direction in ROADMAP.md. The maintainer requested this scope and reviewed the component and full-app journey stories before implementation. Related reports: Refs #10285, Refs #10949, Refs #13464. Related work: #14356, #13656, #9268. ## What Changed - Add source and entry records, an idempotent migration, company-scoped APIs, and legacy GitHub import adoption. - Reuse current caller grants and credential refresh. Combine and deduplicate repository inventories across accessible connections. Pasted public URLs also prefer the active user’s authorized connections. Tokens stay in the Git child environment, never argv or disk. - Fetch a shallow Git snapshot at one immutable commit. Scan the full local tree, including hidden and nested folders. Read Git objects without checkout or archive transformations and enforce nested package boundaries. - Bound Git downloads to 128 MiB and three minutes. Cancel active process groups and remove incomplete downloads. Preserve cancellation and deadlines while progress drains; close stalled HTTP progress streams after 30 seconds. Reuse caller-scoped temporary snapshots for preview/import after reauthorization. - Index repository package boundaries once and cap expanded work at 1,000 packages, 10,000 files, and 100 MiB, including repeated copies of shared blobs. Bound path depth and the shared path index. Discovery keeps audited manifests without retaining all package bodies. - Resolve moving branches before fetching so unchanged discovery reuses caller-scoped snapshots. Limit active scans, scan frequency, and new downloads per caller and company; quotas apply before metadata reads and across connections, and cached scans do not consume the download quota. - Store complete versions with script content, binary bytes, and executable modes. Preserve these through copies, runtime caches, and runner packaging. - Stage downloads before publication. Use source leases, revision checks, and transactional activity records. Keep installed versions after failures, upstream deletion, deselection, and disconnect. - Add the approved import flow, Sources page, selection tree, provenance, read-only Studio behavior, and saved return from GitHub setup. - Add package manifests, commit-pinned file previews, and separate runtime requirements and reference warnings. Supporting files are included together; nested skills remain independently selectable. Preview requests reauthorize the caller and re-audit package content. - Show installed skills as compact links beneath each source. Repository titles open GitHub. Keep Refresh, Select skills, and Disconnect source in a three-dot menu. Source rows omit the branch, imported count, and refresh timestamp; action alignment and repository titles work at narrow widths. - Stream discovery metadata over an opt-in NDJSON response. Show measured Git download progress and real package/file counts, animate newly checked skills, support cancellation, and require a complete scan before selection. Keep the existing JSON API. - Retain component stories and add a separate full-app journey story group. Include fixed progress states and interactive scan, large-repository, interruption, and saving stories. - Update Skills documentation and product contracts. Suppress private GitHub skill references in telemetry. Privacy review requested for the telemetry changes. ## Verification - Local repository typecheck, full build, token gates, and Storybook build passed during this work. Focused transport, authorization, scanner, persistence, route, and UI tests pass. The final UI refinement passes all eight focused UI tests, UI typecheck/build, and token gates. The scanner resource and repeated-discovery fixes pass 132 focused scanner, transport, authorization, source-service, route, and rate-limit tests, plus server typecheck/build. Full-suite verification comes from CI; the older full local Vitest run was stopped after unrelated chat failures and a font-test failure, all of which passed in fresh focused runs. At commit `1098d5996`, all 54 active checks pass; two optional Storybook jobs are skipped. CI covers repository typecheck, build, the full test suites, browser shards, and the canary dry run. Greptile is 5/5 with no open findings; the security scan also passes. - Adversarial scanner tests verify repeated-blob byte accounting with and without declared sizes, package/file/path caps, one-time repository indexing, metadata-only discovery audits, and nested package boundaries. Additional tests cover branch movement, snapshot reuse, caller/company quotas, isolation across connections, active-lease cleanup, quota recovery, and rejection before any metadata API call. - Real Git tests verify hidden paths, exact binary bytes, executable modes, export-ignore preservation, symlink/submodule reporting, pinned commits, caller-scoped cache reuse, cancellation, cleanup, and credential isolation. Regression tests hold both download slots with permanently blocked progress callbacks, verify timeout/cancellation