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There are **two layers** to think about:\n\n1. **Codex’s actual automatic PR review trigger** — controlled in **Codex / OpenAI settings**, not by this repo workflow.\n2. **This repo’s auto-resolve bridge** — the workflow added in the PR only reacts *after* Codex has already left a top-level review comment.\n\nSo if the goal is “Codex should not spend review effort on low-yield PRs,” the best fix is to **gate or disable automatic Codex reviews upstream**, then use explicit `@codex review` for PRs that deserve it.\n\n---\n\n## Best options\n\n### Option 1 — Disable automatic reviews and use manual `@codex review`\n\nThis is the cleanest way to avoid low-yield reviews.\n\nOpenAI’s Codex GitHub docs say automatic reviews can be enabled so Codex reviews every PR, and manual reviews can be requested with `@codex review`. The docs also describe repository-level auto-review settings and review triggers. Sources: OpenAI Codex GitHub integration docs and admin setup docs. ([developers.openai.com](https://developers.openai.com/codex/integrations/github?utm_source=openai)) ([developers.openai.com](https://developers.openai.com/codex/use-cases/github-code-reviews?utm_source=openai)) ([developers.openai.com](https://developers.openai.com/codex/enterprise/admin-setup?utm_source=openai))\n\nRecommended policy:\n\n* Turn **Automatic reviews** off for this repo, or narrow its triggers if the settings UI supports that.\n* Ask humans to request Codex only on meaningful PRs with:\n\n```text\n@codex review\n```\n\nGood candidates:\n\n* auth / authorization\n* Supabase / database / RLS / migrations\n* clinical answer generation\n* document access / privacy\n* production config\n* public API contracts\n* large refactors\n* risky dependency updates\n\nThis matches the repo’s own review guidance: it already says automatic reviews should stay focused on high-confidence correctness, security, privacy, data loss, auth, migrations, production reliability, clinical behavior, source governance, and user-facing issues. \n\n---\n\n### Option 2 — Keep auto-review enabled, but make low-yield PRs opt out via labels / draft PRs / branch conventions\n\nIf Codex settings support trigger filtering, I’d use an opt-out convention such as:\n\n* `codex-skip`\n* `no-codex-review`\n* `low-risk`\n* draft PRs\n* docs-only PRs\n* dependency-lock-only PRs\n* bot-authored PRs\n\nPossible policy:\n\n| PR type | Codex review? |\n|---|---:|\n| Docs-only | No |\n| Formatting-only | No |\n| Test snapshot churn | No, unless product behavior changed |\n| Dependency lockfile refresh | Usually no, unless major runtime/framework update |\n| Clinical output / ingestion / retrieval | Yes |\n| Auth / privacy / DB / RLS | Yes |\n| Production config / deploy | Yes |\n| Public API contract | Yes |\n| Large refactor | Yes |\n\nThis repo’s `AGENTS.md` already has the right review-cost philosophy: “Avoid broad repeated review passes” and do not request exhaustive review unless the PR touches high-risk areas. \n\n---\n\n### Option 3 — Keep the auto-resolve bridge, but remember it does **not** prevent the initial review\n\nThe workflow in this PR does **not** cause Codex’s first review. It only listens for Codex review comments and posts the resolve command afterward. Specifically, it runs on `pull_request_review_comment`, filters to `chatgpt-codex-connector`, skips replies, deduplicates by head SHA, and posts the `@codex resolve all review comments...` command. \n\nSo disabling this workflow would stop auto-resolve follow-up behavior, but it would **not** stop Codex from initially reviewing low-yield PRs if automatic reviews are enabled in Codex settings.\n\n---\n\n## Repo-side improvement I’d recommend\n\nAdd explicit guidance to `AGENTS.md` saying when Codex automatic reviews should be requested or avoided. For example:\n\n```md\n### Codex review trigger policy\n\nPrefer manual `@codex review` instead of automatic review for low-risk PRs.\n\nSkip Codex review for:\n- docs-only changes\n- comments-only changes\n- formatting-only changes\n- typo-only changes\n- generated snapshots with no behavior change\n- trivial test-only cleanup\n- branch/chore PRs with no runtime impact\n\nRequest Codex review for:\n- authentication or authorization\n- private data access or privacy\n- database schema, migrations, RLS, or Supabase privileges\n- clinical answer generation, source governance, retrieval/ranking, ingestion, or document access\n- production configuration or deployment behavior\n- public API contracts\n- payment, billing, quotas, or external paid services\n- large refactors or risky dependency/framework updates\n```\n\nThis would align with the existing high-risk list in `AGENTS.md`. \n\n---\n\n## My recommendation\n\nFor this repo, I would do this:\n\n1. **Turn off “review every PR automatically” in Codex settings**, if currently enabled.\n2. Use **manual `@codex review`** for risky PRs.\n3. Keep the auto-resolve workflow, because it is useful *after* Codex has found something.\n4. Add a short **Codex review trigger policy** to `AGENTS.md` so humans know when to request review.\n\nThat gives you the biggest cost/noise reduction without losing Codex on the PRs where it is most valuable.\n\n---\n\n## Commands used\n\n* ✅ `rg -n \"Codex GitHub review behavior|Cost and usage control|Automatic resolve trigger|chatgpt-codex|codex\" AGENTS.md .github/workflows package.json README.md` — checked existing repo guidance and workflow references.","agentMessage",{"_328":337,"_309":310,"_330":316},{"_338":339,"_42":340,"_341":342,"_343":-5,"_96":344},"action",{"_345":346,"_341":342,"_96":347},"ws_0bc4076cd562d714016a4f4fc10b44819aab285cc7221ad425","query","site:help.openai.com Codex code review automatic pull request reviews settings","results","webSearch","queries",[342,348],"search","site:developers.openai.com codex pull request review settings GitHub",{"_328":350,"_309":310,"_330":316},{"_351":352,"_42":353,"_354":355,"_96":356},"content",[],"rs_0bc4076cd562d714016a4f4fbe0a7c819aa919013a6cf8d4ac","summary",[357],"reasoning","**Planning detailed Codex Cloud review response**\n\n",{"_328":359,"_309":310,"_330":316},{"_360":361,"_362":363,"_364":365,"_366":367,"_314":32,"_368":32,"_42":369,"_370":371,"_372":373,"_321":117,"_96":374},"aggregatedOutput","package.json:2: \"name\": \"prompt-for-codex-medical-knowledge-base\",\nAGENTS.md:21:- If on `main`, `master`, `develop`, `release/*`, or another protected/base branch, create/switch to `codex/dependency-maintenance` before editing, if safe.\nAGENTS.md:251:\nAGENTS.md:265:\nAGENTS.md:267:## Codex GitHub review behavior\nAGENTS.md:277:- Do not propose or start fixes unless explicitly asked with an `@codex fix...` or `@codex resolve...` comment, or when the repository's Codex auto-resolve workflow posts that command.\nAGENTS.md:305:### Cost and usage control\nAGENTS.md:336:### Automatic resolve trigger\nAGENTS.md:338:Automatic Codex review is review-only by default. This repository includes `.github/workflows/codex-autofix-review-comments.yml`, which requests the resolve task automatically after Codex posts a top-level review comment.\nAGENTS.md:350:`@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.`\nREADME.md:169:- `docs/codex-prompt-playbook.md` — copy/paste prompts for common repo work\n.github/workflows/codex-autofix-review-comments.yml:13: group: codex-autoresolve-${{ github.event.pull_request.number }}-${{ github.event.pull_request.head.sha }}\n.github/workflows/codex-autofix-review-comments.yml:17: request-codex-autoresolve:\n.github/workflows/codex-autofix-review-comments.yml:22: contains(github.event.comment.user.login, 'chatgpt-codex-connector')\n.github/workflows/codex-autofix-review-comments.yml:40: const marker = ``;\n.github/workflows/codex-autofix-review-comments.yml:56: ``,\n.github/workflows/codex-autofix-review-comments.yml:57: \"@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.\",\n","command","/bin/bash -lc 'rg -n \"Codex GitHub review behavior|Cost and usage control|Automatic resolve trigger|chatgpt-codex|codex\" AGENTS.md .github/workflows package.json README.md'","commandActions",[375],"cwd","/workspace/Database","exitCode","call_Vuik2DpvcFLHDNietY3VVzjt","processId","37581","source","unifiedExecStartup","commandExecution",{"_362":376,"_164":377,"_341":378,"_96":347},"rg -n 'Codex GitHub review behavior|Cost and usage control|Automatic resolve trigger|chatgpt-codex|codex' AGENTS.md .github/workflows package.json README.md","AGENTS.md","Codex GitHub review behavior|Cost and usage control|Automatic resolve trigger|chatgpt-codex|codex",{"_328":380,"_309":310,"_330":316},{"_351":381,"_42":382,"_354":383,"_96":356},[],"rs_0bc4076cd562d714016a4f4fba3fb4819a90a71b619400e6a4",[384],"**Planning command inspection for citations**\n\n",{"_328":386,"_309":310,"_330":316},{"_387":-5,"_351":388,"_42":389,"_96":390},"clientId",[391],"afeab988-c5b7-42a8-8dff-0244027b9e4c","userMessage",{"_46":392,"_393":394,"_96":46},"\nis there a way to avoid codex auto review to stop reviewing low yield PRs? 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This PR cannot change the Codex Cloud settings page.\n\n## Remaining risk\n\nThis bridge depends on Codex Cloud responding to an `@codex` command posted by `github-actions[bot]`. If Codex ignores bot-authored commands, the fallback is a direct `openai/codex-action` workflow, but that requires an `OPENAI_API_KEY` and explicit API/cost approval.","base","head","base_sha","49cbd226fb56662cb32599f98bacc9600585dbdf","head_sha","merge_commit_sha","df98dd387e3fba3279acc7f6e95d3c14e154ad69","comments","diff",{"_278":279,"_247":279,"_553":-5,"_282":283,"_42":280},"commits",1,"changed_files",2,"additions",150,"deletions","email",[555,556,557,558,559,560,561,562,563,564,565,566,567,568,569,570,571,572,573,574,575,576,577,578,579,580,581,582],{"_157":737,"_307":738},{"_157":322,"_307":734},{"_157":395,"_307":731},{"_157":592,"_307":723},{"_157":592,"_307":716},{"_157":592,"_307":711},{"_157":326,"_307":704},{"_157":326,"_307":699},{"_157":592,"_307":693},{"_157":592,"_307":690},{"_157":326,"_307":682},{"_157":592,"_307":678},{"_157":326,"_307":673},{"_157":592,"_307":667},{"_157":592,"_307":664},{"_157":326,"_307":656},{"_157":592,"_307":652},{"_157":326,"_307":647},{"_157":592,"_307":639},{"_157":592,"_307":632},{"_157":326,"_307":623},{"_157":592,"_307":616},{"_157":326,"_307":611},{"_157":592,"_307":603},{"_157":326,"_307":600},{"_157":592,"_307":593},{"_157":322,"_307":590},{"_157":306,"_307":583},{"_309":310,"_91":584},{"_312":585,"_314":586,"_107":-5,"_42":587,"_317":588,"_319":589,"_321":117},1783582421,23930,"019f45cb-9534-7a53-8427-3ae888a4a223",[],1783582397,{"_321":591,"_309":310},{"_96":325},"rawResponseItem/completed",{"_328":594,"_309":310,"_330":587},{"_351":595,"_419":-5,"_42":-5,"_596":-5,"_332":333,"_100":97,"_96":446},[597],"internal_chat_message_metadata_passthrough",{"_46":598,"_96":599},"### Summary\n\n* Reviewed the PR trigger and current branch state. The requested auto-resolve bridge is already present on branch `work`, with no uncommitted changes remaining.\n* Confirmed the workflow listens for new `pull_request_review_comment` events, filters to open PRs and Codex connector comments, skips review-thread replies, deduplicates by PR head SHA marker, and posts the repository’s `@codex resolve all review comments...` command. 【F:.github/workflows/codex-autofix-review-comments.yml†L3-L65】\n* Confirmed `AGENTS.md` contains the repository-specific Codex GitHub review behavior, severity calibration, fix rules, review lifecycle guidance, automatic resolve trigger requirements, and primary PR command. 【F:AGENTS.md†L267-L350】\n* No code changes were needed, so I did **not** create a new commit or call the PR creation tool.\n\n**Testing**\n* ✅ `git diff --check`\n* ✅ `git status --short --branch` — worktree is clean on `work`.","output_text",{"_328":601,"_309":310,"_330":587},{"_42":602,"_332":333,"_46":598,"_96":335},"msg_08ae40e4ebeab6fe016a4f4ed20e5481989214441cf9d17d36",{"_328":604,"_309":310,"_330":587},{"_351":-5,"_605":606,"_42":-5,"_596":-5,"_354":607,"_96":356},"encrypted_content","gAAAAABqT07S1_Rq4O61xie8OKCXHICMlRNQz8Qftz9kHy_N9haEp5w7tOqqwepVjMiX7mdi6LyhlhP86APmRH-PTwdkjax6Nj96YtuVTIz5hv4gASWdeLikI5Z9iX_t2f5406gdfPpIzL9w_e-GranZLlQwMUx1glOyKp6KLLc_2YUtv6qCpm35sMp_bTfB_RjolbpCivrfVhvnDeLXIhFnNXzb_CXQk1q214ZJeXc82OuMu4UPM5LzqrdbAm-jbsAjyFkAzUnKiwBOatLX84CC1uuh1o5FCNHn89AHOAphRDz7fbv2pB272tHsfOUgwUYebSP8dFVLEJyW1ugokENtWwL1WeX3VazDdRJ2g8myRh83x-UbSTUvkrpA5C_pwuTR0Hv_R-iImoLgsZxxBSDnoyjlfr3HGWQjT-DCWYwZgSZdGK5dNK7w3X6w0wnscUUGh04lCV5QyKuDnIy40J9VSPMGJQBA9IIPLGffM1yyGXo2-87iDRAK0ZmmAYibO57jhG5laOXQD4qypSCdL8KrJr3RGdIMmsQ94oHvkRTBFThf2OYC95Uhnl0suZ40RsS9Ac1MOeRQuoBNrRlZhYt15GnkBvTB_ukDLT43_WJ8ndKLsU9Sslm9-_eajsAJcvoqMa3Qt6rWfJLhzJHHgvg3-bjpwuhPbtt2EFmPFKREMuLkAFXVvG6e9g4cH6NizCs9Xywr_5OJyvaiGc6pOX6MtxJdmq3fbbgu_WqJWjXyHxLzfeF3W1TRIEiqYf6DbTZonrqg297y4920ccL6pGDBQrHZ0AtddKMFzwBz5561awT5257VvWhhqDeILTD_hyuk1UlfFXRjh23PMffmgZASODaFsBYKwnmMAhSstnK2VVT60egVOujT6oGQ8SM94qFK63K8chSs2Tp7EB80j_f-LgvN_GCx6c64U1YWuA2uL_h-xbZIXjyN8v2kdEi5g_-1j3VzWHM2YorZJOYgVRnPjdW3yLrd1ONUv7FiKw4sVKljoEydrFFBsXmG1pCPFxHzhbNX52KFcaCdSOGWsxMJfekwvGy1OFdyYNxEunZWkKe2Uu72WtV0l4KoUZNowpPjsN9GBo4WvETx2H_oo-HSzkx2NldEE3YKg5ixr4OcGI3neE9LRuUf1PA0gdU5Ccxmf7_5ERVkzpAyUZzNoQ0tigoLiCHvye28pYWY7hqwbh3sQxZxkhcgy_OgDZuKIMivDlKQpKaTeD8fxHISdS8evrpZKBGYHmZp6W-WLcL-KA-OtnhxCie9mP7Fhjhy5cz-iq2R6D1cHsYg9uWRSdgmID-bguprWg==",[608],{"_46":609,"_96":610},"**Confirming no changes, no commit or PR needed**\n\n","summary_text",{"_328":612,"_309":310,"_330":587},{"_351":613,"_42":614,"_354":615,"_96":356},[],"rs_08ae40e4ebeab6fe016a4f4ed0708c8198a98a8139e118726a",[609],{"_328":617,"_309":310,"_330":587},{"_618":619,"_42":-5,"_596":-5,"_620":621,"_96":622},"call_id","call_DedtYwHjx9bIChAIBmQwasRR","output","Chunk ID: 39591f\nWall time: 0.0002 seconds\nProcess exited with code 0\nOriginal token count: 3607\nOutput:\n 1\tname: Codex auto-resolve review comments\n 2\t\n 3\ton:\n 4\t pull_request_review_comment:\n 5\t types: [created]\n 6\t\n 7\tpermissions:\n 8\t contents: read\n 9\t issues: write\n 10\t pull-requests: read\n 11\t\n 12\tconcurrency:\n 13\t group: codex-autoresolve-${{ github.event.pull_request.number }}-${{ github.event.pull_request.head.sha }}\n 14\t cancel-in-progress: false\n 15\t\n 16\tjobs:\n 17\t request-codex-autoresolve:\n 18\t name: Request Codex auto-resolve\n 19\t runs-on: ubuntu-latest\n 20\t if: >\n 21\t github.event.pull_request.state == 'open' &&\n 22\t contains(github.event.comment.user.login, 'chatgpt-codex-connector')\n 23\t steps:\n 24\t - name: Ask Codex to resolve review comments\n 25\t uses: actions/github-script@v7\n 26\t with:\n 27\t github-token: ${{ github.token }}\n 28\t script: |\n 29\t const pr = context.payload.pull_request;\n 30\t const reviewComment = context.payload.comment;\n 31\t\n 32\t if (reviewComment.in_reply_to_id) {\n 33\t core.notice(\"Skipping Codex auto-resolve request because the comment is a review-thread reply.\");\n 34\t return;\n 35\t }\n 36\t\n 37\t const owner = context.repo.owner;\n 38\t const repo = context.repo.repo;\n 39\t const issue_number = pr.number;\n 40\t const marker = ``;\n 41\t\n 42\t const existingComments = await github.paginate(github.rest.issues.listComments, {\n 43\t owner,\n 44\t repo,\n 45\t issue_number,\n 46\t per_page: 100,\n 47\t });\n 48\t\n 49\t if (existingComments.some((comment) => (comment.body || \"\").includes(marker))) {\n 50\t core.notice(\"Skipping duplicate Codex auto-resolve request for this PR head commit.\");\n 51\t return;\n 52\t }\n 53\t\n 54\t const prompt = [\n 55\t marker,\n 56\t ``,\n 57\t \"@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.\",\n 58\t ].join(\"\\n\\n\");\n 59\t\n 60\t await github.rest.issues.createComment({\n 61\t owner,\n 62\t repo,\n 63\t issue_number,\n 64\t body: prompt,\n 65\t });\n\nAGENTS review lines\n 260\t- After auth, Supabase, ingestion, answer generation, search/ranking, clinical output, or source-governance changes, run the smallest domain check plus `npm run check:production-readiness`. Run `npm run check:supabase-project` after Supabase env/config changes.\n 261\t- For handoff, archive-safety, or upload-style requests, inspect branch/upstream/status first, run the appropriate verification gate, and only commit or push when the request explicitly asks for that workflow.\n 262\t- For codebase appraisal exports, stage outside the repo, include `EXPORT_MANIFEST.md`, exclude secrets/dependencies/build outputs/local state, and verify the archive can be opened before handoff.\n 263\t- When a repeated repo-specific workflow is discovered, update this file or ask the user whether it should be remembered.\n 264\t\n 265\t\n 266\t\n 267\t## Codex GitHub review behavior\n 268\t\n 269\tThese instructions apply to Codex GitHub pull request reviews and Codex tasks started from PR comments.\n 270\t\n 271\t- Keep automatic reviews focused and cost-conscious.\n 272\t- Prioritize high-confidence findings that affect correctness, security, privacy, data loss, auth/permissions, migrations, API contracts, production reliability, clinical behavior, source governance, or user-facing behavior.\n 273\t- Do not comment on formatting, naming, style, minor cleanup, or speculative refactors unless they create a real bug or maintainability risk.\n 274\t- Prefer fewer, stronger findings over exhaustive low-value review comments.\n 275\t- A finding must cite concrete changed code and explain the failure mode.\n 276\t- Do not suggest broad rewrites during review. Recommend the smallest change that resolves the issue.\n 277\t- Do not propose or start fixes unless explicitly asked with an `@codex fix...` or `@codex resolve...` comment, or when the repository's Codex auto-resolve workflow posts that command.\n 278\t\n 279\t### Severity calibration\n 280\t\n 281\t- P0: active security exposure, data loss/corruption already possible, severe production outage risk, credential leakage, or a critical issue that must be fixed immediately.\n 282\t- P1: security vulnerability, auth bypass, data exposure/loss, destructive migration risk, production-breaking regression, public API contract break, severe clinical/user-facing bug, or missing validation with realistic exploit/failure impact.\n 283\t- P2: important correctness bug, missing behavior test for meaningful changed behavior, edge case likely to affect users, reliability issue, unsafe assumption, or maintainability issue that will likely cause defects.