Lab #3313: extension pull: answering y to a dependency's overwrite prompt silently skips that dependency

When the overwrite conflict is raised by a dependency rather than by the extension being pulled, confirming the prompt installs the parent but skips the dependency. Nothing reports it.

Cause: pullExtension (src/cli/commands/extension_pull.ts) catches the ConflictError and, before the forced retry, removes only the top-level ref name from alreadyPulled. The dependency's name was added to alreadyPulled during the first attempt, so on the retry installLocked returns undefined for it.

Reproduced in-process (found while working on swamp-club#2877):

Parent @t/p depends on @t/d. @t/d's files exist under .swamp/pulled-extensions/@t/d/ with no lockfile entry.
installExtension(parent, force false) throws ConflictError naming .swamp/pulled-extensions/@t/d/models/d.ts.
As the CLI does: alreadyPulled.delete(parent), then retry with force true.
Result: the parent's lockfile entry is written; dependencyResults is empty; @t/d has no lockfile entry; its local file is unchanged.

Expected: the forced retry installs the dependency too, or the pull reports that the dependency was not installed.

Extension scoring audits v2 archives exact-only and charges unaudited code, in the package and the CLI alike

extension fmt (and any command) creates or rewrites deno.lock when the extension lives in the repo's loaded extensions/ dir

extension quality: a collective-attested private repository scores provisional, and --json omits ifProvisionalEarned

Extension push ships the canonical form: every npm:/jsr: import pinned exact, and a v2 dependency-audit.json

judgeRunRecord lets a forged record settle a waiting approval gate to skipped without an approve

Extension dependencies: the shared import scan reads Babel syntax, not tokens (follow-up to #3969)

swamp-extensions: use explicit npm:/jsr: specifiers in root extensions/models

bundleExtension same-cache test can pass with a broken first-bundle gate under CPU load

bundleExtension 'bundles on different caches do not wait for each other' test fails under CPU load

extension pull: safety analysis scans the bundle the extension runs

Extension scoring queue: two replicas can claim the same pending event

Registry: bump @swamp-club/extension-scoring to the version carrying #3983 (and #3845) before the v5 rescore

Five Mongo queues can hand the same row to two replicas

Registry rescore: secret-safe-docs passes a secret README line on versions whose stored metadata predates the sensitive flag (follow-up to #3783)

Score extensions with @swamp-club/extension-scoring (rubric v5) instead of the registry's own copy

Move the Zod argument-field extractor into @swamp-club/extension-scoring so the CLI and registry read schemas alike

Extension dependencies: one resolver for push, quality and fmt (no behaviour change)

Docs: extension quality scores with the registry formula and reports grade (swamp-club#3845)

Rescore every extension's current version under rubric v5

extension push: a swamp-quality-ignore directive after a comment holding an apostrophe is silently ignored

Share the extension quality rubric between the swamp CLI and swamp-club instead of mirroring it

Manual: the supported extension dependency categories, the canonical form and the lock rule, rewritten once against the final design

Registry audits v2 extension archives as written, and a range costs the loose point only without a valid lock

Extension consumers keep the publisher's bundle: pull, update and auto-resolve stop rebuilding (direction A for #3634)

Extension push: inputs that open up (workspace root lock, ancestor config refused by name, JSR dist-tags) and the skill docs rewritten once

stagecraft studio: show a factory's open tickets that have no work item yet on the Board

stagecraft studio ticket columns: round-5 review lows from #3828 (source watch cost, relationText lookup, cross-instance claim)

A long-lived serve client for extensions, and a stable rate_limited error code

Docs: dependency trust across push, quality, fmt and the registry — Deno-config resolution, read-only lock, package.json mode, the archive's audit record (merges #3728)

extension push (package.json mode): two installed copies under one declared range are audited once, so the second shipped version goes unaudited

cve/emudhra page: Windows and macOS support, and shared CVE layer fixes (follow-up to #3710 and #3766)

@swamp/cve/php-rce-2026-10: match RHEL fixes for the PHP RCEs

@swamp/cve/dirtyfrag: report and README print the old swamp model command spelling

package.json mode: no loose-specifier warning for a range push ships as the exact installed version

method run masks a sensitive array from --input element by element, exposing its shape (regression from #3752)

