paperlint 13.1.0 → 13.3.0

package/dist/skills/build-label-page/scripts/label-page-core.d.ts

@@ -0,0 +1,149 @@
+export declare class Refusal extends Error {
+    readonly exitCode: number;
+    constructor(exitCode: number, message: string);
+}
+export declare const fail: (message: string) => never;
+/** The lines printed since the last call, each ending in a newline. */
+export declare const takePrinted: () => string;
+export declare const say: (line: string) => void;
+type Json = null | boolean | number | string | readonly Json[] | {
+    readonly [key: string]: Json;
+};
+type JsonObject = {
+    readonly [key: string]: Json;
+};
+type SchemaNode = {
+    kind: "string";
+    required: boolean;
+    pattern?: string;
+} | {
+    kind: "integer";
+    required: boolean;
+} | {
+    kind: "array";
+    required: boolean;
+    min: number;
+    items: SchemaNode;
+} | {
+    kind: "map";
+    required: boolean;
+    min: number;
+    key_pattern: string;
+    values: SchemaNode;
+} | {
+    kind: "object";
+    required: boolean;
+    closed: boolean;
+    fields: Readonly<Record<string, SchemaNode>>;
+};
+export declare const CONFIG_SCHEMA: SchemaNode;
+interface Option {
+    readonly value: string;
+    readonly label: string;
+    readonly example: string;
+    readonly icon?: string;
+    readonly ask_why?: string;
+}
+interface Question {
+    readonly id: string;
+    readonly text: string;
+    readonly short?: string;
+    readonly options: readonly Option[];
+}
+type Item = Readonly<Record<string, string>> & {
+    readonly source_id: string;
+    readonly group: string;
+};
+interface Practice {
+    readonly title?: string;
+    readonly body: string;
+    readonly code?: string;
+    readonly context?: string;
+    readonly expected: Readonly<Record<string, string>>;
+    readonly why: string;
+}
+interface Config {
+    readonly study: string;
+    readonly title: string;
+    readonly intro?: string;
+    readonly seed: number;
+    readonly groups: Readonly<Record<string, string>>;
+    readonly labeller_knows?: readonly string[];
+    readonly familiarity_question?: string;
+    readonly questions: readonly Question[];
+    readonly practice: readonly Practice[];
+    readonly practice_round?: number;
+    readonly items: readonly Item[];
+}
+interface KeyEntry {
+    readonly source_id: string;
+    readonly group: string;
+    readonly on_page: boolean;
+}
+/** Only what the labeller can answer goes on the page, and only that gets an id, in id order. */
+declare function itemsOnPage(cfg: Config, keyPath: string): {
+    items: Item[];
+    ids: ReadonlyMap<string, string>;
+    entries: Readonly<Record<string, KeyEntry>>;
+    idOf: (i: Item) => string;
+};
+/** What a page shows: the questions, the practice and the items, blind, with their neutral ids. */
+declare function payloadOf(cfg: Config, page: ReturnType<typeof itemsOnPage>): {
+    title: string;
+    intro: string;
+    groups: {
+        id: string;
+        label: string;
+    }[];
+    familiarity_question: string;
+    familiarity: {
+        value: string;
+        label: string;
+    }[];
+    allowed: JsonObject;
+    questions: readonly Question[];
+    practice: {
+        round: number;
+        items: readonly (Practice & {
+            readonly id: string;
+        })[];
+    };
+    items: {
+        id: string;
+    }[];
+};
+export type Payload = ReturnType<typeof payloadOf>;
+/**
+ * Everything a build does but lay out the page: reads and checks items.json (the schema, the
+ * cross-field checks, the leak guard), gives the items their ids, writes key.json beside the page and
+ * returns what the page shows. A page written by hand can take its blindness and its key from here.
+ */
+export declare function prepareBuild(configPath: string, outDir: string): {
+    payload: {
+        title: string;
+        intro: string;
+        groups: {
+            id: string;
+            label: string;
+        }[];
+        familiarity_question: string;
+        familiarity: {
+            value: string;
+            label: string;
+        }[];
+        allowed: JsonObject;
+        questions: readonly Question[];
+        practice: {
+            round: number;
+            items: readonly (Practice & {
+                readonly id: string;
+            })[];
+        };
+        items: {
+            id: string;
+        }[];
+    };
+    dropped: number;
+};
+export declare function exportLabels(dumpPath: string, keyPath: string, outDir: string, day: string): void;
+export {};