\n 284\t- P3: style, naming, formatting, small cleanup, speculative improvements, or optional refactors. Avoid raising these in automatic reviews unless explicitly requested.\n 285\t\n 286\tFor GitHub automatic reviews, focus mainly on P1-level findings. If a P2 issue is important enough to block the PR, explain why it should be treated as P1.\n 287\t\n 288\t### PR risk detection\n 289\t\n 290\tWhen reviewing, identify whether the PR touches any high-risk area:\n 291\t\n 292\t- authentication or authorization\n 293\t- user data, privacy, or private document access\n 294\t- database schema, migrations, RLS, SECURITY DEFINER functions, or Supabase privileges\n 295\t- clinical answer generation, source governance, retrieval/ranking, ingestion, or document access\n 296\t- payment, billing, subscriptions, or quotas\n 297\t- public API contracts\n 298\t- production configuration or deployment behavior\n 299\t- background jobs, scheduled tasks, workers, or queue processing\n 300\t- file upload/download or generated document access\n 301\t- AI/API provider calls, paid external services, or credential-dependent workflows\n 302\t\n 303\tIf a high-risk area is touched, review more carefully for regressions, missing tests, rollback/safety notes, and conservative failure behavior.\n 304\t\n 305\t### Cost and usage control\n 306\t\n 307\tAvoid broad repeated review passes. Do not request exhaustive review behavior unless the PR touches security, auth, data loss, migrations, billing, production reliability, clinical output, source governance, or private document access. Prefer targeted validation and targeted review comments.\n 308\t\n 309\t### Fix behavior\n 310\t\n 311\tWhen explicitly asked to fix or resolve review findings:\n 312\t\n 313\t- Always fix P0 and P1 findings using the best minimal fix.\n 314\t- For P2 and lower-severity findings, decide whether the issue is worth fixing automatically.\n 315\t- Fix a P2 or lower finding only when the fix is clear, scoped, low-risk, and testable.\n 316\t- Do not automatically fix a P2 or lower finding when it requires broad refactoring, product judgment, dependency changes, credentials, paid/external APIs, large design decisions, or risky behavior changes.\n 317\t- If a P2 or lower finding is not worth fixing automatically, comment with the reason and the recommended human decision, then resolve the review conversation when supported.\n 318\t- Preserve unrelated work and avoid opportunistic refactors.\n 319\t- Do not add dependencies unless the issue cannot reasonably be fixed without one.\n 320\t- Do not change secrets, credentials, environment configuration, billing settings, deployment settings, or external service setup unless explicitly requested.\n 321\t- Do not use external APIs, paid services, credentials, secrets, live Supabase projects, or OpenAI provider calls unless explicitly authorized.\n 322\t- If a finding is ambiguous, unsafe to fix automatically, or requires a large rewrite, stop and explain the decision instead of guessing.\n 323\t- Add or update the smallest relevant test when the issue affects behavior.\n 324\t- Run the narrowest relevant validation for the touched surface before broader suites.\n 325\t- Summarize fixed issues, changed files, validation run, and any remaining human decisions.\n 326\t\n 327\t### Review comment lifecycle\n 328\t\n 329\t- Treat closing review conversations as part of the task when asked to fix or resolve comments.\n 330\t- After fixing a P0 or P1 finding, reply with the fix summary and resolve the review conversation when supported by GitHub permissions/tooling.\n 331\t- After fixing an approved P2 or lower finding, reply with the fix summary and resolve the review conversation when supported.\n 332\t- After deciding not to fix a P2 or lower finding, reply with the reason, note whether it is deferred or not actionable, and resolve the review conversation when supported.\n 333\t- Do not leave a review conversation open after it has been fixed or explicitly dispositioned.\n 334\t- If GitHub permissions/tooling do not allow resolving a review conversation, leave a clear reply that says the issue is fixed or dispositioned and that the conversation is ready for a human to resolve.\n 335\t\n 336\t### Automatic resolve trigger\n 337\t\n 338\tAutomatic Codex review is review-only by default. This repository includes `.github/workflows/codex-autofix-review-comments.yml`, which requests the resolve task automatically after Codex posts a top-level review comment.\n 339\t\n 340\t- The workflow must only trigger from Codex review bot comments on open pull requests.\n 341\t- The workflow must skip review-thread replies so Codex fix summaries do not re-trigger the workflow.\n 342\t- The workflow must ask Codex to resolve all review comments using these repository instructions.\n 343\t- The workflow must avoid duplicate requests for the same pull request head commit.\n 344\t- The workflow must not run Codex directly with API credentials.\n 345\t- P0 and P1 findings should always be fixed.\n 346\t- P2 and lower findings should be fixed only when clear, scoped, low-risk, and testable; otherwise explain the decision and resolve or mark ready for human resolution.\n 347\t\n 348\t### Primary PR command\n 349\t\n 350\t`@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.`\n 351\t\n 352\t## Cursor Cloud specific instructions\n 353\t\n 354\tDurable notes for Cloud Agents. Standard commands live in `README.md` and `package.json`; only non-obvious caveats are captured here.\n 355\t\n 356\t- Runtime: the app hard-requires Node 24.x / npm 11.x (`engine-strict`, and `scripts/dev-free-port.mjs` exits on any other major). Node 24 is installed via nvm and symlinked into `/usr/local/cargo/bin` (first entry in `PATH`) so `node`/`npm` resolve to v24 in every shell. If a shell ever resolves `/exec-daemon/node` (v22) instead, prepend `\"$HOME/.nvm/versions/node/v24.18.0/bin\"` to `PATH`.\n 357\t- Live vs demo mode: the app auto-detects. When the Supabase + OpenAI env vars below are present (set them as Cloud Agent **Secrets** so they inject into `.env.local`/`process.env`), `isDemoMode()` (`src/lib/env.ts`) is false and the app runs against the live `Clinical KB Database` project (~2000 indexed docs) with OpenAI answer generation. When they are absent, dev auto-falls back to demo mode using the synthetic corpus in `src/lib/demo-data.ts` / `public/demo-documents/`. Required for live mode: `NEXT_PUBLIC_SUPABASE_URL`, `SUPABASE_PROJECT_REF`, `SUPABASE_PROJECT_NAME`, `NEXT_PUBLIC_SUPABASE_PUBLISHABLE_KEY` (`sb_publishable_…`), `SUPABASE_SERVICE_ROLE_KEY` (accepts the `sb_secret_…` secret key), `OPENAI_API_KEY`. Keep `RAG_PROVIDER_MODE=auto` so OpenAI is used with graceful source-only fallback. `E2E_USER_EMAIL`/`E2E_USER_PASSWORD` power CI env-check and Playwright.\n 358\t- Live-mode caveat: `RAG_PROVIDER_MODE=auto` attempts OpenAI (fast → strong route); if generation fails the built-in quality gates it silently degrades to a deterministic \"Source-only\" answer that still cites real documents — this is expected, not a failure. The header sign-in UI exposes magic-link + OAuth only (no password field), but the `/api/answer` + retrieval flow works server-side without a browser session.\n 359\t- What still won't run in this VM even with secrets: `npm run worker` also needs the Python OCR stack (`worker/python/requirements.txt`) and heavy parsing deps; Supabase edge functions need Deno v2.x + deployment. `verify:release` additionally runs governance/eval gates. Treat missing-secret failures of `check:supabase-project`/`verify:release` in demo mode as expected, not regressions.\n 360\t- Dev server: `npm run dev` selects a stable per-project localhost port (e.g. `4461`), binds `0.0.0.0`, and prints the exact URL. Never assume port 3000/3001/3002. `npm run ensure` starts/verifies it in the background.\n 361\t- Verification without secrets: `npm run lint`, `npm run typecheck`, and `npm run test` (vitest) all pass offline. `npm run verify:cheap` also runs `check:runtime` + `sitemap:check` and is safe offline.\n## work\n","function_call_output",{"_328":624,"_309":310,"_330":587},{"_360":625,"_362":626,"_364":627,"_366":367,"_314":32,"_368":32,"_42":619,"_370":628,"_372":373,"_321":117,"_96":374}," 1\tname: Codex auto-resolve review comments\n 2\t\n 3\ton:\n 4\t pull_request_review_comment:\n 5\t types: [created]\n 6\t\n 7\tpermissions:\n 8\t contents: read\n 9\t issues: write\n 10\t pull-requests: read\n 11\t\n 12\tconcurrency:\n 13\t group: codex-autoresolve-${{ github.event.pull_request.number }}-${{ github.event.pull_request.head.sha }}\n 14\t cancel-in-progress: false\n 15\t\n 16\tjobs:\n 17\t request-codex-autoresolve:\n 18\t name: Request Codex auto-resolve\n 19\t runs-on: ubuntu-latest\n 20\t if: >\n 21\t github.event.pull_request.state == 'open' &&\n 22\t contains(github.event.comment.user.login, 'chatgpt-codex-connector')\n 23\t steps:\n 24\t - name: Ask Codex to resolve review comments\n 25\t uses: actions/github-script@v7\n 26\t with:\n 27\t github-token: ${{ github.token }}\n 28\t script: |\n 29\t const pr = context.payload.pull_request;\n 30\t const reviewComment = context.payload.comment;\n 31\t\n 32\t if (reviewComment.in_reply_to_id) {\n 33\t core.notice(\"Skipping Codex auto-resolve request because the comment is a review-thread reply.\");\n 34\t return;\n 35\t }\n 36\t\n 37\t const owner = context.repo.owner;\n 38\t const repo = context.repo.repo;\n 39\t const issue_number = pr.number;\n 40\t const marker = ``;\n 41\t\n 42\t const existingComments = await github.paginate(github.rest.issues.listComments, {\n 43\t owner,\n 44\t repo,\n 45\t issue_number,\n 46\t per_page: 100,\n 47\t });\n 48\t\n 49\t if (existingComments.some((comment) => (comment.body || \"\").includes(marker))) {\n 50\t core.notice(\"Skipping duplicate Codex auto-resolve request for this PR head commit.\");\n 51\t return;\n 52\t }\n 53\t\n 54\t const prompt = [\n 55\t marker,\n 56\t ``,\n 57\t \"@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.\",\n 58\t ].join(\"\\n\\n\");\n 59\t\n 60\t await github.rest.issues.createComment({\n 61\t owner,\n 62\t repo,\n 63\t issue_number,\n 64\t body: prompt,\n 65\t });\n\nAGENTS review lines\n 260\t- After auth, Supabase, ingestion, answer generation, search/ranking, clinical output, or source-governance changes, run the smallest domain check plus `npm run check:production-readiness`. Run `npm run check:supabase-project` after Supabase env/config changes.\n 261\t- For handoff, archive-safety, or upload-style requests, inspect branch/upstream/status first, run the appropriate verification gate, and only commit or push when the request explicitly asks for that workflow.\n 262\t- For codebase appraisal exports, stage outside the repo, include `EXPORT_MANIFEST.md`, exclude secrets/dependencies/build outputs/local state, and verify the archive can be opened before handoff.\n 263\t- When a repeated repo-specific workflow is discovered, update this file or ask the user whether it should be remembered.\n 264\t\n 265\t\n 266\t\n 267\t## Codex GitHub review behavior\n 268\t\n 269\tThese instructions apply to Codex GitHub pull request reviews and Codex tasks started from PR comments.\n 270\t\n 271\t- Keep automatic reviews focused and cost-conscious.\n 272\t- Prioritize high-confidence findings that affect correctness, security, privacy, data loss, auth/permissions, migrations, API contracts, production reliability, clinical behavior, source governance, or user-facing behavior.\n 273\t- Do not comment on formatting, naming, style, minor cleanup, or speculative refactors unless they create a real bug or maintainability risk.\n 274\t- Prefer fewer, stronger findings over exhaustive low-value review comments.\n 275\t- A finding must cite concrete changed code and explain the failure mode.\n 276\t- Do not suggest broad rewrites during review. Recommend the smallest change that resolves the issue.\n 277\t- Do not propose or start fixes unless explicitly asked with an `@codex fix...` or `@codex resolve...` comment, or when the repository's Codex auto-resolve workflow posts that command.\n 278\t\n 279\t### Severity calibration\n 280\t\n 281\t- P0: active security exposure, data loss/corruption already possible, severe production outage risk, credential leakage, or a critical issue that must be fixed immediately.\n 282\t- P1: security vulnerability, auth bypass, data exposure/loss, destructive migration risk, production-breaking regression, public API contract break, severe clinical/user-facing bug, or missing validation with realistic exploit/failure impact.\n 283\t- P2: important correctness bug, missing behavior test for meaningful changed behavior, edge case likely to affect users, reliability issue, unsafe assumption, or maintainability issue that will likely cause defects.\n 284\t- P3: style, naming, formatting, small cleanup, speculative improvements, or optional refactors. Avoid raising these in automatic reviews unless explicitly requested.\n 285\t\n 286\tFor GitHub automatic reviews, focus mainly on P1-level findings. If a P2 issue is important enough to block the PR, explain why it should be treated as P1.\n 287\t\n 288\t### PR risk detection\n 289\t\n 290\tWhen reviewing, identify whether the PR touches any high-risk area:\n 291\t\n 292\t- authentication or authorization\n 293\t- user data, privacy, or private document access\n 294\t- database schema, migrations, RLS, SECURITY DEFINER functions, or Supabase privileges\n 295\t- clinical answer generation, source governance, retrieval/ranking, ingestion, or document access\n 296\t- payment, billing, subscriptions, or quotas\n 297\t- public API contracts\n 298\t- production configuration or deployment behavior\n 299\t- background jobs, scheduled tasks, workers, or queue processing\n 300\t- file upload/download or generated document access\n 301\t- AI/API provider calls, paid external services, or credential-dependent workflows\n 302\t\n 303\tIf a high-risk area is touched, review more carefully for regressions, missing tests, rollback/safety notes, and conservative failure behavior.\n 304\t\n 305\t### Cost and usage control\n 306\t\n 307\tAvoid broad repeated review passes. Do not request exhaustive review behavior unless the PR touches security, auth, data loss, migrations, billing, production reliability, clinical output, source governance, or private document access. Prefer targeted validation and targeted review comments.\n 308\t\n 309\t### Fix behavior\n 310\t\n 311\tWhen explicitly asked to fix or resolve review findings:\n 312\t\n 313\t- Always fix P0 and P1 findings using the best minimal fix.\n 314\t- For P2 and lower-severity findings, decide whether the issue is worth fixing automatically.\n 315\t- Fix a P2 or lower finding only when the fix is clear, scoped, low-risk, and testable.\n 316\t- Do not automatically fix a P2 or lower finding when it requires broad refactoring, product judgment, dependency changes, credentials, paid/external APIs, large design decisions, or risky behavior changes.\n 317\t- If a P2 or lower finding is not worth fixing automatically, comment with the reason and the recommended human decision, then resolve the review conversation when supported.\n 318\t- Preserve unrelated work and avoid opportunistic refactors.\n 319\t- Do not add dependencies unless the issue cannot reasonably be fixed without one.\n 320\t- Do not change secrets, credentials, environment configuration, billing settings, deployment settings, or external service setup unless explicitly requested.\n 321\t- Do not use external APIs, paid services, credentials, secrets, live Supabase projects, or OpenAI provider calls unless explicitly authorized.\n 322\t- If a finding is ambiguous, unsafe to fix automatically, or requires a large rewrite, stop and explain the decision instead of guessing.\n 323\t- Add or update the smallest relevant test when the issue affects behavior.\n 324\t- Run the narrowest relevant validation for the touched surface before broader suites.\n 325\t- Summarize fixed issues, changed files, validation run, and any remaining human decisions.\n 326\t\n 327\t### Review comment lifecycle\n 328\t\n 329\t- Treat closing review conversations as part of the task when asked to fix or resolve comments.\n 330\t- After fixing a P0 or P1 finding, reply with the fix summary and resolve the review conversation when supported by GitHub permissions/tooling.\n 331\t- After fixing an approved P2 or lower finding, reply with the fix summary and resolve the review conversation when supported.\n 332\t- After deciding not to fix a P2 or lower finding, reply with the reason, note whether it is deferred or not actionable, and resolve the review conversation when supported.\n 333\t- Do not leave a review conversation open after it has been fixed or explicitly dispositioned.\n 334\t- If GitHub permissions/tooling do not allow resolving a review conversation, leave a clear reply that says the issue is fixed or dispositioned and that the conversation is ready for a human to resolve.\n 335\t\n 336\t### Automatic resolve trigger\n 337\t\n 338\tAutomatic Codex review is review-only by default. This repository includes `.github/workflows/codex-autofix-review-comments.yml`, which requests the resolve task automatically after Codex posts a top-level review comment.\n 339\t\n 340\t- The workflow must only trigger from Codex review bot comments on open pull requests.\n 341\t- The workflow must skip review-thread replies so Codex fix summaries do not re-trigger the workflow.\n 342\t- The workflow must ask Codex to resolve all review comments using these repository instructions.\n 343\t- The workflow must avoid duplicate requests for the same pull request head commit.\n 344\t- The workflow must not run Codex directly with API credentials.\n 345\t- P0 and P1 findings should always be fixed.\n 346\t- P2 and lower findings should be fixed only when clear, scoped, low-risk, and testable; otherwise explain the decision and resolve or mark ready for human resolution.\n 347\t\n 348\t### Primary PR command\n 349\t\n 350\t`@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.`\n 351\t\n 352\t## Cursor Cloud specific instructions\n 353\t\n 354\tDurable notes for Cloud Agents. Standard commands live in `README.md` and `package.json`; only non-obvious caveats are captured here.\n 355\t\n 356\t- Runtime: the app hard-requires Node 24.x / npm 11.x (`engine-strict`, and `scripts/dev-free-port.mjs` exits on any other major). Node 24 is installed via nvm and symlinked into `/usr/local/cargo/bin` (first entry in `PATH`) so `node`/`npm` resolve to v24 in every shell. If a shell ever resolves `/exec-daemon/node` (v22) instead, prepend `\"$HOME/.nvm/versions/node/v24.18.0/bin\"` to `PATH`.