cleanup and retry, and exercise HTTP backpressure cancellation. Access tests cover automatic public-URL connection selection and revoked grants. Database tests verify company and grant audiences. - Live isolated browser test: the public `anthropics/skills` scan now completes and discovers all 20 skills without connecting an account. Imported canvas-design with all 83 files, opened it from Sources, and verified the installed binary-font preview/download control. Package previews also expose the complete file inventory before import. Cancelled an active Git download and retried successfully to all 20 discovered skills; the browser displayed measured download progress. The current audits reject four other packages; eligible selections remain importable. - Browser checks verify the simplified source rows at desktop and narrow widths, keyboard navigation into the actions menu, Refresh from the menu, selection, and fixture disconnect with installed skills retained. Storybook includes a menu-open checkpoint and a 320px layout. - Storybook includes receiving/preparing download checkpoints and a timed full-app import journey, plus cancellation, retry, large-repository, and saving states. Streaming tests cover split UTF-8 frames, incomplete streams, late responses, cross-company requests, HTTP errors, and JSON compatibility. - Earlier live acceptance on this PR imported `stitch-skill` with `DESIGN.md`, assigned it to an agent, disconnected its source, and ran a successful Studio test that read both installed files. An editable copy changed independently. Both Skills variants, mobile selection, and return from GitHub setup were exercised. - Private access, revoked credentials, OAuth success return, binary/script preservation, concurrent refresh, transaction rollback, version pins, and legacy adoption have automated coverage. A real private-repository OAuth grant was not created during this test. ## Risks - The migration groups recognizable legacy imports without provider calls. Their first successful refresh completes the local package snapshot. - Reference checks are advisory. They cover Markdown links and explicit relative resource paths, not arbitrary runtime dependency graphs. Preview text is capped at 64 KiB; imported bytes remain complete. - Git must be installed on the server. Shallow fetches still download the branch snapshot, including files outside selected packages. Downloads have size/time/concurrency limits. Temporary caches are bounded and caller-scoped. GitHub API quota still applies to repository metadata and the connection picker; content no longer uses per-file API requests. Failed scans retain installed content. - Sources depend on the current caller's GitHub access. A saved connection does not grant access to another person's token. - GitHub script support and immediate manual refresh are explicit maintainer-approved requirements. The operator trusts the selected repository and accepts upstream script and executable-mode changes on refresh. Static audits are not a sandbox or a guarantee of safe code; agents may later invoke installed helpers under their runtime permissions. Import and refresh do not execute scripts, hooks, package installation, or builds. Raw URL and skills.sh imports keep their prior script restrictions. - Source originals remain read-only. Refresh affects subsequent unpinned runs; explicit pins and active runs retain their versions. - The telemetry change removes source-managed GitHub identifiers from skill-reference events. It introduces no event or field. Please review the privacy boundary. ## Model Used OpenAI Codex, based on GPT-6, with reasoning, code execution, and browser tools. The exact serving model ID and context-window size are not exposed in this session. ## Checklist - [x] I have included a thinking path that traces from project context to this change - [x] I have specified the model used (with version and capability details) - [x] I have checked ROADMAP.md and confirmed this PR does not duplicate planned core work - [x] I have searched GitHub for duplicate or related PRs and linked them above - [x] I have either (a) linked existing issues with `Fixes: #` / `Closes #` / `Refs #` OR (b) described the issue in-PR following the relevant issue template - [x] I have not referenced internal/instance-local Paperclip issues or links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip` URLs) - [x] My branch name describes the change (e.g. `docs/...`, `fix/...`) and contains no internal Paperclip ticket id or instance-derived details - [x] I have run tests locally and they pass - [x] I have added or updated tests where applicable - [x] I have updated relevant documentation to reflect my changes - [x] I have considered and documented any risks above - [x] All Paperclip CI gates are green - [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups - [x] I will address all Greptile and reviewer comments before requesting merge --------- Co-authored-by: Paperclip <noreply@paperclip.ing> |