package/dist/skills/build-label-page/scripts/label-page-html.d.ts

@@ -0,0 +1,5 @@
+import { type Payload } from "./label-page-core.ts";
+/** The page: the template with its title and its data. */
+export declare function pageHtml(payload: Payload): string;
+/** items.json → out/page.html and out/key.json. */
+export declare function build(configPath: string, outDir: string): void;

package/dist/skills/build-label-page/scripts/label-page.d.ts

@@ -0,0 +1,2 @@
+#!/usr/bin/env node
+export {};

package/dist/study-modes.d.ts

@@ -1,4 +1,5 @@
 import type { NotAFile } from "./domain/decide-first.ts";
+import { type PlanGates } from "./domain/study-gates.ts";
 import type { StudyMode } from "./domain/study-mode.ts";
 import { type PlanTextField, type RegistryState, type Study } from "./domain/study-registry.ts";
 import type { StudyRegistryCodec } from "./ports/study-registry-codec.ts";
@@ -30,6 +31,8 @@ export interface ModeStudy {
     readonly plan: string;
     readonly mode: StudyMode;
     readonly empty: readonly PlanTextField[];
+    /** A plan v2's gates as HEAD holds them; null for a plan v1. */
+    readonly gates: PlanGates | null;
 }
 /** What reading the plan of one row gave: its mode study, nothing, or a link on the way to it. */
 export type ModeRead = {

package/dist/study-modes.d.ts.map

@@ -1 +1 @@
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package/dist/study-modes.js

@@ -6,6 +6,7 @@
  */
 import { posix } from "node:path";
 import { filter, map, pipe } from "remeda";
+import { gatesOf } from "./domain/study-gates.js";
 import { studiesOf, } from "./domain/study-registry.js";
 /**
  * What the decision file `file` (relative to the paper) is, read through `folder` without following
@@ -45,7 +46,13 @@ export const readModeStudy = (s, folder, codec) => {
     const empty = parsed.kind === "draft" ? parsed.empty : [];
     return {
         kind: "mode",
-        study: { row: s, plan, mode: parsed.plan.mode, empty },
+        study: {
+            row: s,
+            plan,
+            mode: parsed.plan.mode,
+            empty,
+            gates: gatesOf(parsed.plan),
+        },
     };
 };
 /**