\n 357\t- Live vs demo mode: the app auto-detects. When the Supabase + OpenAI env vars below are present (set them as Cloud Agent **Secrets** so they inject into `.env.local`/`process.env`), `isDemoMode()` (`src/lib/env.ts`) is false and the app runs against the live `Clinical KB Database` project (~2000 indexed docs) with OpenAI answer generation. When they are absent, dev auto-falls back to demo mode using the synthetic corpus in `src/lib/demo-data.ts` / `public/demo-documents/`. Required for live mode: `NEXT_PUBLIC_SUPABASE_URL`, `SUPABASE_PROJECT_REF`, `SUPABASE_PROJECT_NAME`, `NEXT_PUBLIC_SUPABASE_PUBLISHABLE_KEY` (`sb_publishable_…`), `SUPABASE_SERVICE_ROLE_KEY` (accepts the `sb_secret_…` secret key), `OPENAI_API_KEY`. Keep `RAG_PROVIDER_MODE=auto` so OpenAI is used with graceful source-only fallback. `E2E_USER_EMAIL`/`E2E_USER_PASSWORD` power CI env-check and Playwright.\n 358\t- Live-mode caveat: `RAG_PROVIDER_MODE=auto` attempts OpenAI (fast → strong route); if generation fails the built-in quality gates it silently degrades to a deterministic \"Source-only\" answer that still cites real documents — this is expected, not a failure. The header sign-in UI exposes magic-link + OAuth only (no password field), but the `/api/answer` + retrieval flow works server-side without a browser session.\n 359\t- What still won't run in this VM even with secrets: `npm run worker` also needs the Python OCR stack (`worker/python/requirements.txt`) and heavy parsing deps; Supabase edge functions need Deno v2.x + deployment. `verify:release` additionally runs governance/eval gates. Treat missing-secret failures of `check:supabase-project`/`verify:release` in demo mode as expected, not regressions.\n 360\t- Dev server: `npm run dev` selects a stable per-project localhost port (e.g. `4461`), binds `0.0.0.0`, and prints the exact URL. Never assume port 3000/3001/3002. `npm run ensure` starts/verifies it in the background.\n 361\t- Verification without secrets: `npm run lint`, `npm run typecheck`, and `npm run test` (vitest) all pass offline. `npm run verify:cheap` also runs `check:runtime` + `sitemap:check` and is safe offline.\n## work\n","/bin/bash -lc \"nl -ba .github/workflows/codex-autofix-review-comments.yml | sed -n '1,80p'\nprintf '\\\\nAGENTS review lines\\\\n'\nnl -ba AGENTS.md | sed -n '260,380p'\n\ngit diff --check\n\ngit status --short --branch\"",[629],"37480",{"_362":630,"_96":631},"nl -ba .github/workflows/codex-autofix-review-comments.yml | sed -n '1,80p'\nprintf '\\nAGENTS review lines\\n'\nnl -ba AGENTS.md | sed -n '260,380p'\n\ngit diff --check\n\ngit status --short --branch","unknown",{"_328":633,"_309":310,"_330":587},{"_634":635,"_618":619,"_42":-5,"_596":-5,"_247":636,"_637":-5,"_96":638},"arguments","{\"cmd\":\"nl -ba .github/workflows/codex-autofix-review-comments.yml | sed -n '1,80p'\\nprintf '\\\\nAGENTS review lines\\\\n'\\nnl -ba AGENTS.md | sed -n '260,380p'\\n\\ngit diff --check\\n\\ngit status --short --branch\",\"workdir\":\"/workspace/Database\",\"yield_time_ms\":10000,\"max_output_tokens\":20000}","exec_command","namespace","function_call",{"_328":640,"_309":310,"_330":587},{"_351":-5,"_605":641,"_42":-5,"_596":-5,"_354":642,"_96":356},"gAAAAABqT07OXj39R4E1bZQIDhCFtZKFAGcEUoPWB-F1-hc_NMtfu0mYzOu-ycCWoByLnFO8NFrPuknFGDERFz0k2WaJd5aCiE3_2bGhdpK-gS4RaXb3VbiN2uE176KWaevbcSjlMTnEhLeW370O93kM3KwJeM_bGnaTEeOsgDmaRXKV9Onl04B-s7sSTpWRSrz2PYAm_Ekw258xAStE82rHrdP5W2TyHT7G1SW5dvKYAhmk4RTSkhts08zRDacSKBzsv3cb71fEYqbOmyclVvLAfv1WgVtcI4WzY5w77hn6ujjC7iY1yQJKLnHqXyXCYaWMwnTF776dJDWNymWd6z0JoU9E7Ljg5Lq1bRrddTDJFui5WONTWPMhHnGQ7WBSqo_behhy1-EHT0c1rKfdNwZbKcU7DgahT0BgV4_NjB1jL3RIWUNIMWu-XOAQD59saS2n1hGcFPt8Pw67-ePpyhkEg5_6FyLF1Ax_0GOPVEE4aw9_UlZzhNJQKTC6XqHlOWxQKXEisqqfFPFtKbIjoehVy8ctETGk6tUJQjMnl_QUUl1U7lR9ullKuKVfuDp--DYUR8X96HVRDeTcFjqymZ1E7QM5Fb827GNZM8irb3gzcgzAhIl_U7pKwdr37YBNKPVwnJme4reWeKVzKkLvDC2ePEmsctU5DUEup0aKY44HqkOP02vIWpJ6aEbOIt-eST09Ta9QJzpAhd5K9iJY_6mBdMisoA90WocoKcO3JFc3F84wT_z9jNcy8ozdHd8SHIK_gZEIiYvh0uSZz23FvpYjfaCaPcl7O7m_u7pai5RAe10H73hpAcbRJ2DEqdzseglicn0wIDZhu9DcRQMhfkGEQvnq2-HJc7qMBbLfNA6IidlZ1QAKlnJVKXE69xU8yXOXLxWFbiNYiEt2mh36tTVtsbb_mTW_7EFSOkwi3c0YnQ0VS6y-YZsbWsjk9UyhPIC8DpeJIeHNFzTz39Zj8cSFH_TQ_R594uxDFnWBtt7NeNUqPwkVlGKjEwVd6oK5zx1kC6DUZYZGmCSlwHevcDtXtpj2FNB_TzXRW0aEqeNFoCL6iqHzWy_0nEPOP3BwkHPSCHwDuROsKGPxUZkrOkPWT8soYhjrTcwosW5YnXFX1wHBCHcYNUbnIDJ3lbeTIuG-ZDShJMiH7fMGj3vKmpqW_TmxIBxCI0e3GwTgPa_z_OKgA-28DTpDsswYLzxMj69n3OfQ4iZBEdfdQaKFtQKgQByyurQgadsAnlxZK7pkEkSSdpfCZDMEQOh--qo0KbjpwK9ensAN3eempXzbgdHICeu2HEXVobqNTK0GzKGU5eKGOgy5LXmhhZSwiiVtFUFPAGmLUOnaj9F85T9k4kcD-IzHgub-Nlc19E5OIeBR5o_BC2_y20z--wmqZxHXUV_4kCljBCImnYlUX1n_2BBIwQTR7no70ldpkWvns3sLvoC2fwqcl3K6Mnhjlt6LLIs1tzumBVtpJQd0nuH6cHuJfwo1833J9PW0d3kz8eeMGEZ5LZoWx47un3XFCFZapJKR2664bsZZ05ERlEDddeAw398G7pPQhFBUpgwjvpOza-QG-7r1vESTJxcm6xDvuVuIjcXe-wvNzdlO1v-tpU9Tszr6McM3WJa_OzKTywASMeQlYa3h97g4Zdhv1RvQefdMYJBLDHt2VniNtxj5lOOejnn6T3vZDMUC23GIwi4tHC01KNNcQgQqN6dKGzz8XIO83GbMJ5G9Yd0gH1YOIjGfw2eVZTk3vA==",[643,644],{"_46":646,"_96":610},{"_46":645,"_96":610},"**Extracting relevant workflow line numbers**\n\n","**Confirming no code changes needed**\n\n",{"_328":648,"_309":310,"_330":587},{"_351":649,"_42":650,"_354":651,"_96":356},[],"rs_08ae40e4ebeab6fe016a4f4ecafd3c8198883138cd08b23ff9",[646,645],{"_328":653,"_309":310,"_330":587},{"_618":654,"_42":-5,"_596":-5,"_620":655,"_96":622},"call_5eyFEBcjWUnnXGtHY0z9t2YQ","Chunk ID: 2a5618\nWall time: 0.0009 seconds\nProcess exited with code 0\nOriginal token count: 3725\nOutput:\n\n\n# This is NOT the Next.js you know\n\nThis version has breaking changes — APIs, conventions, and file structure may all differ from your training data. Read the relevant guide in `node_modules/next/dist/docs/` before writing any code. Heed deprecation notices.\n\n\n\n\n\n## Dependency shortcut\n\nWhen the user types exactly `dependency` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for safe dependency maintenance. This is a Codex chat shortcut, not an app feature, script, automation, or CI workflow.\n\nGoal:\nUpdate direct project dependencies to the newest stable compatible versions, regenerate the existing lockfile, identify source/config/test code that relies on old dependency behavior, make the smallest safe compatibility changes, and verify the result. Do not rewrite the project, switch package managers, discard user work, commit, push, deploy, or run destructive cleanup without explicit confirmation.\n\nStart with read-only inspection:\n\n- Check branch, upstream, worktrees, recent relevant history, and `git status`.\n- If on `main`, `master`, `develop`, `release/*`, or another protected/base branch, create/switch to `codex/dependency-maintenance` before editing, if safe.\n- Inspect manifests, lockfiles, package-manager config, runtime/toolchain files, workspace layout, CI config, scripts, and documented checks.\n- Detect repo-local install/dev/test/build/watch/server processes that could race dependency updates.\n- Preserve all existing staged, unstaged, and untracked user work.\n\nPackage-manager rules:\n\n- Use the package manager already used by the repo: npm, pnpm, yarn, bun, pip, poetry, uv, cargo, go, bundler, gradle, maven, dotnet, or equivalent.\n- Do not switch package managers or create a new lockfile type.\n- Respect engines, runtime versions, lockfiles, workspaces, wrappers, and repo conventions.\n- In monorepos or polyglot repos, update each ecosystem through its native workspace-aware workflow.\n\nDependency update rules:\n\n- Identify outdated direct production and development dependencies.\n- Compare both manifest ranges and locked/installed versions against latest stable compatible releases.\n- Treat “outdated packages found” exit codes as normal where applicable.\n- Avoid prerelease, alpha, beta, canary, rc, next, nightly, and experimental versions unless the stable channel points there and explain why.\n- Do not use force or legacy flags that bypass peer, engine, resolver, or lockfile integrity checks unless explicitly approved.\n- Do not run forced audit fixes or broad destructive codemods.\n- If latest is incompatible, use the newest compatible version and document why.\n- Group risky updates coherently, such as framework plus plugins, test runner plus coverage, lint core plus plugins, or runtime plus adapter packages.\n\nCompatibility audit:\n\n- For every major update and every core framework/runtime/build/test/lint/UI/database update, inspect release notes, migration guides, peer ranges, engines, and changelogs when available.\n- Search source, tests, scripts, config, and CI for imports, APIs, CLI flags, config keys, environment variables, plugin names, generated types, or file paths tied to changed dependencies.\n- If old dependency behavior is used, make the smallest safe migration that preserves behavior.\n- If migration is large, risky, architectural, or product-affecting, stop after discovery and provide a concrete fix plan with affected files, package versions, sequence, and verification commands.\n- Add or adjust focused tests only when needed to prove migrated behavior.\n\nGenerated and sensitive files:\n\n- Do not intentionally keep dependency directories, build outputs, caches, logs, local state, test artifacts, browser artifacts, `.env*`, secrets, keys, tokens, credentials, or machine-local config.\n- Manifest and existing lockfile changes are allowed.\n\nVerification:\n\n- Run a cheap baseline first when useful to distinguish pre-existing failures.\n- After updates, run install/dependency validation, then relevant lint, type check, tests, build, smoke/UI/a11y, codegen, integration checks, or equivalent.\n- For frontend/browser-facing changes, run browser/UI verification when framework, bundler, router, styling, test runner, or browser automation changed.\n- If a check fails, fix dependency-related breakage and rerun the smallest failing check before broader checks.\n- Run non-mutating audit/vulnerability checks when available.\n- Confirm no repo-owned dev server, watcher, or temporary process was left running unless requested.\n\nFinal response for `dependency` must include:\n\n- Branch and worktree state.\n- Package manager, runtime, manifests, and lockfiles detected.\n- Outdated dependencies found.\n- Dependencies updated, old version -> new version.\n- Dependencies not updated and why.\n- Files changed.\n- Compatibility migrations and old APIs found/fixed.\n- Checks run and results.\n- Checks not run and why.\n- Audit/vulnerability summary.\n- Generated/untracked files left behind.\n- Branch movement, external repo changes, or process cleanup observed.\n- Risks or follow-up work.\n- Confirmation that no commit or push was made unless explicitly requested.\n\nAfter setup:\n\n- Verify root `AGENTS.md` contains exactly one `## Dependency shortcut` section.\n- Show the final diff for `AGENTS.md`.\n- Summarize what changed.\n- Confirm no dependency update, install, test, build, audit, commit, or push was performed.\n\n\n\n\n\n## Bug-hunter shortcut\n\nWhen the user types exactly `bug-hunter` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for targeted defect discovery.\n\nExecution rules:\n\n- Invoke the `bug-hunter` skill first.\n- Prioritize reproducible defects over code style, naming, or formatting feedback.\n- Trace realistic failure paths: invalid input, empty states, retries, race/concurrency issues, stale state/cache, network/auth failures, permissions, and boundary values.\n- For each finding, include trigger, expected behavior, actual risk, and the smallest proof (or targeted test/check) that would catch it.\n- If no high-confidence defect is found, explicitly state that and list the most likely residual risk area.\n\nScope and safety:\n\n- Keep the hunt scoped to code touched by the user request unless the defect clearly crosses module boundaries.\n- Do not make broad refactors while hunting; propose minimal fixes for confirmed issues.\n- Run the smallest focused verification for each confirmed defect, then expand only if needed.\n\n\n\n\n\n# Local server safety\n\n- If the user says `run`, execute `npm run ensure` and return the printed URL.\n- If the user asks for UI/frontend changes, browser QA, screenshots, mobile checks, or a local app link, run `npm run ensure` before opening or testing the app, even if the user did not say `run`.\n- Never assume `localhost:3000`, `localhost:3001`, or `localhost:3002`.\n- Never attach to a local server unless `/api/local-project-id` confirms it is this project.\n- Do not kill or modify other projects' local servers. If the stable project port is busy, let `npm run ensure` choose the next safe project URL.\n- Do not run a permanent watcher. Only start or verify the server when the current chat task needs the app or the user asks to run it.\n\n\n\n\n\n# Process hardening phases\n\n- For non-trivial source/config/test changes, prefer `npm run verify:cheap` as the first broad gate.\n- For UI, frontend, browser, routing, styling, reduced-motion, or forced-colors changes, run `npm run ensure` before browser work and use `npm run verify:ui` as the Chromium UI gate.\n- For release or handoff confidence, use `npm run verify:release`; this includes the full Playwright project set.\n- For clinical ingestion, answer generation, source governance, privacy, production-readiness, or environment changes, run the smallest relevant domain check plus `npm run check:production-readiness`.\n- For pull requests that touch ingestion, answer generation, search/ranking, source rendering, document access, privacy, production env, or clinical output, complete the clinical governance preflight in `.github/pull_request_template.md`.\n- Track known verification debts and staged process improvements in `docs/process-hardening.md` instead of relying on chat-only memory.\n\n\n\n\n\n# Supabase project safety\n\n- This repo targets the live Supabase project `Clinical KB Database`.\n- Expected project ref: `sjrfecxgysukkwxsowpy`.\n- Older unused project ref `qjgitjyhxrwxsrydablr` belongs to `Database`; treat it as stale and do not use it.\n- Run `npm run check:supabase-project` after changing Supabase env values.\n\n\n\n\n\n# `upload` shortcut\n\nWhen the user types exactly:\n\nupload\n\nas the entire task message, treat it as a shortcut for the safe Git handoff workflow below.\n\nThe goal is to leave useful completed work safely committed and, where safe, pushed to the current feature branch. The goal is not to merge into main, delete branches, discard work, force-push, close PRs, deploy, or perform destructive cleanup without explicit user confirmation.\n\n## Protected and base branches\n\nTreat `main`, `master`, `develop`, and `release/*` as protected/base branches for this workflow.\n\nIf `upload` is run while on `main`, automatically create or use a branch named exactly `temporary` before staging, committing, or pushing, then continue the upload workflow from `temporary`:\n\n- If neither local `temporary` nor `origin/temporary` exists, run `git switch -c temporary`.\n- If local `temporary` exists and is not checked out in another worktree, switch to it only when it is clearly safe.\n- If `origin/temporary` exists, use it only when it is clearly the matching intended branch.\n- If any `temporary` branch state is ambiguous, diverged, checked out elsewhere, or unsafe, stop and ask instead of overwriting.\n\nIf already on a non-protected feature branch, continue using that branch.\n\n## Required inspection\n\nStart with read-only inspection before making changes. Check:\n\n- Current branch or detached HEAD state\n- `git status`\n- Staged, unstaged, and untracked files\n- Recent commits relevant to the current branch\n- Remote configuration and upstream branch\n- Whether the branch is ahead, behind, or diverged\n- Whether the current branch appears protected/base\n- Other Git worktrees, if detectable\n- Available checks such as tests, lint, type check, or build scripts\n- Existing branch, commit, PR, and release-flow conventions\n\nDo not assume branch names, remotes, package managers, test commands, deployment targets, or project structure. Inspect first.\n\n## Safe actions allowed without further confirmation\n\nWhen the repository state makes it clearly safe, you may:\n\n- Stage coherent completed changes that clearly belong together\n- Create one or more logical commits with clear messages based on the diff\n- Fast-forward pull only when there are no local commits or conflict risks\n- Push the current non-protected feature branch if it has a valid upstream\n- Set an upstream for the current feature branch only when the correct remote and branch name are obvious\n- Leave the worktree clean by committing safe completed changes\n\n## Actions requiring explicit confirmation\n\nDo not perform these without asking the user first:\n\n- `git reset --hard`\n- `git clean -fd` or other destructive cleanup\n- Discarding, overwriting, or reverting uncommitted changes\n- Deleting local or remote branches\n- Renaming branches\n- Force-pushing\n- Rebasing a shared/public branch\n- Resolving divergent branch history\n- Merging into `main`, `master`, `develop`, `release/*`, or any protected/base branch\n- Closing pull requests\n- Changing GitHub default branch, branch protection, repository settings, or deployment settings\n- Modifying production data or deployment configuration\n- Committing secrets, credentials, tokens, private keys, or sensitive local configuration\n\n--- workflow ---\nname: Codex auto-resolve review comments\n\non:\n pull_request_review_comment:\n types: [created]\n\npermissions:\n contents: read\n issues: write\n pull-requests: read\n\nconcurrency:\n group: codex-autoresolve-${{ github.event.pull_request.number }}-${{ github.event.pull_request.head.sha }}\n cancel-in-progress: false\n\njobs:\n request-codex-autoresolve:\n name: Request Codex auto-resolve\n runs-on: ubuntu-latest\n if: >\n github.event.pull_request.state == 'open' &&\n contains(github.event.comment.user.login, 'chatgpt-codex-connector')\n steps:\n - name: Ask Codex to resolve review comments\n uses: actions/github-script@v7\n with:\n github-token: ${{ github.token }}\n script: |\n const pr = context.payload.pull_request;\n const reviewComment = context.payload.comment;\n\n if (reviewComment.in_reply_to_id) {\n core.notice(\"Skipping Codex auto-resolve request because the comment is a review-thread reply.