Registry scorecard: score secret-safe-docs (rubric v4) and keep sensitive on extracted arguments

Registry dependency audit: audit the locked version push records in the archive, not the registry's newest match for a range specifier (swamp-club half of #3662)

stagecraft: rename work mode `method` to `behavior`, matching swamp's rename of models to behaviors

extension push: record each dependency's audited (locked) version in the archive, so the registry audits what ships (swamp half; registry half #3778)

main fails type check: query_view_test.ts passes a namespace string where expressionQueryView now takes a NamespaceReader (semantic conflict between #3790 and #3785)

forEachNameWithoutSecrets property test fails intermittently: an empty-string secret and an overlapping recorded value give different names

extension push finds no local modules when a folder above the repo is named node_modules

extension push (package.json mode): audit dependencies resolved through package.json, and leave the author's node_modules/ unchanged (merges #3632)

Local verification docs still tell agents to put ANTHROPIC_API_KEY in verify.env for reviews

@swamp/cve/php-rce-2026-10 follow-ups: dry-run heading, command spelling, Debian 12 fix, podman image scan

extension push resolves the Deno config and import map the way Deno does: deno.jsonc, importMap file references and scopes

extension fmt --check writes deno.lock in deno.json mode, which push and quality then bundle against with --frozen

@swamp/cve/dirtyfrag: scan logs are never saved (file writer handle dropped, data name collides with the status resource)

audit_deps.ts skips cve/ extensions, so their deno.lock files are never dependency-audited

@swamp/cve/dirtyfrag README shows --input targetHost/sshUser/sshKey/dockerContainer, which the CLI rejects

@swamp/cve/dirtyfrag mitigate uses interactive sudo, so it can hang on a password prompt or fail mid-run

extension quality names the wrong cause: a bundle failure prints no reason, the not-audited row always blames an outage, and symbols-docs blames JSDoc when deno doc failed

Docs: extension fmt never writes deno.lock and warns on a stale one (swamp-club#3717)

Docs: extension dependency trust pages — import-map auditing, bare-import rewrite and scoring, and the clarified warning/error plan

Registry scorecard: a loose specifier costs one of the two dependency-trust points and a yanked one costs both, matching the CLI (#3354)

Server-driven warning and info messages to CLI users, targeted by swamp version (exploration)

workflow cancel --server ignores --ca-cert and SWAMP_CA_CERT

Dependency trust scoring (CLI): yanked and loose specifiers cost one of the two dependency-trust points (no new push errors)

extension quality crashes with deno doc --json failed when a package.json-mode archive ships a bare import

Docs: extension publishing reference quotes stale bare-specifiers and quality messages

extension push: the yanked-dependency warning names a version to move to, and dependency warnings appear in the Unresolved warnings summary

Scorecard: copy the updated jsr-yanked wording from dependency_audit_vectors.json

Docs: extension publishing reference should describe the yanked-version suggestion and dependency findings in Unresolved warnings

eval-skill-triggers ignores evals/promptfoo/package-lock.json, so promptfoo's transitive deps are not locked

codegen: AWS models emit CloudFormation patterns JavaScript cannot compile, so @swamp/aws/chime, glue and transfer fail to import

v3 outbox killed-writer test times out waiting for the kill point under CPU load

On Windows, v3 outbox tests time out on a writer lock held by a dead fake pid

extension push: rewrite bare imports in the shipped source to their import-map specifiers

Flaky: probeStartServer 'a closed port is dead' gets unknown under the parallel test run

workflow run --detach integration test fails under load: the run finishes before the test attaches

extension push: a deno.json scopes entry can make push ship and audit a different version than the extension resolves

Skill trigger evals run through claude -p so verify-skills works on a subscription login

On Windows, extension pull and rm report paths with mixed separators

Windows CI: data_writer vary-suffix test writes a data name with a double quote, which #3568 refuses on Windows

Docs: bare imports mapped by deno.json are rewritten on push and scored

vary/forEach object values with no key/name/id produce data names Windows refuses

Since #3569: Datastore UAT's extension install row and 17 Windows extension unit tests fail on every release

extension push: dependencies named only through a deno.json import map are never audited

extension push rewrites the author's deno.lock when bundling

codegen/vercel: union (oneOf) read responses produce id-only ResourceSchemas