package/dist/study-modes.js.map

@@ -1 +1 @@
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package/dist/study-registry-rule.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"study-registry-rule.d.ts","sourceRoot":"","sources":["../src/study-registry-rule.ts"],"names":[],"mappings":"AA4BA,OAAO,EASL,KAAK,SAAS,EACd,KAAK,aAAa,EAElB,KAAK,YAAY,EAGlB,MAAM,4BAA4B,CAAC;AACpC,OAAO,KAAK,EAAE,gBAAgB,EAAE,MAAM,yBAAyB,CAAC;AAChE,OAAO,KAAK,EAEV,gBAAgB,EACjB,MAAM,wBAAwB,CAAC;AAChC,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,kBAAkB,CAAC;AAC9C,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAC3D,OAAO,KAAK,EAAE,kBAAkB,EAAE,MAAM,iCAAiC,CAAC;AAE1E,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAM3D,mFAAmF;AACnF,MAAM,WAAW,iBAAkB,SAAQ,gBAAgB;IACzD,QAAQ,CAAC,KAAK,EAAE,kBAAkB,CAAC;IACnC,mGAAmG;IACnG,QAAQ,CAAC,OAAO,EAAE,WAAW,CAAC;CAC/B;AAED,uFAAuF;AACvF,eAAO,MAAM,MAAM,GAAI,OAAO,KAAK,EAAE,GAAG,MAAM,KAAG,MAAM,GAAG,IAGzD,CAAC;AAEF,oFAAoF;AACpF,wBAAgB,UAAU,CACxB,GAAG,EAAE,MAAM,EACX,IAAI,EAAE,IAAI,CAAC,iBAAiB,EAAE,OAAO,GAAG,OAAO,CAAC,GAC/C,aAAa,CAOf;AAoCD;;;GAGG;AACH,eAAO,MAAM,OAAO,GAClB,GAAG,aAAa,EAChB,QAAQ,WAAW,EACnB,OAAO,kBAAkB,KACxB,WAAW,CAAC,MAAM,EAAE,SAAS,CAQ7B,CAAC;AAqBJ,iGAAiG;AACjG,wBAAgB,aAAa,CAC3B,GAAG,EAAE,MAAM,EACX,IAAI,EAAE,iBAAiB,GACtB,SAAS,YAAY,EAAE,CAUzB;AAgED;;;;GAIG;AACH,wBAAgB,kBAAkB,CAChC,IAAI,EAAE,iBAAiB,GACtB,QAAQ,CAAC,MAAM,CAAC,kBAAkB,GAAG,iBAAiB,EAAE,gBAAgB,CAAC,CAAC,CAqB5E;AAED,mGAAmG;AACnG,eAAO,MAAM,0BAA0B,EAAE,QAAQ,CAAC;IAChD,wBAAwB,EAAE,OAAO,CAAC;IAClC,uBAAuB,EAAE,MAAM,CAAC;CACjC,CAA0E,CAAC"}

package/dist/study-registry-rule.js

@@ -110,6 +110,7 @@ const PROBLEMS = [
     "unknown-requirement",
     "headline-approval",
     "bad-plan",
+    "plan-version",
     "author-check",
 ];
 /** A rule's meta: its page, and a message id per problem, the whole text being `studyMessage`. */

package/dist/study-registry-rule.js.map

@@ -1 +1 @@
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package/dist/study-result-rule.d.ts

@@ -0,0 +1,12 @@
+import { type ResultStudy } from "./domain/study-result.ts";
+import type { FolderRuleModule } from "./folder-venue-rule.ts";
+import type { StudyDeps } from "./ports/study-deps.ts";
+/** Every done study of a ready plan v2 in the paper folder `paper`. */
+export declare const resultStudies: (paper: string, deps: StudyDeps) => readonly ResultStudy[];
+/** The rule, reading the folder through `deps`. */
+export declare const studyResultRules: (deps: StudyDeps) => Readonly<Record<"study-result", FolderRuleModule>>;
+/** Its level in paperlint's own config: an error. */
+export declare const RESULT_RULE_LEVELS: Readonly<{
+    "repro/study-result": "error";
+}>;
+//# sourceMappingURL=study-result-rule.d.ts.map

package/dist/study-result-rule.d.ts.map

@@ -0,0 +1 @@
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package/dist/study-result-rule.js