\");\n return;\n }\n\n const owner = context.repo.owner;\n const repo = context.repo.repo;\n const issue_number = pr.number;\n const marker = ``;\n\n const existingComments = await github.paginate(github.rest.issues.listComments, {\n owner,\n repo,\n issue_number,\n per_page: 100,\n });\n\n if (existingComments.some((comment) => (comment.body || \"\").includes(marker))) {\n core.notice(\"Skipping duplicate Codex auto-resolve request for this PR head commit.\");\n return;\n }\n\n const prompt = [\n marker,\n ``,\n \"@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.\",\n ].join(\"\\n\\n\");\n\n await github.rest.issues.createComment({\n owner,\n repo,\n issue_number,\n body: prompt,\n });\n",{"_328":657,"_309":310,"_330":587},{"_360":658,"_362":659,"_364":660,"_366":367,"_314":32,"_368":32,"_42":654,"_370":661,"_372":373,"_321":117,"_96":374},"\n\n# This is NOT the Next.js you know\n\nThis version has breaking changes — APIs, conventions, and file structure may all differ from your training data. Read the relevant guide in `node_modules/next/dist/docs/` before writing any code. Heed deprecation notices.\n\n\n\n\n\n## Dependency shortcut\n\nWhen the user types exactly `dependency` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for safe dependency maintenance. This is a Codex chat shortcut, not an app feature, script, automation, or CI workflow.\n\nGoal:\nUpdate direct project dependencies to the newest stable compatible versions, regenerate the existing lockfile, identify source/config/test code that relies on old dependency behavior, make the smallest safe compatibility changes, and verify the result. Do not rewrite the project, switch package managers, discard user work, commit, push, deploy, or run destructive cleanup without explicit confirmation.\n\nStart with read-only inspection:\n\n- Check branch, upstream, worktrees, recent relevant history, and `git status`.\n- If on `main`, `master`, `develop`, `release/*`, or another protected/base branch, create/switch to `codex/dependency-maintenance` before editing, if safe.\n- Inspect manifests, lockfiles, package-manager config, runtime/toolchain files, workspace layout, CI config, scripts, and documented checks.\n- Detect repo-local install/dev/test/build/watch/server processes that could race dependency updates.\n- Preserve all existing staged, unstaged, and untracked user work.\n\nPackage-manager rules:\n\n- Use the package manager already used by the repo: npm, pnpm, yarn, bun, pip, poetry, uv, cargo, go, bundler, gradle, maven, dotnet, or equivalent.\n- Do not switch package managers or create a new lockfile type.\n- Respect engines, runtime versions, lockfiles, workspaces, wrappers, and repo conventions.\n- In monorepos or polyglot repos, update each ecosystem through its native workspace-aware workflow.\n\nDependency update rules:\n\n- Identify outdated direct production and development dependencies.\n- Compare both manifest ranges and locked/installed versions against latest stable compatible releases.\n- Treat “outdated packages found” exit codes as normal where applicable.\n- Avoid prerelease, alpha, beta, canary, rc, next, nightly, and experimental versions unless the stable channel points there and explain why.\n- Do not use force or legacy flags that bypass peer, engine, resolver, or lockfile integrity checks unless explicitly approved.\n- Do not run forced audit fixes or broad destructive codemods.\n- If latest is incompatible, use the newest compatible version and document why.\n- Group risky updates coherently, such as framework plus plugins, test runner plus coverage, lint core plus plugins, or runtime plus adapter packages.\n\nCompatibility audit:\n\n- For every major update and every core framework/runtime/build/test/lint/UI/database update, inspect release notes, migration guides, peer ranges, engines, and changelogs when available.\n- Search source, tests, scripts, config, and CI for imports, APIs, CLI flags, config keys, environment variables, plugin names, generated types, or file paths tied to changed dependencies.\n- If old dependency behavior is used, make the smallest safe migration that preserves behavior.\n- If migration is large, risky, architectural, or product-affecting, stop after discovery and provide a concrete fix plan with affected files, package versions, sequence, and verification commands.\n- Add or adjust focused tests only when needed to prove migrated behavior.\n\nGenerated and sensitive files:\n\n- Do not intentionally keep dependency directories, build outputs, caches, logs, local state, test artifacts, browser artifacts, `.env*`, secrets, keys, tokens, credentials, or machine-local config.\n- Manifest and existing lockfile changes are allowed.\n\nVerification:\n\n- Run a cheap baseline first when useful to distinguish pre-existing failures.\n- After updates, run install/dependency validation, then relevant lint, type check, tests, build, smoke/UI/a11y, codegen, integration checks, or equivalent.\n- For frontend/browser-facing changes, run browser/UI verification when framework, bundler, router, styling, test runner, or browser automation changed.\n- If a check fails, fix dependency-related breakage and rerun the smallest failing check before broader checks.\n- Run non-mutating audit/vulnerability checks when available.\n- Confirm no repo-owned dev server, watcher, or temporary process was left running unless requested.\n\nFinal response for `dependency` must include:\n\n- Branch and worktree state.\n- Package manager, runtime, manifests, and lockfiles detected.\n- Outdated dependencies found.\n- Dependencies updated, old version -> new version.\n- Dependencies not updated and why.\n- Files changed.\n- Compatibility migrations and old APIs found/fixed.\n- Checks run and results.\n- Checks not run and why.\n- Audit/vulnerability summary.\n- Generated/untracked files left behind.\n- Branch movement, external repo changes, or process cleanup observed.\n- Risks or follow-up work.\n- Confirmation that no commit or push was made unless explicitly requested.\n\nAfter setup:\n\n- Verify root `AGENTS.md` contains exactly one `## Dependency shortcut` section.\n- Show the final diff for `AGENTS.md`.\n- Summarize what changed.\n- Confirm no dependency update, install, test, build, audit, commit, or push was performed.\n\n\n\n\n\n## Bug-hunter shortcut\n\nWhen the user types exactly `bug-hunter` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for targeted defect discovery.\n\nExecution rules:\n\n- Invoke the `bug-hunter` skill first.\n- Prioritize reproducible defects over code style, naming, or formatting feedback.\n- Trace realistic failure paths: invalid input, empty states, retries, race/concurrency issues, stale state/cache, network/auth failures, permissions, and boundary values.\n- For each finding, include trigger, expected behavior, actual risk, and the smallest proof (or targeted test/check) that would catch it.\n- If no high-confidence defect is found, explicitly state that and list the most likely residual risk area.\n\nScope and safety:\n\n- Keep the hunt scoped to code touched by the user request unless the defect clearly crosses module boundaries.\n- Do not make broad refactors while hunting; propose minimal fixes for confirmed issues.\n- Run the smallest focused verification for each confirmed defect, then expand only if needed.\n\n\n\n\n\n# Local server safety\n\n- If the user says `run`, execute `npm run ensure` and return the printed URL.\n- If the user asks for UI/frontend changes, browser QA, screenshots, mobile checks, or a local app link, run `npm run ensure` before opening or testing the app, even if the user did not say `run`.\n- Never assume `localhost:3000`, `localhost:3001`, or `localhost:3002`.\n- Never attach to a local server unless `/api/local-project-id` confirms it is this project.\n- Do not kill or modify other projects' local servers. If the stable project port is busy, let `npm run ensure` choose the next safe project URL.\n- Do not run a permanent watcher. Only start or verify the server when the current chat task needs the app or the user asks to run it.\n\n\n\n\n\n# Process hardening phases\n\n- For non-trivial source/config/test changes, prefer `npm run verify:cheap` as the first broad gate.\n- For UI, frontend, browser, routing, styling, reduced-motion, or forced-colors changes, run `npm run ensure` before browser work and use `npm run verify:ui` as the Chromium UI gate.\n- For release or handoff confidence, use `npm run verify:release`; this includes the full Playwright project set.\n- For clinical ingestion, answer generation, source governance, privacy, production-readiness, or environment changes, run the smallest relevant domain check plus `npm run check:production-readiness`.\n- For pull requests that touch ingestion, answer generation, search/ranking, source rendering, document access, privacy, production env, or clinical output, complete the clinical governance preflight in `.github/pull_request_template.md`.\n- Track known verification debts and staged process improvements in `docs/process-hardening.md` instead of relying on chat-only memory.\n\n\n\n\n\n# Supabase project safety\n\n- This repo targets the live Supabase project `Clinical KB Database`.\n- Expected project ref: `sjrfecxgysukkwxsowpy`.\n- Older unused project ref `qjgitjyhxrwxsrydablr` belongs to `Database`; treat it as stale and do not use it.\n- Run `npm run check:supabase-project` after changing Supabase env values.\n\n\n\n\n\n# `upload` shortcut\n\nWhen the user types exactly:\n\nupload\n\nas the entire task message, treat it as a shortcut for the safe Git handoff workflow below.\n\nThe goal is to leave useful completed work safely committed and, where safe, pushed to the current feature branch. The goal is not to merge into main, delete branches, discard work, force-push, close PRs, deploy, or perform destructive cleanup without explicit user confirmation.\n\n## Protected and base branches\n\nTreat `main`, `master`, `develop`, and `release/*` as protected/base branches for this workflow.\n\nIf `upload` is run while on `main`, automatically create or use a branch named exactly `temporary` before staging, committing, or pushing, then continue the upload workflow from `temporary`:\n\n- If neither local `temporary` nor `origin/temporary` exists, run `git switch -c temporary`.\n- If local `temporary` exists and is not checked out in another worktree, switch to it only when it is clearly safe.\n- If `origin/temporary` exists, use it only when it is clearly the matching intended branch.\n- If any `temporary` branch state is ambiguous, diverged, checked out elsewhere, or unsafe, stop and ask instead of overwriting.\n\nIf already on a non-protected feature branch, continue using that branch.\n\n## Required inspection\n\nStart with read-only inspection before making changes. Check:\n\n- Current branch or detached HEAD state\n- `git status`\n- Staged, unstaged, and untracked files\n- Recent commits relevant to the current branch\n- Remote configuration and upstream branch\n- Whether the branch is ahead, behind, or diverged\n- Whether the current branch appears protected/base\n- Other Git worktrees, if detectable\n- Available checks such as tests, lint, type check, or build scripts\n- Existing branch, commit, PR, and release-flow conventions\n\nDo not assume branch names, remotes, package managers, test commands, deployment targets, or project structure. Inspect first.\n\n## Safe actions allowed without further confirmation\n\nWhen the repository state makes it clearly safe, you may:\n\n- Stage coherent completed changes that clearly belong together\n- Create one or more logical commits with clear messages based on the diff\n- Fast-forward pull only when there are no local commits or conflict risks\n- Push the current non-protected feature branch if it has a valid upstream\n- Set an upstream for the current feature branch only when the correct remote and branch name are obvious\n- Leave the worktree clean by committing safe completed changes\n\n## Actions requiring explicit confirmation\n\nDo not perform these without asking the user first:\n\n- `git reset --hard`\n- `git clean -fd` or other destructive cleanup\n- Discarding, overwriting, or reverting uncommitted changes\n- Deleting local or remote branches\n- Renaming branches\n- Force-pushing\n- Rebasing a shared/public branch\n- Resolving divergent branch history\n- Merging into `main`, `master`, `develop`, `release/*`, or any protected/base branch\n- Closing pull requests\n- Changing GitHub default branch, branch protection, repository settings, or deployment settings\n- Modifying production data or deployment configuration\n- Committing secrets, credentials, tokens, private keys, or sensitive local configuration\n\n--- workflow ---\nname: Codex auto-resolve review comments\n\non:\n pull_request_review_comment:\n types: [created]\n\npermissions:\n contents: read\n issues: write\n pull-requests: read\n\nconcurrency:\n group: codex-autoresolve-${{ github.event.pull_request.number }}-${{ github.event.pull_request.head.sha }}\n cancel-in-progress: false\n\njobs:\n request-codex-autoresolve:\n name: Request Codex auto-resolve\n runs-on: ubuntu-latest\n if: >\n github.event.pull_request.state == 'open' &&\n contains(github.event.comment.user.login, 'chatgpt-codex-connector')\n steps:\n - name: Ask Codex to resolve review comments\n uses: actions/github-script@v7\n with:\n github-token: ${{ github.token }}\n script: |\n const pr = context.payload.pull_request;\n const reviewComment = context.payload.comment;\n\n if (reviewComment.in_reply_to_id) {\n core.notice(\"Skipping Codex auto-resolve request because the comment is a review-thread reply.\");\n return;\n }\n\n const owner = context.repo.owner;\n const repo = context.repo.repo;\n const issue_number = pr.number;\n const marker = ``;\n\n const existingComments = await github.paginate(github.rest.issues.listComments, {\n owner,\n repo,\n issue_number,\n per_page: 100,\n });\n\n if (existingComments.some((comment) => (comment.body || \"\").includes(marker))) {\n core.notice(\"Skipping duplicate Codex auto-resolve request for this PR head commit.\");\n return;\n }\n\n const prompt = [\n marker,\n ``,\n \"@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.\",\n ].join(\"\\n\\n\");\n\n await github.rest.issues.createComment({\n owner,\n repo,\n issue_number,\n body: prompt,\n });\n","/bin/bash -lc \"sed -n '1,220p' AGENTS.md && printf '\\\\n--- workflow ---\\\\n' && sed -n '1,240p' .github/workflows/codex-autofix-review-comments.yml && git diff --stat\"",[662],"25914",{"_362":663,"_96":631},"sed -n '1,220p' AGENTS.md && printf '\\n--- workflow ---\\n' && sed -n '1,240p' .github/workflows/codex-autofix-review-comments.yml && git diff --stat",{"_328":665,"_309":310,"_330":587},{"_634":666,"_618":654,"_42":-5,"_596":-5,"_247":636,"_637":-5,"_96":638},"{\"cmd\":\"sed -n '1,220p' AGENTS.md && printf '\\\\n--- workflow ---\\\\n' && sed -n '1,240p' .github/workflows/codex-autofix-review-comments.yml && git diff --stat\",\"workdir\":\"/workspace/Database\",\"yield_time_ms\":10000,\"max_output_tokens\":30000}",{"_328":668,"_309":310,"_330":587},{"_351":-5,"_605":669,"_42":-5,"_596":-5,"_354":670,"_96":356},"gAAAAABqT07IAvNXIkWRcOnvmZR-GXyRYOT_2p2mhF8AcKM4cQstnQttx3-Yx-5Z6hVJUwUQlPRKMFFvXRadnCNo1A4rvEsEK0d4KPs7YoKPwbnkCf5YWcPg95tIaZc6TLiCntlGFZ1GPIAhWLtWIEsRIatTRg9ovD6S4xY4srn4h4UhNtuJl9JxAtaWgjT8zF6WVR26gQO46MAMK-8hUa29RSXOjh7WX6ocAGEIw8tGK6zmSq773Aw-H0LfP6TRriNlJE8S66MT2SZA5mYXGR0q7m0966pRthpq3VX0Dxmk3npIC-h5hjIpEwGAgSr22VK5oKKw0SxMZrKaBZ4MljdBAdfO2T_fy7vxfWXyrDi4glYIxLq0KnBKke-DbFdwCUfDJu2Q4RQ-PW0mr1KKSBDIb7U6ZCRqDX0TSnIGHuYu0hAoZKsJFqO2mt9fZrHRmjgGOL3QqmMLZffif5svdrClqP6MQEhghelfMAx8Wsw3JKh-XTAClqzZz-D5I4Sn0dsajyl9nwtYvod2-tfxAaa2J9cp0AwqRuRaG2P4Aynfs1obkaQjzBbDVoIWpgAkpps1j2qC_kvVuGwUlbj1kJJR7ZqAVDPTmn2sjukHurirEF9YTGwQip_vNWaopyRKrYG9lnxM3Eon-157mhLBt23X1EJG9rCeJjTVsQtoU3uVzVvxyiUGofNLiAU4EOhTTradxZTlVD-5y-RG_a8Xi5PRdMpgLOzAIL6huQk1DBKMKUlQUEVuSKyg1Lk4086P039FJF8uXkZzHfrwdWWeunOF8-EMNZ5Ps9NxiLBuSX6gLG3BF9PNEkFhQzV-bPc_OXteZubGj1HK-aXIWixO8Y0ZqtHHH2fi-0PafVmq-4EDoZVk-R-lA-z6vGbMzTdHrjHxK52LzD2B2mX_cQhjiX3gD5cCTsgsUsTyu3VSHb3B1-YcVpI-6_OtBYUUBCWLp-zm7kQC2eh-pXrmNTx1Uly-hFeLUWwxkE_9q6ztX5xwZeQYXBvHSqfRojZxGjp00T3N-7q3F34nEs3IUL5gF8hM3CGEFVfyy0lnJGtj3niXLNpO18Wijc4QAYbGcJaz3tADjtdj11rARHc4JMdowO_HfUlflLb4dDcWogPbKB2R8LOaDgqLKctrP43qT58CqMrY5nWPXw-ea4uf7NHR_eqF-D3TelhdYU4tTrcFkSH_MbnvNGFbOwhbMHlJJpe4lm3LUUGcM6hEro1kJhNIBLCMRwipg6dU5JXVhqtmhhseixlTeCCwmCR5Oom-pZ-9Ei-b-jNqQU3cWxnnO2YESu2VTRMMx-tSSh-WbhsaNJ62xUFbaYh50P3GL-IpQpB8MRa0PVj92NETokYcRcHrlSEKbsyNoDcJ4NY73gaFppRRE3Gz9BQhAWdNqEe2S1wbEXekDXBAG6RXrmzpC45jm4UEax07o82hbBGn5T6Wo6BRT6KNQzyDxvHnKVtowUrU4GIC7ZF6sP4oUvnymHBZoJ__UMn2Q_xBnwe_WL6UmBrdNo-CBCO09YSkn73PUpqrgskwqL53o68gBK5A96R1hyMLzFwqYDpudL9EzJ59-b_vhcvYlcKJKEhSsZSm2WmSq_LdqFTNb9-P",[671],{"_46":672,"_96":610},"**Planning commit and PR actions**\n\n",{"_328":674,"_309":310,"_330":587},{"_351":675,"_42":676,"_354":677,"_96":356},[],"rs_08ae40e4ebeab6fe016a4f4ec647c0819895015348abc217fe",[672],{"_328":679,"_309":310,"_330":587},{"_618":680,"_42":-5,"_596":-5,"_620":681,"_96":622},"call_FMMMZqYQyM4t8V0YWZVFV3lT","Chunk ID: 5a4f1f\nWall time: 0.0000 seconds\nProcess exited with code 0\nOriginal token count: 91\nOutput:\n/workspace/Database\n../Database/AGENTS.md\n## work\nwork\ncb329f8 Add Codex review comment auto-resolve bridge\n49cbd22 Merge pull request #421 from BigSimmo/cursor/loose-ends-edge-to-edge-main-470d\n4f4838a fix(ci): require RAG_QUERY_HASH_SECRET for deployment boot smoke (#429)\ncb3ed0c fix: apply CodeRabbit auto-fixes\n2c0d4fa fix: apply CodeRabbit auto-fixes (#432)\n",{"_328":683,"_309":310,"_330":587},{"_360":684,"_362":685,"_364":686,"_366":367,"_314":32,"_368":32,"_42":680,"_370":687,"_372":373,"_321":117,"_96":374},"/workspace/Database\n../Database/AGENTS.md\n## work\nwork\ncb329f8 Add Codex review comment auto-resolve bridge\n49cbd22 Merge pull request #421 from BigSimmo/cursor/loose-ends-edge-to-edge-main-470d\n4f4838a fix(ci): require RAG_QUERY_HASH_SECRET for deployment boot smoke (#429)\ncb3ed0c fix: apply CodeRabbit auto-fixes\n2c0d4fa fix: apply CodeRabbit auto-fixes (#432)\n","/bin/bash -lc 'pwd && find .. -name AGENTS.md -print && git status --short --branch && git branch --show-current && git log --oneline -5'",[688],"31134",{"_362":689,"_96":631},"pwd && find .. -name AGENTS.md -print && git status --short --branch && git branch --show-current && git log --oneline -5",{"_328":691,"_309":310,"_330":587},{"_634":692,"_618":680,"_42":-5,"_596":-5,"_247":636,"_637":-5,"_96":638},"{\"cmd\": \"pwd && find .. -name AGENTS.md -print && git status --short --branch && git branch --show-current && git log --oneline -5\", \"workdir\": \"/workspace/Database\", \"yield_time_ms\": 10000, \"max_output_tokens\": 20000}",{"_328":694,"_309":310,"_330":587},{"_351":-5,"_605":695,"_42":-5,"_596":-5,"_354":696,"_96":356},"gAAAAABqT07EnMwhr5NtzVC-0Y7LEShepNpFgzU7pwDfFiULi1u2X2YewZ1dl0YQE8bpfJUszzwzD3NuRKTdEox5iGJeuNTFURBjr5JaoTQm4hKsR9c4p5hS0qQksejSDD7L0tyvij0VfqWnObVoSdIHP37jyJD7lDWXLWMXrOBtCVVyURORWb2DlMVSMy5EfRKdn-A3sf16X7dJ3UnZH6Xzp0NYmuRqc4cZXTvihKJj6Q4ULbaU4urBruYW3a2b3nQB4i2p3_XL4SKy0BQb5WFpzWRG3-yOwkIwKJMJvNBZpn7ro4np-OjR-dR2niSuKw0Oc4FqjtVci0SqOor3RX1s422qNjKoHq-q9YGnBaRa20a1xZoYkX_sK2XN3ZAG28XBjUFtJZjqve8tsyMb_i1HcZM9Q7d0_97_y4Zqy_TTL5bb8bbXhlUd4ESoFH_Mif6btTa3Tl2yLhEu52EM1VgBlhXzLsZPgqFFgE3R86229acDydaqopx4C0W-rAlgqWI_Hs6JstIMqbZUSiBKKciv5jreyXUOJ_6zPqAtcGPihtl_QSfKKzR8mjOexdPQOOIevG8kolhbzYYdLGRmSoV6FZ4rUrGrJOxv2BlEv15e5jBbLyJCH2oLQD7dJp1WpW2huXlbXpcUBbHv4iJtjCz8kNufsQUQI6p96flwX0tU05BKrXEql-3WoTPadahv4_JhONyTkaw5nxF3iQ_uS6zR6yGD8_AvVThONgduibdXB2blNg_7xGEix6BPz-7lI8y7f9QDdyhTVOSV7TlXqjPRE2Wpac6zJD2wRT4HshWh4E3VHrJqa5oWmz0xhR3mJ2_CXim428PRVp_XPwx4nHXbB7UXpxXb17Y6TgNGZoCmfM4MysAVfgTUOzS0yvZVk9397I4_z5k29or6H4JYlqySripVD6ibgkcgGzqxwAqtrmaMIeXsZqizWEbuR6V0JqYgFCEsfPrReUlwJqzAIBvQHlkNAFs9uvGo7w1-Ds8sYcyI3LdefsNEbe_PV7qQCm1ou1d9_Z4auSiBsn0shCy4MD2VFGVlLLrSOqrcCUJyc_hCGgqVYDsu3AV4zLC4BCuvCFX5fFxhKr2vLMuQzk6BCm6ZHikAFA==",[697],{"_46":698,"_96":610},"**Reviewing PR summary for follow-up**\n\n",{"_328":700,"_309":310,"_330":587},{"_351":701,"_42":702,"_354":703,"_96":356},[],"rs_08ae40e4ebeab6fe016a4f4ec3094081988944923cc9c5c93b",[698],{"_328":705,"_309":310,"_330":587},{"_387":-5,"_351":706,"_42":707,"_96":390},[708],"44969e5e-603a-4265-97b7-a65b878bad03",{"_46":709,"_393":710,"_96":46},"\nYou are Codex, assisting with follow-up actions on a GitHub pull request.