@@ -0,0 +1,87 @@
+/**
+ * `repro/study-result` — a `done` study whose plan is v2 shows, in its `result.json`, what its plan
+ * fixed before the run: the number its claim stands or falls by, each labelling step's kappa, its
+ * self-test, its funnel and its extractor's recall audit. What is judged, and why, is `src/domain/study-result.ts` and
+ * docs/rules/repro/study-result.md; this file finds those studies, reads their result through the
+ * study folder's reader (no link followed), and reports.
+ *
+ * A plan that does not parse, is a draft, or is v1 is `repro/study-registered`'s to report; here it
+ * asks nothing. Reported on `PIPELINE-STATUS.md`, first line, like the other `repro/` rules.
+ */
+import { basename, dirname, posix } from "node:path";
+import { filter, map, pipe } from "remeda";
+import { RESULT_FILE } from "./domain/study-gates.js";
+import { studiesOf } from "./domain/study-registry.js";
+import { RESULT_PROBLEMS, gatesOf, judgeResult, resultMessage, } from "./domain/study-result.js";
+import { studyFolder } from "./study-folder.js";
+import { registryOf } from "./study-registry-rule.js";
+import { rulePageUrl } from "./venue-rules.js";
+const STATUS_FILE = "PIPELINE-STATUS.md";
+const NAME = "repro/study-result";
+/** What the folder holds of a study's `result.json`, beside its plan (`plan`, relative to the folder). */
+const resultState = (folder, of, plan, codec) => {
+    const read = folder.read(of, posix.join(posix.dirname(plan), RESULT_FILE));
+    return read.kind === "text" ? codec.parseResult(read.text) : read;
+};
+/** The row `s` as a study to judge: `done`, its plan ready, every gate decided; else null. */
+const resultStudy = (s, folder, codec) => {
+    if (s.status !== "done" || s.plan === undefined)
+        return null;
+    const read = folder.read(s.folder, s.plan);
+    if (read.kind !== "text")
+        return null;
+    const parsed = codec.parsePlan(read.text, s.kind);
+    const gates = parsed.kind === "ready" ? gatesOf(parsed.plan) : null;
+    return gates === null
+        ? null
+        : {
+            id: s.id,
+            folder: s.folder,
+            ...gates,
+            state: resultState(folder, s.folder, s.plan, codec),
+        };
+};
+/** Every done study of a ready plan v2 in the paper folder `paper`. */
+export const resultStudies = (paper, deps) => {
+    const folder = studyFolder(paper, deps);
+    return pipe(studiesOf(registryOf(paper, deps)), map((s) => resultStudy(s, folder, deps.codec)), filter((s) => s !== null));
+};
+/** On `PIPELINE-STATUS.md`, every finding of every such study of its paper, at its first line. */
+const reportOn = (context, deps) => {
+    if (basename(context.filename) !== STATUS_FILE)
+        return {};
+    return {
+        root() {
+            const at = context.sourceCode.getLocFromIndex(0);
+            resultStudies(dirname(context.filename), deps)
+                .flatMap(judgeResult)
+                .forEach((f) => {
+                context.report({
+                    loc: { start: at, end: at },
+                    messageId: f.problem,
+                    data: { text: resultMessage(f) },
+                });
+            });
+        },
+    };
+};
+/** The rule, reading the folder through `deps`. */
+export const studyResultRules = (deps) => ({
+    "study-result": {
+        meta: {
+            type: "suggestion",
+            docs: {
+                description: "a done study whose plan is v2 shows in its result.json what its plan fixed before the run: the number its claim stands or falls by, each labelling step's kappa, its self-test, its funnel and its extractor's recall audit",
+                url: rulePageUrl(NAME),
+            },
+            schema: [],
+            messages: Object.fromEntries(RESULT_PROBLEMS.map((p) => [p, "{{text}}"])),
+        },
+        create: (context) => reportOn(context, deps),
+    },
+});
+/** Its level in paperlint's own config: an error. */
+export const RESULT_RULE_LEVELS = {
+    "repro/study-result": "error",
+};
+//# sourceMappingURL=study-result-rule.js.map

package/dist/study-result-rule.js.map

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package/docs/design/study-gates.md

@@ -0,0 +1,208 @@
+# The gates of a plan v2
+
+Issue [#332](https://github.com/zernie/paperlint/issues/332). A measurement study's `plan.json` says,
+before the run, what makes its number worth believing; after the run its `result.json` shows it.
+Two rules hold it: [`repro/study-registered`](../rules/repro/study-registered.md) reads the plan,
+[`repro/study-result`](../rules/repro/study-result.md) reads the result. The code is
+`src/domain/study-gates.ts`, `src/domain/study-result.ts` and the parser in
+`src/adapters/study-registry/`.
+
+## Where it came from
+
+A consumer paper's main measurement drew rules out of repositories, ran several executed "readings" of
+each rule, and counted how often the readings disagreed. Refuting its design by hand found two holes:
+
+- **It could not lose.** A reading that flagged nothing made every other reading "disagree", so the
+  number came out in the design's favour whatever the rules said.
+- **Readings were not tied to the rule's text.** For "max line length 100", readings of 79, 88, 100
+  and 120 counted as interpretations, though three of them contradict the text. The number measured
+  how varied configurations are, not how vague the rule is.
+
+The neighbours of that paper that hold up report four checks this design lacked: two raters with an
+agreement statistic (Cohen's kappa 0.86 and 0.89 in two of them), errors planted to see that the
+checker catches them, every dropped unit counted, and an audit of the extractor — one neighbour read
+50 files in full and reports that its extraction caught 66.3% of the eligible rules. A preregistration template —
+AsPredicted's eight questions — asks "Specify exactly which analyses you will conduct to examine the
+main question/hypothesis"; the plan had no field for what decides the question.
+
+## Versions
+
+A plan says it is v2 with `"$schema": "https://unpkg.com/paperlint/schemas/plan.v2.schema.json"`.
+
+| plan              | judged                                                                    |
+| ----------------- | ------------------------------------------------------------------------- |
+| no `$schema` (v1) | as before; it may carry none of the gates                                 |
+| v2                | every gate present: `null` (not decided: a draft), `"none"`, or its value |
+
+A measurement registered on or after **2026-10-31** must have a plan v2 (`plan-version`), so dropping
+the marker is no way around the gates. A measurement registered earlier keeps its plan v1; nothing it
+had turns red. `paperlint studies new` writes a measurement's plan as v2. A later field is a v3, the
+same way: v2 plans keep passing.
+
+**There is no optional gate.** A gate left out of a plan v2 makes the file "not a study plan". The one
+way to say "not this study" is the literal `"none"`, written where the reader of the diff sees it.
+
+## The five gates
+
+### `mode.we_lose_if` — the claim can lose
+
+```json
+"mode": {
+  "kind": "decide_before_run",
+  "outputs": ["result.json"],
+  "decision": { "file": "repro/P1-S07-readings/decision.md", "note": "…" },
+  "we_lose_if": { "result": "share_upper95", "below": 0.20 }
+}
+```
+
+`result` names a number the study writes in `result.json`; `below` **or** `above` (exactly one) is
+the threshold. It lives only in a decide-first mode: an `exploratory` study has no claim to lose, and
+its mode cannot hold one. The name is the study's own: `share_upper95` in one study, `fix_rate` in
+another.
+
+- **Checked:** present, its shape; after the run, the number is there, and when it crosses the
+  threshold `result.json` says `"claim": "lost"` (`claim-lost`), never of a claim that holds
+  (`claim-holds`).
+- **Not checked:** that the number named is the right one to decide the question — the author's
+  check.
+
+**Frozen at the first output.** All five gates are held by git's history
+([`repro/outputs-before-decision`](../rules/repro/outputs-before-decision.md)): the plan as it stood
+at the commit of the study's first output (the first that came after its decision) must declare each
+gate exactly as HEAD's plan does. A gate edited since is `gates-changed`: a threshold moved after the
+result was seen can only follow the result. A plan that was not in history yet at that commit, or was
+a v1 or unreadable there, is `gates-not-fixed`. Edits to other parts of the plan (its question, its
+source) are not reported.
+
+### `second_check` — two raters on each labelling step
+
+```json
+"second_check": [
+  { "step": "lint-checkable", "min_kappa": 0.60 },
+  { "step": "admissible",     "min_kappa": 0.60 }
+]
+```
+
+One entry per step on which a model or a person labels units, with the least Cohen's kappa
+(agreement between two raters beyond chance) the two raters must reach. The threshold is fixed
+before labelling, so a kappa of 0.4 cannot be called good enough after it is seen. Landis and Koch's
+bands (0.61–0.80 "substantial") are a common reference, and an opinion, not evidence: the study