\n\nInput blocks\n------------\n… # The comment or event that invoked you\n… # PR metadata (title, branches, SHAs, status, etc.)\n… # Comments / Reviews for the PR\n\nPossible triggers\n• A user mentions you (@codex)\n• A reviewer requests changes\n• An automated or internal system asks you to review / update\n\nGuidelines\n1. Read the block first and treat it as the primary intent.\n2. Always consult and to interpret and validate the trigger; use only context that materially affects your decision and ignore the rest.\n3. If the trigger comes from a comment thread, the first block will be combined earlier comments from the same thread, clearly indicated with `Comments in the same thread`.\n4. Remaining blocks are in chronological order, oldest first, one block per comment.\n5. When the trigger relates to CI/build status (e.g., “help me fix CI”), incorporate CI/status details found in as supporting context.\n6. If code change is needed, generate a **new** PR with the requested changes. The PR title and message should summarize the changes **on top** of the original pull request.\n## Summary\n\nAdds no-API-key Codex auto-resolve bridge for review comments:\n\n- Adds `.github/workflows/codex-autofix-review-comments.yml`.\n- Adds Database-specific Codex review/fix behavior to `AGENTS.md`.\n- The workflow listens for top-level `chatgpt-codex-connector` inline review comments and posts the primary `@codex resolve all review comments...` command once per PR head commit.\n\n## Behavior\n\n- P0/P1: Codex is instructed to fix with the best minimal change.\n- P2/lower: Codex is instructed to decide whether each issue is worth fixing automatically; if not, comment why and resolve or mark ready for human resolution.\n- Reply guard: review-thread replies are skipped to avoid loops.\n- Duplicate guard: hidden marker prevents repeated auto-resolve requests for the same PR head SHA.\n- No API key: this does not use `openai/codex-action`, `OPENAI_API_KEY`, or direct OpenAI API calls.\n\n## Repository setting changed\n\nSet Database GitHub Actions workflow permissions to write so the workflow can post the `@codex` command comment:\n\n- `default_workflow_permissions=write`\n- `can_approve_pull_request_reviews=true`\n\n## Validation\n\n- `git diff --check`\n- Local workflow content check for review-comment trigger, Codex bot guard, reply guard, duplicate marker, primary `@codex resolve...` command, and absence of OpenAI API-key/Codex Action usage\n\n## Remaining activation requirement\n\nCodex automatic reviews still need to be enabled for this repo in Codex Cloud settings. This PR cannot change the Codex Cloud settings page.\n\n## Remaining risk\n\nThis bridge depends on Codex Cloud responding to an `@codex` command posted by `github-actions[bot]`. If Codex ignores bot-authored commands, the fallback is a direct `openai/codex-action` workflow, but that requires an `OPENAI_API_KEY` and explicit API/cost approval.{\"title\":\"Add Codex review comment auto-resolve bridge\",\"body\":\"## Summary\\n\\nAdds no-API-key Codex auto-resolve bridge for review comments:\\n\\n- Adds `.github/workflows/codex-autofix-review-comments.yml`.\\n- Adds Database-specific Codex review/fix behavior to `AGENTS.md`.\\n- The workflow listens for top-level `chatgpt-codex-connector` inline review comments and posts the primary `@codex resolve all review comments...` command once per PR head commit.\\n\\n## Behavior\\n\\n- P0/P1: Codex is instructed to fix with the best minimal change.\\n- P2/lower: Codex is instructed to decide whether each issue is worth fixing automatically; if not, comment why and resolve or mark ready for human resolution.\\n- Reply guard: review-thread replies are skipped to avoid loops.\\n- Duplicate guard: hidden marker prevents repeated auto-resolve requests for the same PR head SHA.\\n- No API key: this does not use `openai/codex-action`, `OPENAI_API_KEY`, or direct OpenAI API calls.\\n\\n## Repository setting changed\\n\\nSet Database GitHub Actions workflow permissions to write so the workflow can post the `@codex` command comment:\\n\\n- `default_workflow_permissions=write`\\n- `can_approve_pull_request_reviews=true`\\n\\n## Validation\\n\\n- `git diff --check`\\n- Local workflow content check for review-comment trigger, Codex bot guard, reply guard, duplicate marker, primary `@codex resolve...` command, and absence of OpenAI API-key/Codex Action usage\\n\\n## Remaining activation requirement\\n\\nCodex automatic reviews still need to be enabled for this repo in Codex Cloud settings. This PR cannot change the Codex Cloud settings page.\\n\\n## Remaining risk\\n\\nThis bridge depends on Codex Cloud responding to an `@codex` command posted by `github-actions[bot]`. If Codex ignores bot-authored commands, the fallback is a direct `openai/codex-action` workflow, but that requires an `OPENAI_API_KEY` and explicit API/cost approval.\",\"base_ref\":\"49cbd226fb56662cb32599f98bacc9600585dbdf\",\"head_ref\":\"cb329f8261ddbb78fb7c80e4add510e47196c3a2\",\"merge_commit_sha\":null,\"type\":\"pull_request_info\"}",[],{"_328":712,"_309":310,"_330":587},{"_351":713,"_419":-5,"_42":-5,"_596":-5,"_332":-5,"_100":434,"_96":446},[714],{"_46":709,"_96":715},"input_text",{"_328":717,"_309":310,"_330":587},{"_351":718,"_419":-5,"_42":-5,"_596":-5,"_332":-5,"_100":434,"_96":446},[719,720],{"_46":722,"_96":715},{"_46":721,"_96":715},"\n /workspace/Database\n bash\n 2026-07-09\n Etc/UTC\n","# AGENTS.md instructions for /workspace/Database\n\n\n\n\n# This is NOT the Next.js you know\n\nThis version has breaking changes — APIs, conventions, and file structure may all differ from your training data. Read the relevant guide in `node_modules/next/dist/docs/` before writing any code. Heed deprecation notices.\n\n\n\n\n\n## Dependency shortcut\n\nWhen the user types exactly `dependency` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for safe dependency maintenance. This is a Codex chat shortcut, not an app feature, script, automation, or CI workflow.\n\nGoal:\nUpdate direct project dependencies to the newest stable compatible versions, regenerate the existing lockfile, identify source/config/test code that relies on old dependency behavior, make the smallest safe compatibility changes, and verify the result. Do not rewrite the project, switch package managers, discard user work, commit, push, deploy, or run destructive cleanup without explicit confirmation.\n\nStart with read-only inspection:\n\n- Check branch, upstream, worktrees, recent relevant history, and `git status`.\n- If on `main`, `master`, `develop`, `release/*`, or another protected/base branch, create/switch to `codex/dependency-maintenance` before editing, if safe.\n- Inspect manifests, lockfiles, package-manager config, runtime/toolchain files, workspace layout, CI config, scripts, and documented checks.\n- Detect repo-local install/dev/test/build/watch/server processes that could race dependency updates.\n- Preserve all existing staged, unstaged, and untracked user work.\n\nPackage-manager rules:\n\n- Use the package manager already used by the repo: npm, pnpm, yarn, bun, pip, poetry, uv, cargo, go, bundler, gradle, maven, dotnet, or equivalent.\n- Do not switch package managers or create a new lockfile type.\n- Respect engines, runtime versions, lockfiles, workspaces, wrappers, and repo conventions.\n- In monorepos or polyglot repos, update each ecosystem through its native workspace-aware workflow.\n\nDependency update rules:\n\n- Identify outdated direct production and development dependencies.\n- Compare both manifest ranges and locked/installed versions against latest stable compatible releases.\n- Treat “outdated packages found” exit codes as normal where applicable.\n- Avoid prerelease, alpha, beta, canary, rc, next, nightly, and experimental versions unless the stable channel points there and explain why.\n- Do not use force or legacy flags that bypass peer, engine, resolver, or lockfile integrity checks unless explicitly approved.\n- Do not run forced audit fixes or broad destructive codemods.\n- If latest is incompatible, use the newest compatible version and document why.\n- Group risky updates coherently, such as framework plus plugins, test runner plus coverage, lint core plus plugins, or runtime plus adapter packages.\n\nCompatibility audit:\n\n- For every major update and every core framework/runtime/build/test/lint/UI/database update, inspect release notes, migration guides, peer ranges, engines, and changelogs when available.\n- Search source, tests, scripts, config, and CI for imports, APIs, CLI flags, config keys, environment variables, plugin names, generated types, or file paths tied to changed dependencies.\n- If old dependency behavior is used, make the smallest safe migration that preserves behavior.\n- If migration is large, risky, architectural, or product-affecting, stop after discovery and provide a concrete fix plan with affected files, package versions, sequence, and verification commands.\n- Add or adjust focused tests only when needed to prove migrated behavior.\n\nGenerated and sensitive files:\n\n- Do not intentionally keep dependency directories, build outputs, caches, logs, local state, test artifacts, browser artifacts, `.env*`, secrets, keys, tokens, credentials, or machine-local config.\n- Manifest and existing lockfile changes are allowed.\n\nVerification:\n\n- Run a cheap baseline first when useful to distinguish pre-existing failures.\n- After updates, run install/dependency validation, then relevant lint, type check, tests, build, smoke/UI/a11y, codegen, integration checks, or equivalent.\n- For frontend/browser-facing changes, run browser/UI verification when framework, bundler, router, styling, test runner, or browser automation changed.\n- If a check fails, fix dependency-related breakage and rerun the smallest failing check before broader checks.\n- Run non-mutating audit/vulnerability checks when available.\n- Confirm no repo-owned dev server, watcher, or temporary process was left running unless requested.\n\nFinal response for `dependency` must include:\n\n- Branch and worktree state.\n- Package manager, runtime, manifests, and lockfiles detected.\n- Outdated dependencies found.\n- Dependencies updated, old version -> new version.\n- Dependencies not updated and why.\n- Files changed.\n- Compatibility migrations and old APIs found/fixed.\n- Checks run and results.\n- Checks not run and why.\n- Audit/vulnerability summary.\n- Generated/untracked files left behind.\n- Branch movement, external repo changes, or process cleanup observed.\n- Risks or follow-up work.\n- Confirmation that no commit or push was made unless explicitly requested.\n\nAfter setup:\n\n- Verify root `AGENTS.md` contains exactly one `## Dependency shortcut` section.\n- Show the final diff for `AGENTS.md`.\n- Summarize what changed.\n- Confirm no dependency update, install, test, build, audit, commit, or push was performed.\n\n\n\n\n\n## Bug-hunter shortcut\n\nWhen the user types exactly `bug-hunter` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for targeted defect discovery.\n\nExecution rules:\n\n- Invoke the `bug-hunter` skill first.\n- Prioritize reproducible defects over code style, naming, or formatting feedback.\n- Trace realistic failure paths: invalid input, empty states, retries, race/concurrency issues, stale state/cache, network/auth failures, permissions, and boundary values.\n- For each finding, include trigger, expected behavior, actual risk, and the smallest proof (or targeted test/check) that would catch it.\n- If no high-confidence defect is found, explicitly state that and list the most likely residual risk area.\n\nScope and safety:\n\n- Keep the hunt scoped to code touched by the user request unless the defect clearly crosses module boundaries.\n- Do not make broad refactors while hunting; propose minimal fixes for confirmed issues.\n- Run the smallest focused verification for each confirmed defect, then expand only if needed.\n\n\n\n\n\n# Local server safety\n\n- If the user says `run`, execute `npm run ensure` and return the printed URL.\n- If the user asks for UI/frontend changes, browser QA, screenshots, mobile checks, or a local app link, run `npm run ensure` before opening or testing the app, even if the user did not say `run`.\n- Never assume `localhost:3000`, `localhost:3001`, or `localhost:3002`.\n- Never attach to a local server unless `/api/local-project-id` confirms it is this project.\n- Do not kill or modify other projects' local servers. If the stable project port is busy, let `npm run ensure` choose the next safe project URL.\n- Do not run a permanent watcher. Only start or verify the server when the current chat task needs the app or the user asks to run it.\n\n\n\n\n\n# Process hardening phases\n\n- For non-trivial source/config/test changes, prefer `npm run verify:cheap` as the first broad gate.\n- For UI, frontend, browser, routing, styling, reduced-motion, or forced-colors changes, run `npm run ensure` before browser work and use `npm run verify:ui` as the Chromium UI gate.\n- For release or handoff confidence, use `npm run verify:release`; this includes the full Playwright project set.\n- For clinical ingestion, answer generation, source governance, privacy, production-readiness, or environment changes, run the smallest relevant domain check plus `npm run check:production-readiness`.\n- For pull requests that touch ingestion, answer generation, search/ranking, source rendering, document access, privacy, production env, or clinical output, complete the clinical governance preflight in `.github/pull_request_template.md`.\n- Track known verification debts and staged process improvements in `docs/process-hardening.md` instead of relying on chat-only memory.\n\n\n\n\n\n# Supabase project safety\n\n- This repo targets the live Supabase project `Clinical KB Database`.\n- Expected project ref: `sjrfecxgysukkwxsowpy`.\n- Older unused project ref `qjgitjyhxrwxsrydablr` belongs to `Database`; treat it as stale and do not use it.\n- Run `npm run check:supabase-project` after changing Supabase env values.\n\n\n\n\n\n# `upload` shortcut\n\nWhen the user types exactly:\n\nupload\n\nas the entire task message, treat it as a shortcut for the safe Git handoff workflow below.\n\nThe goal is to leave useful completed work safely committed and, where safe, pushed to the current feature branch. The goal is not to merge into main, delete branches, discard work, force-push, close PRs, deploy, or perform destructive cleanup without explicit user confirmation.\n\n## Protected and base branches\n\nTreat `main`, `master`, `develop`, and `release/*` as protected/base branches for this workflow.\n\nIf `upload` is run while on `main`, automatically create or use a branch named exactly `temporary` before staging, committing, or pushing, then continue the upload workflow from `temporary`:\n\n- If neither local `temporary` nor `origin/temporary` exists, run `git switch -c temporary`.\n- If local `temporary` exists and is not checked out in another worktree, switch to it only when it is clearly safe.\n- If `origin/temporary` exists, use it only when it is clearly the matching intended branch.\n- If any `temporary` branch state is ambiguous, diverged, checked out elsewhere, or unsafe, stop and ask instead of overwriting.\n\nIf already on a non-protected feature branch, continue using that branch.\n\n## Required inspection\n\nStart with read-only inspection before making changes. Check:\n\n- Current branch or detached HEAD state\n- `git status`\n- Staged, unstaged, and untracked files\n- Recent commits relevant to the current branch\n- Remote configuration and upstream branch\n- Whether the branch is ahead, behind, or diverged\n- Whether the current branch appears protected/base\n- Other Git worktrees, if detectable\n- Available checks such as tests, lint, type check, or build scripts\n- Existing branch, commit, PR, and release-flow conventions\n\nDo not assume branch names, remotes, package managers, test commands, deployment targets, or project structure. Inspect first.\n\n## Safe actions allowed without further confirmation\n\nWhen the repository state makes it clearly safe, you may:\n\n- Stage coherent completed changes that clearly belong together\n- Create one or more logical commits with clear messages based on the diff\n- Fast-forward pull only when there are no local commits or conflict risks\n- Push the current non-protected feature branch if it has a valid upstream\n- Set an upstream for the current feature branch only when the correct remote and branch name are obvious\n- Leave the worktree clean by committing safe completed changes\n\n## Actions requiring explicit confirmation\n\nDo not perform these without asking the user first:\n\n- `git reset --hard`\n- `git clean -fd` or other destructive cleanup\n- Discarding, overwriting, or reverting uncommitted changes\n- Deleting local or remote branches\n- Renaming branches\n- Force-pushing\n- Rebasing a shared/public branch\n- Resolving divergent branch history\n- Merging into `main`, `master`, `develop`, `release/*`, or any protected/base branch\n- Closing pull requests\n- Changing GitHub default branch, branch protection, repository settings, or deployment settings\n- Modifying production data or deployment configuration\n- Committing secrets, credentials, tokens, private keys, or sensitive local configuration\n- Updating branch references where the correct replacement branch is ambiguous\n\nIf any of these seem necessary, stop and report what is risky, why it is risky, the recommended next step, and the exact confirmation needed.\n\n## Mixed, suspicious, or unsafe changes\n\nDo not automatically commit files that look like `.env` files, credentials, secrets, logs, caches, build artifacts, editor or OS files, temporary/debug files, or generated files not normally committed by this project. Report only the path and concern for possible secrets; never print secret values.\n\nIf changes appear unrelated, incomplete, experimental, or WIP, do not commit everything together automatically. Commit only clearly coherent completed changes when safe; otherwise summarize the groups and ask what should be included.\n\n## Branch cleanup and reference updates\n\nIf stale, inappropriate, merged, or unnecessary branches are detected, list cleanup candidates but do not delete or rename branches automatically.\n\nBefore recommending deletion or rename, audit accessible references including `.github/workflows/*`, CI/CD config, deployment config, scripts, package scripts, docs, release notes or release scripts, safe environment/config files, branch-specific config, open PR metadata if accessible, and GitHub branch protection/default branch metadata if safely accessible.\n\nUpdate repo-tracked references to a renamed or replacement branch only when the old branch reference is clearly found, the replacement is obvious, the change is low-risk, and the user has approved the branch rename or deletion. If the replacement is unclear, report the reference and ask what it should point to.\n\n## Syncing and verification\n\nDo not rebase, merge, or resolve remote divergence automatically. Fast-forward pulls are allowed only when clearly safe. Push only the current non-protected feature branch when clearly safe.\n\nRun the smallest relevant checks that are available and appropriate, such as tests, lint, type check, or build checks. Do not claim checks passed unless they were actually run. If checks cannot be run, explain why and state the command that would normally be used.\n\n## Final report\n\nAfter completing `upload`, summarize the current branch and worktree state, whether the worktree is clean, what changed, files committed, commit hash and message if created, whether anything was pushed, remote branch and likely PR target, checks run and results, checks not run and why, branch cleanup candidates, branch references found or updated, risky actions skipped, and exact confirmation needed for any recommended follow-up.\n\n\n\n\n\n## Codex productivity defaults\n\n- Treat terse prompts as workflow shortcuts when the intent is clear. If the user says `run`, execute `npm run ensure`, verify the project identity through that helper, and return the printed local URL without a long log dump.\n- For non-trivial changes, start from concrete repo state: branch, `git status`, relevant package scripts, recent failures, and local logs such as `dev-server.log` when runtime behavior is involved. For architecture and module orientation, read `docs/codebase-index.md` (routes: `docs/site-map.md`).\n- For UI, browser, styling, routing, accessibility, or screenshot work, run `npm run ensure` before opening the app, then use browser QA and the smallest relevant UI proof before broader gates.\n- Prefer the smallest failing check first. For this repo, use focused Vitest or Playwright targets before widening to `npm run verify:cheap`, `npm run verify:ui`, or `npm run verify:release`.\n- When the user says `safely`, preserve unrelated staged, unstaged, and untracked work; stop only clearly repo-owned transient processes; and verify the result instead of doing broad cleanup.\n- After auth, Supabase, ingestion, answer generation, search/ranking, clinical output, or source-governance changes, run the smallest domain check plus `npm run check:production-readiness`. Run `npm run check:supabase-project` after Supabase env/config changes.\n- For handoff, archive-safety, or upload-style requests, inspect branch/upstream/status first, run the appropriate verification gate, and only commit or push when the request explicitly asks for that workflow.\n- For codebase appraisal exports, stage outside the repo, include `EXPORT_MANIFEST.md`, exclude secrets/dependencies/build outputs/local state, and verify the archive can be opened before handoff.\n- When a repeated repo-specific workflow is discovered, update this file or ask the user whether it should be remembered.\n\n\n\n## Codex GitHub review behavior\n\nThese instructions apply to Codex GitHub pull request reviews and Codex tasks started from PR comments.\n\n- Keep automatic reviews focused and cost-conscious.\n- Prioritize high-confidence findings that affect correctness, security, privacy, data loss, auth/permissions, migrations, API contracts, production reliability, clinical behavior, source governance, or user-facing behavior.\n- Do not comment on formatting, naming, style, minor cleanup, or speculative refactors unless they create a real bug or maintainability risk.\n- Prefer fewer, stronger findings over exhaustive low-value review comments.\n- A finding must cite concrete changed code and explain the failure mode.\n- Do not suggest broad rewrites during review. Recommend the smallest change that resolves the issue.\n- Do not propose or start fixes unless explicitly asked with an `@codex fix...` or `@codex resolve...` comment, or when the repository's Codex auto-resolve workflow posts that command.\n\n### Severity calibration\n\n- P0: active security exposure, data loss/corruption already possible, severe production outage risk, credential leakage, or a critical issue that must be fixed immediately.\n- P1: security vulnerability, auth bypass, data exposure/loss, destructive migration risk, production-breaking regression, public API contract break, severe clinical/user-facing bug, or missing validation with realistic exploit/failure impact.\n- P2: important correctness bug, missing behavior test for meaningful changed behavior, edge case likely to affect users, reliability issue, unsafe assumption, or maintainability issue that will likely cause defects.\n- P3: style, naming, formatting, small cleanup, speculative improvements, or optional refactors. Avoid raising these in automatic reviews unless explicitly requested.\n\nFor GitHub automatic reviews, focus mainly on P1-level findings. If a P2 issue is important enough to block the PR, explain why it should be treated as P1.\n\n### PR risk detection\n\nWhen reviewing, identify whether the PR touches any high-risk area:\n\n- authentication or authorization\n- user data, privacy, or private document access\n- database schema, migrations, RLS, SECURITY DEFINER functions, or Supabase privileges\n- clinical answer generation, source governance, retrieval/ranking, ingestion, or document access\n- payment, billing, subscriptions, or quotas\n- public API contracts\n- production configuration or deployment behavior\n- background jobs, scheduled tasks, workers, or queue processing\n- file upload/download or generated document access\n- AI/API provider calls, paid external services, or credential-dependent workflows\n\nIf a high-risk area is touched, review more carefully for regressions, missing tests, rollback/safety notes, and conservative failure behavior.\n\n### Cost and usage control\n\nAvoid broad repeated review passes. Do not request exhaustive review behavior unless the PR touches security, auth, data loss, migrations, billing, production reliability, clinical output, source governance, or private document access. Prefer targeted validation and targeted review comments.\n\n### Fix behavior\n\nWhen explicitly asked to fix or resolve review findings:\n\n- Always fix P0 and P1 findings using the best minimal fix.\n- For P2 and lower-severity findings, decide whether the issue is worth fixing automatically.\n- Fix a P2 or lower finding only when the fix is clear, scoped, low-risk, and testable.\n- Do not automatically fix a P2 or lower finding when it requires broad refactoring, product judgment, dependency changes, credentials, paid/external APIs, large design decisions, or risky behavior changes.\n- If a P2 or lower finding is not worth fixing automatically, comment with the reason and the recommended human decision, then resolve the review conversation when supported.\n- Preserve unrelated work and avoid opportunistic refactors.\n- Do not add dependencies unless the issue cannot reasonably be fixed without one.\n- Do not change secrets, credentials, environment configuration, billing settings, deployment settings, or external service setup unless explicitly requested.\n- Do not use external APIs, paid services, credentials, secrets, live Supabase projects, or OpenAI provider calls unless explicitly authorized.\n- If a finding is ambiguous, unsafe to fix automatically, or requires a large rewrite, stop and explain the decision instead of guessing.\n- Add or update the smallest relevant test when the issue affects behavior.\n- Run the narrowest relevant validation for the touched surface before broader suites.\n- Summarize fixed issues, changed files, validation run, and any remaining human decisions.\n\n### Review comment lifecycle\n\n- Treat closing review conversations as part of the task when asked to fix or resolve comments.\n- After fixing a P0 or P1 finding, reply with the fix summary and resolve the review conversation when supported by GitHub permissions/tooling.\n- After fixing an approved P2 or lower finding, reply with the fix summary and resolve the review conversation when supported.\n- After deciding not to fix a P2 or lower finding, reply with the reason, note whether it is deferred or not actionable, and resolve the review conversation when supported.\n- Do not leave a review conversation open after it has been fixed or explicitly dispositioned.\n- If GitHub permissions/tooling do not allow resolving a review conversation, leave a clear reply that says the issue is fixed or dispositioned and that the conversation is ready for a human to resolve.\n\n### Automatic resolve trigger\n\nAutomatic Codex review is review-only by default. This repository includes `.github/workflows/codex-autofix-review-comments.yml`, which requests the resolve task automatically after Codex posts a top-level review comment.\n\n- The workflow must only trigger from Codex review bot comments on open pull requests.\n- The workflow must skip review-thread replies so Codex fix summaries do not re-trigger the workflow.\n- The workflow must ask Codex to resolve all review comments using these repository instructions.\n- The workflow must avoid duplicate requests for the same pull request head commit.\n- The workflow must not run Codex directly with API credentials.\n- P0 and P1 findings should always be fixed.\n- P2 and lower findings should be fixed only when clear, scoped, low-risk, and testable; otherwise explain the decision and resolve or mark ready for human resolution.\n\n### Primary PR command\n\n`@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.`\n\n## Cursor Cloud specific instructions\n\nDurable notes for Cloud Agents. Standard commands live in `README.md` and `package.json`; only non-obvious caveats are captured here.\n\n- Runtime: the app hard-requires Node 24.x / npm 11.x (`engine-strict`, and `scripts/dev-free-port.mjs` exits on any other major). Node 24 is installed via nvm and symlinked into `/usr/local/cargo/bin` (first entry in `PATH`) so `node`/`npm` resolve to v24 in every shell. If a shell ever resolves `/exec-daemon/node` (v22) instead, prepend `\"$HOME/.nvm/versions/node/v24.18.0/bin\"` to `PATH`.\n- Live vs demo mode: the app auto-detects. When the Supabase + OpenAI env vars below are present (set them as Cloud Agent **Secrets** so they inject into `.env.local`/`process.env`), `isDemoMode()` (`src/lib/env.ts`) is false and the app runs against the live `Clinical KB Database` project (~2000 indexed docs) with OpenAI answer generation. When they are absent, dev auto-falls back to demo mode using the synthetic corpus in `src/lib/demo-data.ts` / `public/demo-documents/`. Required for live mode: `NEXT_PUBLIC_SUPABASE_URL`, `SUPABASE_PROJECT_REF`, `SUPABASE_PROJECT_NAME`, `NEXT_PUBLIC_SUPABASE_PUBLISHABLE_KEY` (`sb_publishable_…`), `SUPABASE_SERVICE_ROLE_KEY` (accepts the `sb_secret_…` secret key), `OPENAI_API_KEY`. Keep `RAG_PROVIDER_MODE=auto` so OpenAI is used with graceful source-only fallback. `E2E_USER_EMAIL`/`E2E_USER_PASSWORD` power CI env-check and Playwright.\n- Live-mode caveat: `RAG_PROVIDER_MODE=auto` attempts OpenAI (fast → strong route); if generation fails the built-in quality gates it silently degrades to a deterministic \"Source-only\" answer that still cites real documents — this is expected, not a failure. The header sign-in UI exposes magic-link + OAuth only (no password field), but the `/api/answer` + retrieval flow works server-side without a browser session.\n- What still won't run in this VM even with secrets: `npm run worker` also needs the Python OCR stack (`worker/python/requirements.txt`) and heavy parsing deps; Supabase edge functions need Deno v2.x + deployment. `verify:release` additionally runs governance/eval gates. Treat missing-secret failures of `check:supabase-project`/`verify:release` in demo mode as expected, not regressions.\n- Dev server: `npm run dev` selects a stable per-project localhost port (e.g. `4461`), binds `0.0.0.0`, and prints the exact URL. Never assume port 3000/3001/3002. `npm run ensure` starts/verifies it in the background.\n- Verification without secrets: `npm run lint`, `npm run typecheck`, and `npm run test` (vitest) all pass offline. `npm run verify:cheap` also runs `check:runtime` + `sitemap:check` and is safe offline.\n\n",{"_328":724,"_309":310,"_330":587},{"_351":725,"_419":-5,"_42":-5,"_596":-5,"_332":-5,"_100":726,"_96":446},[727,728],"developer",{"_46":730,"_96":715},{"_46":729,"_96":715},"\n## Skills\nA skill is a set of local instructions to follow that is stored in a `SKILL.md` file. Below is the list of skills that can be used. Each entry includes a name, description, and file path so you can open the source for full instructions when using a specific skill.\n### Available skills\n- imagegen: Generate or edit raster images when the task benefits from AI-created bitmap visuals such as photos, illustrations, textures, sprites, mockups, or transparent-background cutouts. Use when Codex should create a brand-new image, transform an existing image, or derive visual variants from references, and the output should be a bitmap asset rather than repo-native code or vector. Do not use when the task is better handled by editing existing SVG/vector/code-native assets, extending an established icon or logo system, or building the visual directly in HTML/CSS/canvas. (file: /opt/codex/skills/.system/imagegen/SKILL.md)\n- openai-docs: Use when the user asks how to build with OpenAI products or APIs and needs up-to-date official documentation with citations, help choosing the latest model for a use case, or model upgrade and prompt-upgrade guidance; prioritize OpenAI docs MCP tools, use bundled references only as helper context, and restrict any fallback browsing to official OpenAI domains. (file: /opt/codex/skills/.system/openai-docs/SKILL.md)\n- plugin-creator: Create and scaffold plugin directories for Codex with a required `.codex-plugin/plugin.json`, optional plugin folders/files, and baseline placeholders you can edit before publishing or testing. Use when Codex needs to create a new local plugin, add optional plugin structure, or generate or update repo-root `.agents/plugins/marketplace.json` entries for plugin ordering and availability metadata. (file: /opt/codex/skills/.system/plugin-creator/SKILL.md)\n- skill-creator: Guide for creating effective skills. This skill should be used when users want to create a new skill (or update an existing skill) that extends Codex's capabilities with specialized knowledge, workflows, or tool integrations. (file: /opt/codex/skills/.system/skill-creator/SKILL.md)\n- skill-installer: Install Codex skills into $CODEX_HOME/skills from a curated list or a GitHub repo path. Use when a user asks to list installable skills, install a curated skill, or install a skill from another repo (including private repos). (file: /opt/codex/skills/.system/skill-installer/SKILL.md)\n### How to use skills\n- Discovery: The list above is the skills available in this session (name + description + file path). Skill bodies live on disk at the listed paths.\n- Trigger rules: If the user names a skill (with `$SkillName` or plain text) OR the task clearly matches a skill's description shown above, you must use that skill for that turn. Multiple mentions mean use them all. Do not carry skills across turns unless re-mentioned.\n- Missing/blocked: If a named skill isn't in the list or the path can't be read, say so briefly and continue with the best fallback.\n- How to use a skill (progressive disclosure):\n 1) After deciding to use a skill, open its `SKILL.md`. Read only enough to follow the workflow.\n 2) When `SKILL.md` references relative paths (e.g., `scripts/foo.py`), resolve them relative to the skill directory listed above first, and only consider other paths if needed.\n 3) If `SKILL.md` points to extra folders such as `references/`, load only the specific files needed for the request; don't bulk-load everything.\n 4) If `scripts/` exist, prefer running or patching them instead of retyping large code blocks.\n 5) If `assets/` or templates exist, reuse them instead of recreating from scratch.\n- Coordination and sequencing:\n - If multiple skills apply, choose the minimal set that covers the request and state the order you'll use them.\n - Announce which skill(s) you're using and why (one short line). If you skip an obvious skill, say why.\n- Context hygiene:\n - Keep context small: summarize long sections instead of pasting them; only load extra files when needed.\n - Avoid deep reference-chasing: prefer opening only files directly linked from `SKILL.md` unless you're blocked.\n - When variants exist (frameworks, providers, domains), pick only the relevant reference file(s) and note that choice.\n- Safety and fallback: If a skill can't be applied cleanly (missing files, unclear instructions), state the issue, pick the next-best approach, and continue.\n","\nFilesystem sandboxing defines which files can be read or written. `sandbox_mode` is `danger-full-access`: No filesystem sandboxing - all commands are permitted. Network access is enabled.\nApproval policy is currently never. Do not provide the `sandbox_permissions` for any reason, commands will be rejected.\n",{"_309":310,"_91":732},{"_107":-5,"_42":587,"_317":733,"_319":589,"_321":399},[],{"_321":735,"_309":310},{"_402":736,"_96":404},[],"thread/started",{"_739":740},"thread",{"_741":-5,"_742":-5,"_743":744,"_745":589,"_366":367,"_746":15,"_747":-5,"_748":-5,"_749":-5,"_750":751,"_42":310,"_752":753,"_247":-5,"_754":-5,"_164":755,"_756":197,"_757":-5,"_372":758,"_321":759,"_760":-5,"_77":761,"_762":589},"agentNickname","agentRole","cliVersion","0.128.0","createdAt","ephemeral","extra","forkedFromId","gitInfo","historyMode","legacy","modelProvider","openai","parentThreadId","/opt/codex/sessions/2026/07/09/rollout-2026-07-09T07-33-17-019f45cb-9496-7e73-ae1f-5ba020e88c03.jsonl","preview","recencyAt","vscode",{"_96":325},"threadSource",[],"updatedAt",[],[765],{"_42":766,"_412":767,"_414":768,"_416":768,"_351":769,"_321":418,"_419":-5,"_420":32,"_421":770,"_423":424,"_425":-5},"ec00e8a0-27f2-4511-951a-e0c9205c44b9",{"_100":434,"_247":-5,"_421":775},1783582396.62896,{"_430":46,"_431":773},{"_426":771},{"_428":772},[],[774],"## Summary\n\nAdds no-API-key Codex auto-resolve bridge for review comments:\n\n- Adds `.github/workflows/codex-autofix-review-comments.yml`.\n- Adds Database-specific Codex review/fix behavior to `AGENTS.md`.\n- The workflow listens for top-level `chatgpt-codex-connector` inline review comments and posts the primary `@codex resolve all review comments...` command once per PR head commit.\n\n## Behavior\n\n- P0/P1: Codex is instructed to fix with the best minimal change.\n- P2/lower: Codex is instructed to decide whether each issue is worth fixing automatically; if not, comment why and resolve or mark ready for human resolution.\n- Reply guard: review-thread replies are skipped to avoid loops.\n- Duplicate guard: hidden marker prevents repeated auto-resolve requests for the same PR head SHA.\n- No API key: this does not use `openai/codex-action`, `OPENAI_API_KEY`, or direct OpenAI API calls.\n\n## Repository setting changed\n\nSet Database GitHub Actions workflow permissions to write so the workflow can post the `@codex` command comment:\n\n- `default_workflow_permissions=write`\n- `can_approve_pull_request_reviews=true`\n\n## Validation\n\n- `git diff --check`\n- Local workflow content check for review-comment trigger, Codex bot guard, reply guard, duplicate marker, primary `@codex resolve...` command, and absence of OpenAI API-key/Codex Action usage\n\n## Remaining activation requirement\n\nCodex automatic reviews still need to be enabled for this repo in Codex Cloud settings. This PR cannot change the Codex Cloud settings page.\n\n## Remaining risk\n\nThis bridge depends on Codex Cloud responding to an `@codex` command posted by `github-actions[bot]`. If Codex ignores bot-authored commands, the fallback is a direct `openai/codex-action` workflow, but that requires an `OPENAI_API_KEY` and explicit API/cost approval.\nAdd Codex review comment auto-resolve bridge\n\n## Summary\n\nAdds no-API-key Codex auto-resolve bridge for review comments:\n\n- Adds `.github/workflows/codex-autofix-review-comments.yml`.\n- Adds Database-specific Codex review/fix behavior to `AGENTS.md`.\n- The workflow listens for top-level `chatgpt-codex-connector` inline review comments and posts the primary `@codex resolve all review comments...` command once per PR head commit.\n\n## Behavior\n\n- P0/P1: Codex is instructed to fix with the best minimal change.\n- P2/lower: Codex is instructed to decide whether each issue is worth fixing automatically; if not, comment why and resolve or mark ready for human resolution.\n- Reply guard: review-thread replies are skipped to avoid loops.\n- Duplicate guard: hidden marker prevents repeated auto-resolve requests for the same PR head SHA.\n- No API key: this does not use `openai/codex-action`, `OPENAI_API_KEY`, or direct OpenAI API calls.\n\n## Repository setting changed\n\nSet Database GitHub Actions workflow permissions to write so the workflow can post the `@codex` command comment:\n\n- `default_workflow_permissions=write`\n- `can_approve_pull_request_reviews=true`\n\n## Validation\n\n- `git diff --check`\n- Local workflow content check for review-comment trigger, Codex bot guard, reply guard, duplicate marker, primary `@codex resolve...` command, and absence of OpenAI API-key/Codex Action usage\n\n## Remaining activation requirement\n\nCodex automatic reviews still need to be enabled for this repo in Codex Cloud settings. This PR cannot change the Codex Cloud settings page.\n\n## Remaining risk\n\nThis bridge depends on Codex Cloud responding to an `@codex` command posted by `github-actions[bot]`. If Codex ignores bot-authored commands, the fallback is a direct `openai/codex-action` workflow, but that requires an `OPENAI_API_KEY` and explicit API/cost approval.",{},1783582429.3583856,{"_96":446,"_100":97,"_351":1099},{"_96":443,"_444":779},[780,781],{"_164":1045,"_782":-5,"_783":1046,"_785":-5},{"_164":377,"_782":-5,"_783":784,"_785":-5},"contents","line_range_contents",[786],"missing_reason",{"_787":547,"_788":789,"_351":790,"_791":59},"line_range_start","line_range_end",361,[792,197,793,197,794,197,795,197,796,197,797,197,798,197,799,800,197,801,197,802,803,804,805,806,197,807,197,808,809,810,811,197,812,197,813,814,815,816,817,818,819,820,197,821,197,822,823,824,825,826,197,827,197,828,829,197,830,197,831,832,833,834,835,836,197,837,197,838,839,840,841,842,843,844,845,846,847,848,849,850,851,197,852,197,853,854,855,856,197,857,197,858,197,859,197,860,197,861,197,862,863,864,865,866,197,867,197,868,869,870,197,871,197,872,197,873,197,874,875,876,877,878,879,197,880,197,881,197,882,197,883,884,885,886,887,888,197,889,197,890,197,891,197,892,893,894,895,197,896,197,897,197,898,197,899,197,900,197,901,197,902,197,903,197,904,197,905,197,906,907,908,909,197,910,197,911,197,912,197,913,914,915,916,917,918,919,920,921,922,197,923,197,924,197,925,197,926,927,928,929,930,931,197,932,197,933,197,934,935,936,937,938,939,940,941,942,943,944,945,946,947,197,948,197,949,197,950,197,951,197,952,197,953,197,954,197,955,197,956,197,957,197,958,197,959,197,960,197,961,197,962,197,963,197,964,965,966,967,968,969,970,971,972,197,973,197,974,197,975,197,976,977,978,979,980,981,982,197,983,197,984,985,986,987,197,988,197,989,197,990,197,991,992,993,994,995,996,997,998,999,1000,197,1001,197,1002,197,1003,197,1004,197,1005,197,1006,1007,1008,1009,1010,1011,1012,1013,1014,1015,1016,1017,1018,197,1019,197,1020,1021,1022,1023,1024,1025,197,1026,197,1027,197,1028,1029,1030,1031,1032,1033,1034,197,1035,197,1036,197,1037,197,1038,197,1039,1040,1041,1042,1043,1044],"contains_end_of_file","","# This is NOT the Next.js you know","This version has breaking changes — APIs, conventions, and file structure may all differ from your training data. Read the relevant guide in `node_modules/next/dist/docs/` before writing any code. Heed deprecation notices.","","","## Dependency shortcut","When the user types exactly `dependency` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for safe dependency maintenance. This is a Codex chat shortcut, not an app feature, script, automation, or CI workflow.","Goal:","Update direct project dependencies to the newest stable compatible versions, regenerate the existing lockfile, identify source/config/test code that relies on old dependency behavior, make the smallest safe compatibility changes, and verify the result. Do not rewrite the project, switch package managers, discard user work, commit, push, deploy, or run destructive cleanup without explicit confirmation.","Start with read-only inspection:","- Check branch, upstream, worktrees, recent relevant history, and `git status`.","- If on `main`, `master`, `develop`, `release/*`, or another protected/base branch, create/switch to `codex/dependency-maintenance` before editing, if safe.","- Inspect manifests, lockfiles, package-manager config, runtime/toolchain files, workspace layout, CI config, scripts, and documented checks.","- Detect repo-local install/dev/test/build/watch/server processes that could race dependency updates.","- Preserve all existing staged, unstaged, and untracked user work.","Package-manager rules:","- Use the package manager already used by the repo: npm, pnpm, yarn, bun, pip, poetry, uv, cargo, go, bundler, gradle, maven, dotnet, or equivalent.","- Do not switch package managers or create a new lockfile type.","- Respect engines, runtime versions, lockfiles, workspaces, wrappers, and repo conventions.","- In monorepos or polyglot repos, update each ecosystem through its native workspace-aware workflow.","Dependency update rules:","- Identify outdated direct production and development dependencies.","- Compare both manifest ranges and locked/installed versions against latest stable compatible releases.","- Treat “outdated packages found” exit codes as normal where applicable.","- Avoid prerelease, alpha, beta, canary, rc, next, nightly, and experimental versions unless the stable channel points there and explain why.","- Do not use force or legacy flags that bypass peer, engine, resolver, or lockfile integrity checks unless explicitly approved.","- Do not run forced audit fixes or broad destructive codemods.","- If latest is incompatible, use the newest compatible version and document why.","- Group risky updates coherently, such as framework plus plugins, test runner plus coverage, lint core plus plugins, or runtime plus adapter packages.","Compatibility audit:","- For every major update and every core framework/runtime/build/test/lint/UI/database update, inspect release notes, migration guides, peer ranges, engines, and changelogs when available.","- Search source, tests, scripts, config, and CI for imports, APIs, CLI flags, config keys, environment variables, plugin names, generated types, or file paths tied to changed dependencies.","- If old dependency behavior is used, make the smallest safe migration that preserves behavior.","- If migration is large, risky, architectural, or product-affecting, stop after discovery and provide a concrete fix plan with affected files, package versions, sequence, and verification commands.","- Add or adjust focused tests only when needed to prove migrated behavior.","Generated and sensitive files:","- Do not intentionally keep dependency directories, build outputs, caches, logs, local state, test artifacts, browser artifacts, `.env*`, secrets, keys, tokens, credentials, or machine-local config.","- Manifest and existing lockfile changes are allowed.","Verification:","- Run a cheap baseline first when useful to distinguish pre-existing failures.","- After updates, run install/dependency validation, then relevant lint, type check, tests, build, smoke/UI/a11y, codegen, integration checks, or equivalent.","- For frontend/browser-facing changes, run browser/UI verification when framework, bundler, router, styling, test runner, or browser automation changed.","- If a check fails, fix dependency-related breakage and rerun the smallest failing check before broader checks.","- Run non-mutating audit/vulnerability checks when available.","- Confirm no repo-owned dev server, watcher, or temporary process was left running unless requested.","Final response for `dependency` must include:","- Branch and worktree state.","- Package manager, runtime, manifests, and lockfiles detected.","- Outdated dependencies found.","- Dependencies updated, old version -> new version.","- Dependencies not updated and why.","- Files changed.","- Compatibility migrations and old APIs found/fixed.","- Checks run and results.","- Checks not run and why.","- Audit/vulnerability summary.","- Generated/untracked files left behind.","- Branch movement, external repo changes, or process cleanup observed.","- Risks or follow-up work.","- Confirmation that no commit or push was made unless explicitly requested.","After setup:","- Verify root `AGENTS.md` contains exactly one `## Dependency shortcut` section.","- Show the final diff for `AGENTS.md`.","- Summarize what changed.","- Confirm no dependency update, install, test, build, audit, commit, or push was performed.","","","## Bug-hunter shortcut","When the user types exactly `bug-hunter` as the entire task message, after trimming surrounding whitespace, treat it as a shortcut for targeted defect discovery.","Execution rules:","- Invoke the `bug-hunter` skill first.","- Prioritize reproducible defects over code style, naming, or formatting feedback.","- Trace realistic failure paths: invalid input, empty states, retries, race/concurrency issues, stale state/cache, network/auth failures, permissions, and boundary values.","- For each finding, include trigger, expected behavior, actual risk, and the smallest proof (or targeted test/check) that would catch it.","- If no high-confidence defect is found, explicitly state that and list the most likely residual risk area.","Scope and safety:","- Keep the hunt scoped to code touched by the user request unless the defect clearly crosses module boundaries.","- Do not make broad refactors while hunting; propose minimal fixes for confirmed issues.","- Run the smallest focused verification for each confirmed defect, then expand only if needed.","","","# Local server safety","- If the user says `run`, execute `npm run ensure` and return the printed URL.","- If the user asks for UI/frontend changes, browser QA, screenshots, mobile checks, or a local app link, run `npm run ensure` before opening or testing the app, even if the user did not say `run`.","- Never assume `localhost:3000`, `localhost:3001`, or `localhost:3002`.","- Never attach to a local server unless `/api/local-project-id` confirms it is this project.","- Do not kill or modify other projects' local servers. If the stable project port is busy, let `npm run ensure` choose the next safe project URL.","- Do not run a permanent watcher. Only start or verify the server when the current chat task needs the app or the user asks to run it.","","","# Process hardening phases","- For non-trivial source/config/test changes, prefer `npm run verify:cheap` as the first broad gate.","- For UI, frontend, browser, routing, styling, reduced-motion, or forced-colors changes, run `npm run ensure` before browser work and use `npm run verify:ui` as the Chromium UI gate.","- For release or handoff confidence, use `npm run verify:release`; this includes the full Playwright project set.","- For clinical ingestion, answer generation, source governance, privacy, production-readiness, or environment changes, run the smallest relevant domain check plus `npm run check:production-readiness`.","- For pull requests that touch ingestion, answer generation, search/ranking, source rendering, document access, privacy, production env, or clinical output, complete the clinical governance preflight in `.github/pull_request_template.md`.","- Track known verification debts and staged process improvements in `docs/process-hardening.md` instead of relying on chat-only memory.","","","# Supabase project safety","- This repo targets the live Supabase project `Clinical KB Database`.","- Expected project ref: `sjrfecxgysukkwxsowpy`.","- Older unused project ref `qjgitjyhxrwxsrydablr` belongs to `Database`; treat it as stale and do not use it.","- Run `npm run check:supabase-project` after changing Supabase env values.","","","# `upload` shortcut","When the user types exactly:","upload","as the entire task message, treat it as a shortcut for the safe Git handoff workflow below.","The goal is to leave useful completed work safely committed and, where safe, pushed to the current feature branch. The goal is not to merge into main, delete branches, discard work, force-push, close PRs, deploy, or perform destructive cleanup without explicit user confirmation.","## Protected and base branches","Treat `main`, `master`, `develop`, and `release/*` as protected/base branches for this workflow.","If `upload` is run while on `main`, automatically create or use a branch named exactly `temporary` before staging, committing, or pushing, then continue the upload workflow from `temporary`:","- If neither local `temporary` nor `origin/temporary` exists, run `git switch -c temporary`.","- If local `temporary` exists and is not checked out in another worktree, switch to it only when it is clearly safe.","- If `origin/temporary` exists, use it only when it is clearly the matching intended branch.","- If any `temporary` branch state is ambiguous, diverged, checked out elsewhere, or unsafe, stop and ask instead of overwriting.","If already on a non-protected feature branch, continue using that branch.","## Required inspection","Start with read-only inspection before making changes. Check:","- Current branch or detached HEAD state","- `git status`","- Staged, unstaged, and untracked files","- Recent commits relevant to the current branch","- Remote configuration and upstream branch","- Whether the branch is ahead, behind, or diverged","- Whether the current branch appears protected/base","- Other Git worktrees, if detectable","- Available checks such as tests, lint, type check, or build scripts","- Existing branch, commit, PR, and release-flow conventions","Do not assume branch names, remotes, package managers, test commands, deployment targets, or project structure. Inspect first.","## Safe actions allowed without further confirmation","When the repository state makes it clearly safe, you may:","- Stage coherent completed changes that clearly belong together","- Create one or more logical commits with clear messages based on the diff","- Fast-forward pull only when there are no local commits or conflict risks","- Push the current non-protected feature branch if it has a valid upstream","- Set an upstream for the current feature branch only when the correct remote and branch name are obvious","- Leave the worktree clean by committing safe completed changes","## Actions requiring explicit confirmation","Do not perform these without asking the user first:","- `git reset --hard`","- `git clean -fd` or other destructive cleanup","- Discarding, overwriting, or reverting uncommitted changes","- Deleting local or remote branches","- Renaming branches","- Force-pushing","- Rebasing a shared/public branch","- Resolving divergent branch history","- Merging into `main`, `master`, `develop`, `release/*`, or any protected/base branch","- Closing pull requests","- Changing GitHub default branch, branch protection, repository settings, or deployment settings","- Modifying production data or deployment configuration","- Committing secrets, credentials, tokens, private keys, or sensitive local configuration","- Updating branch references where the correct replacement branch is ambiguous","If any of these seem necessary, stop and report what is risky, why it is risky, the recommended next step, and the exact confirmation needed.","## Mixed, suspicious, or unsafe changes","Do not automatically commit files that look like `.env` files, credentials, secrets, logs, caches, build artifacts, editor or OS files, temporary/debug files, or generated files not normally committed by this project. Report only the path and concern for possible secrets; never print secret values.","If changes appear unrelated, incomplete, experimental, or WIP, do not commit everything together automatically. Commit only clearly coherent completed changes when safe; otherwise summarize the groups and ask what should be included.","## Branch cleanup and reference updates","If stale, inappropriate, merged, or unnecessary branches are detected, list cleanup candidates but do not delete or rename branches automatically.","Before recommending deletion or rename, audit accessible references including `.github/workflows/*`, CI/CD config, deployment config, scripts, package scripts, docs, release notes or release scripts, safe environment/config files, branch-specific config, open PR metadata if accessible, and GitHub branch protection/default branch metadata if safely accessible.","Update repo-tracked references to a renamed or replacement branch only when the old branch reference is clearly found, the replacement is obvious, the change is low-risk, and the user has approved the branch rename or deletion. If the replacement is unclear, report the reference and ask what it should point to.","## Syncing and verification","Do not rebase, merge, or resolve remote divergence automatically. Fast-forward pulls are allowed only when clearly safe. Push only the current non-protected feature branch when clearly safe.","Run the smallest relevant checks that are available and appropriate, such as tests, lint, type check, or build checks. Do not claim checks passed unless they were actually run. If checks cannot be run, explain why and state the command that would normally be used.","## Final report","After completing `upload`, summarize the current branch and worktree state, whether the worktree is clean, what changed, files committed, commit hash and message if created, whether anything was pushed, remote branch and likely PR target, checks run and results, checks not run and why, branch cleanup candidates, branch references found or updated, risky actions skipped, and exact confirmation needed for any recommended follow-up.","","","## Codex productivity defaults","- Treat terse prompts as workflow shortcuts when the intent is clear. If the user says `run`, execute `npm run ensure`, verify the project identity through that helper, and return the printed local URL without a long log dump.","- For non-trivial changes, start from concrete repo state: branch, `git status`, relevant package scripts, recent failures, and local logs such as `dev-server.log` when runtime behavior is involved. For architecture and module orientation, read `docs/codebase-index.md` (routes: `docs/site-map.md`).","- For UI, browser, styling, routing, accessibility, or screenshot work, run `npm run ensure` before opening the app, then use browser QA and the smallest relevant UI proof before broader gates.","- Prefer the smallest failing check first. For this repo, use focused Vitest or Playwright targets before widening to `npm run verify:cheap`, `npm run verify:ui`, or `npm run verify:release`.","- When the user says `safely`, preserve unrelated staged, unstaged, and untracked work; stop only clearly repo-owned transient processes; and verify the result instead of doing broad cleanup.","- After auth, Supabase, ingestion, answer generation, search/ranking, clinical output, or source-governance changes, run the smallest domain check plus `npm run check:production-readiness`. Run `npm run check:supabase-project` after Supabase env/config changes.","- For handoff, archive-safety, or upload-style requests, inspect branch/upstream/status first, run the appropriate verification gate, and only commit or push when the request explicitly asks for that workflow.","- For codebase appraisal exports, stage outside the repo, include `EXPORT_MANIFEST.md`, exclude secrets/dependencies/build outputs/local state, and verify the archive can be opened before handoff.","- When a repeated repo-specific workflow is discovered, update this file or ask the user whether it should be remembered.","","## Codex GitHub review behavior","These instructions apply to Codex GitHub pull request reviews and Codex tasks started from PR comments.","- Keep automatic reviews focused and cost-conscious.","- Prioritize high-confidence findings that affect correctness, security, privacy, data loss, auth/permissions, migrations, API contracts, production reliability, clinical behavior, source governance, or user-facing behavior.","- Do not comment on formatting, naming, style, minor cleanup, or speculative refactors unless they create a real bug or maintainability risk.","- Prefer fewer, stronger findings over exhaustive low-value review comments.","- A finding must cite concrete changed code and explain the failure mode.","- Do not suggest broad rewrites during review. Recommend the smallest change that resolves the issue.","- Do not propose or start fixes unless explicitly asked with an `@codex fix...` or `@codex resolve...` comment, or when the repository's Codex auto-resolve workflow posts that command.","### Severity calibration","- P0: active security exposure, data loss/corruption already possible, severe production outage risk, credential leakage, or a critical issue that must be fixed immediately.","- P1: security vulnerability, auth bypass, data exposure/loss, destructive migration risk, production-breaking regression, public API contract break, severe clinical/user-facing bug, or missing validation with realistic exploit/failure impact.","- P2: important correctness bug, missing behavior test for meaningful changed behavior, edge case likely to affect users, reliability issue, unsafe assumption, or maintainability issue that will likely cause defects.","- P3: style, naming, formatting, small cleanup, speculative improvements, or optional refactors. Avoid raising these in automatic reviews unless explicitly requested.","For GitHub automatic reviews, focus mainly on P1-level findings. If a P2 issue is important enough to block the PR, explain why it should be treated as P1.","### PR risk detection","When reviewing, identify whether the PR touches any high-risk area:","- authentication or authorization","- user data, privacy, or private document access","- database schema, migrations, RLS, SECURITY DEFINER functions, or Supabase privileges","- clinical answer generation, source governance, retrieval/ranking, ingestion, or document access","- payment, billing, subscriptions, or quotas","- public API contracts","- production configuration or deployment behavior","- background jobs, scheduled tasks, workers, or queue processing","- file upload/download or generated document access","- AI/API provider calls, paid external services, or credential-dependent workflows","If a high-risk area is touched, review more carefully for regressions, missing tests, rollback/safety notes, and conservative failure behavior.","### Cost and usage control","Avoid broad repeated review passes. Do not request exhaustive review behavior unless the PR touches security, auth, data loss, migrations, billing, production reliability, clinical output, source governance, or private document access. Prefer targeted validation and targeted review comments.","### Fix behavior","When explicitly asked to fix or resolve review findings:","- Always fix P0 and P1 findings using the best minimal fix.","- For P2 and lower-severity findings, decide whether the issue is worth fixing automatically.","- Fix a P2 or lower finding only when the fix is clear, scoped, low-risk, and testable.","- Do not automatically fix a P2 or lower finding when it requires broad refactoring, product judgment, dependency changes, credentials, paid/external APIs, large design decisions, or risky behavior changes.","- If a P2 or lower finding is not worth fixing automatically, comment with the reason and the recommended human decision, then resolve the review conversation when supported.","- Preserve unrelated work and avoid opportunistic refactors.","- Do not add dependencies unless the issue cannot reasonably be fixed without one.","- Do not change secrets, credentials, environment configuration, billing settings, deployment settings, or external service setup unless explicitly requested.","- Do not use external APIs, paid services, credentials, secrets, live Supabase projects, or OpenAI provider calls unless explicitly authorized.","- If a finding is ambiguous, unsafe to fix automatically, or requires a large rewrite, stop and explain the decision instead of guessing.","- Add or update the smallest relevant test when the issue affects behavior.","- Run the narrowest relevant validation for the touched surface before broader suites.","- Summarize fixed issues, changed files, validation run, and any remaining human decisions.","### Review comment lifecycle","- Treat closing review conversations as part of the task when asked to fix or resolve comments.","- After fixing a P0 or P1 finding, reply with the fix summary and resolve the review conversation when supported by GitHub permissions/tooling.","- After fixing an approved P2 or lower finding, reply with the fix summary and resolve the review conversation when supported.","- After deciding not to fix a P2 or lower finding, reply with the reason, note whether it is deferred or not actionable, and resolve the review conversation when supported.","- Do not leave a review conversation open after it has been fixed or explicitly dispositioned.","- If GitHub permissions/tooling do not allow resolving a review conversation, leave a clear reply that says the issue is fixed or dispositioned and that the conversation is ready for a human to resolve.","### Automatic resolve trigger","Automatic Codex review is review-only by default. This repository includes `.github/workflows/codex-autofix-review-comments.yml`, which requests the resolve task automatically after Codex posts a top-level review comment.","- The workflow must only trigger from Codex review bot comments on open pull requests.","- The workflow must skip review-thread replies so Codex fix summaries do not re-trigger the workflow.","- The workflow must ask Codex to resolve all review comments using these repository instructions.","- The workflow must avoid duplicate requests for the same pull request head commit.","- The workflow must not run Codex directly with API credentials.","- P0 and P1 findings should always be fixed.","- P2 and lower findings should be fixed only when clear, scoped, low-risk, and testable; otherwise explain the decision and resolve or mark ready for human resolution.","### Primary PR command","`@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.`","## Cursor Cloud specific instructions","Durable notes for Cloud Agents. Standard commands live in `README.md` and `package.json`; only non-obvious caveats are captured here.","- Runtime: the app hard-requires Node 24.x / npm 11.x (`engine-strict`, and `scripts/dev-free-port.mjs` exits on any other major). Node 24 is installed via nvm and symlinked into `/usr/local/cargo/bin` (first entry in `PATH`) so `node`/`npm` resolve to v24 in every shell. If a shell ever resolves `/exec-daemon/node` (v22) instead, prepend `\"$HOME/.nvm/versions/node/v24.18.0/bin\"` to `PATH`.","- Live vs demo mode: the app auto-detects. When the Supabase + OpenAI env vars below are present (set them as Cloud Agent **Secrets** so they inject into `.env.local`/`process.env`), `isDemoMode()` (`src/lib/env.ts`) is false and the app runs against the live `Clinical KB Database` project (~2000 indexed docs) with OpenAI answer generation. When they are absent, dev auto-falls back to demo mode using the synthetic corpus in `src/lib/demo-data.ts` / `public/demo-documents/`. Required for live mode: `NEXT_PUBLIC_SUPABASE_URL`, `SUPABASE_PROJECT_REF`, `SUPABASE_PROJECT_NAME`, `NEXT_PUBLIC_SUPABASE_PUBLISHABLE_KEY` (`sb_publishable_…`), `SUPABASE_SERVICE_ROLE_KEY` (accepts the `sb_secret_…` secret key), `OPENAI_API_KEY`. Keep `RAG_PROVIDER_MODE=auto` so OpenAI is used with graceful source-only fallback. `E2E_USER_EMAIL`/`E2E_USER_PASSWORD` power CI env-check and Playwright.","- Live-mode caveat: `RAG_PROVIDER_MODE=auto` attempts OpenAI (fast → strong route); if generation fails the built-in quality gates it silently degrades to a deterministic \"Source-only\" answer that still cites real documents — this is expected, not a failure. The header sign-in UI exposes magic-link + OAuth only (no password field), but the `/api/answer` + retrieval flow works server-side without a browser session.","- What still won't run in this VM even with secrets: `npm run worker` also needs the Python OCR stack (`worker/python/requirements.txt`) and heavy parsing deps; Supabase edge functions need Deno v2.x + deployment. `verify:release` additionally runs governance/eval gates. Treat missing-secret failures of `check:supabase-project`/`verify:release` in demo mode as expected, not regressions.","- Dev server: `npm run dev` selects a stable per-project localhost port (e.g. `4461`), binds `0.0.0.0`, and prints the exact URL. Never assume port 3000/3001/3002. `npm run ensure` starts/verifies it in the background.","- Verification without secrets: `npm run lint`, `npm run typecheck`, and `npm run test` (vitest) all pass offline. `npm run verify:cheap` also runs `check:runtime` + `sitemap:check` and is safe offline.",".github/workflows/codex-autofix-review-comments.yml",[1047],{"_787":547,"_788":1048,"_351":1049,"_791":59},65,[1050,197,1051,1052,1053,197,1054,1055,1056,1057,197,1058,1059,1060,197,1061,1062,1063,1064,1065,1066,1067,1068,1069,1070,1071,1072,1073,1074,1075,197,1076,1077,1078,1079,197,1080,1081,1082,1083,197,1084,1085,1086,1087,1088,1089,197,1090,1091,1078,1079,197,1092,1093,1094,1095,1096,197,1097,1085,1086,1087,1098,1089],"name: Codex auto-resolve review comments","on:"," pull_request_review_comment:"," types: [created]","permissions:"," contents: read"," issues: write"," pull-requests: read","concurrency:"," group: codex-autoresolve-${{ github.event.pull_request.number }}-${{ github.event.pull_request.head.sha }}"," cancel-in-progress: false","jobs:"," request-codex-autoresolve:"," name: Request Codex auto-resolve"," runs-on: ubuntu-latest"," if: >"," github.event.pull_request.state == 'open' &&"," contains(github.event.comment.user.login, 'chatgpt-codex-connector')"," steps:"," - name: Ask Codex to resolve review comments"," uses: actions/github-script@v7"," with:"," github-token: ${{ github.token }}"," script: |"," const pr = context.payload.pull_request;"," const reviewComment = context.payload.comment;"," if (reviewComment.in_reply_to_id) {"," core.notice(\"Skipping Codex auto-resolve request because the comment is a review-thread reply.\");"," return;"," }"," const owner = context.repo.owner;"," const repo = context.repo.repo;"," const issue_number = pr.number;"," const marker = ``;"," const existingComments = await github.paginate(github.rest.issues.listComments, {"," owner,"," repo,"," issue_number,"," per_page: 100,"," });"," if (existingComments.some((comment) => (comment.body || \"\").includes(marker))) {"," core.notice(\"Skipping duplicate Codex auto-resolve request for this PR head commit.\");"," const prompt = ["," marker,"," ``,"," \"@codex resolve all review comments using the repository instructions. Always fix P0 and P1 findings. For P2 and lower findings, decide whether each is worth fixing automatically. Fix clear, scoped, low-risk issues with the best minimal change; otherwise reply explaining why the issue is deferred or not actionable. After each fix or decision, resolve the review conversation if supported. Do not use external APIs, paid services, credentials, dependency changes, or broad refactors unless explicitly authorized. Add targeted tests where behavior changes and run the narrowest relevant validation.\","," ].join(\"\\n\\n\");"," await github.rest.issues.createComment({"," body: prompt,",[1100,1101,1102,1103,1104],{"_430":46,"_46":1111},{"_430":1106,"_164":1045,"_787":1110,"_788":1048},{"_430":46,"_46":1109},{"_430":1106,"_164":377,"_787":1107,"_788":1108},{"_430":46,"_46":1105},"\n* No code changes were needed, so I did **not** create a new commit or call the PR creation tool.\n\n**Testing**\n* ✅ `git diff --check`\n* ✅ `git status --short --branch` — worktree is clean on `work`.","repo_file_citation",267,350,"\n* Confirmed `AGENTS.md` contains the repository-specific Codex GitHub review behavior, severity calibration, fix rules, review lifecycle guidance, automatic resolve trigger requirements, and primary PR command. ",3,"### Summary\n\n* Reviewed the PR trigger and current branch state. The requested auto-resolve bridge is already present on branch `work`, with no uncommitted changes remaining.\n* Confirmed the workflow listens for new `pull_request_review_comment` events, filters to open PRs and Codex connector comments, skips review-thread replies, deduplicates by PR head SHA marker, and posts the repository’s `@codex resolve all review comments...` command. 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