+chooses its own and says why in its design. `"none"` when nothing is labelled.
+
+In the consumer paper the second hole above is closed here: whether a reading fits the rule's text
+is the `admissible` labelling step.
+
+- **Checked:** each step's kappa is in `result.json`'s `kappa` and at least its `min_kappa`.
+- **Not checked:** who the raters were, how the subset was drawn — that stays in the design. A
+  `"none"` on a study that does label is caught only by the author's check.
+
+### `self_test` — the checker is run on known answers first
+
+```json
+"self_test": { "made_by": "scripts/extract.selftest.mjs" }
+"self_test": { "must_catch": "self-test/bad.js", "must_pass": "self-test/good.js" }
+```
+
+When the study runs a check (a linter rule, a script, a classifier) its zero means nothing until the
+check has caught an input it must catch and passed one it must pass. Either a script makes and runs
+such pairs (`made_by`), or the plan names one pair; the inputs are of whatever type the check reads.
+Paths are inside the study's folder. `"none"` when the study runs no check.
+
+- **Checked:** the paths stay in the folder; after the run, `result.json`'s
+  `"self_test": { "passed": n, "failed": n }` is there and `failed` is 0.
+
+### `funnel` — every drop counted
+
+```json
+"funnel": ["no linter rule", "< 2 admissible readings", "no files in scope", "clone failed"]
+```
+
+The reasons a drawn unit may be dropped, each once, fixed before the draw — a study cannot invent a
+reason for a unit it would rather not count. Like a trial's flow diagram, which "displays the
+progress of all participants through the trial" (CONSORT). `"none"` when no unit is dropped.
+
+- **Checked:** `result.json`'s `funnel` holds a count for every reason (0 when none).
+
+### `recall_audit` — how much the extractor misses
+
+```json
+"recall_audit": { "n_files": 50, "min_recall": 0.6 }
+```
+
+A study that draws units out of artefacts (rules out of instruction files, functions out of code)
+counts only what its extractor found. A person reads `n_files` files of a seeded sample in full and
+marks every unit there; the recall is the share of those units the extractor found too. Without it, a
+reviewer's "how many did your parser miss?" has no number. `"none"` when nothing is extracted (the
+units are given, or a person draws them by hand).
+
+```
+ STAGE          WHO WRITES                 WHICH RULE                  RED WHEN
+ ─────────────  ─────────────────────────  ──────────────────────────  ──────────────────────────────
+ 1 plan         the author (+ agent):      repro/study-registered      key missing (schema error);
+   (before        "recall_audit":                                      null while the study runs
+    the run)      {n_files, min_recall}    repro/outputs-before-       changed after the first output
+                                           decision                    (gates-changed)
+ 2 run          the study's script:        —                           —
+                  extracts units
+ 3 audit        a PERSON reads n_files     —                           —
+                  sampled files in full,
+                  marks every unit (a
+                  build-label-page page)
+ 4 result       the study's script:        repro/study-result          counts missing (no-recall-audit);
+   (after         "recall_audit":          (when the study is done)    files < n_files (recall-sample);
+    the run)      {files, units_in_files,                              extracted / units_in_files
+                   extracted}                                          < min_recall (recall);
+                                                                       extracted > units_in_files
+                                                                       (result unreadable)
+ FIRES:  in the editor on save · npx paperlint lint · the paper's CI
+ CANNOT SEE:  whether the person really read the files in full, or counted right;
+              whether the sample was drawn as the design says
+```
+
+`result.json` carries the counts, not a share: the files are checked against the plan, and the
+recall is computed by the rule (`extracted / units_in_files`), so a share rounded in the study's
+favour cannot pass.
+
+- **Checked:** the counts are there; at least `n_files` files; the recall at least `min_recall`.
+- **Not checked:** the reading itself — the labels of the audit are data the study exports and
+  commits, like any other labels.
+
+## `result.json`
+
+The study's own script writes it beside the plan; the rule only reads it.
+
+```json
+{
+  "share_upper95": 0.31,
+  "kappa": { "lint-checkable": 0.71, "admissible": 0.64 },
+  "self_test": { "passed": 212, "failed": 0 },
+  "funnel": {
+    "no linter rule": 400,
+    "< 2 admissible readings": 37,
+    "no files in scope": 5,
+    "clone failed": 3
+  },
+  "recall_audit": { "files": 50, "units_in_files": 95, "extracted": 63 }
+}
+```
+
+Its own numbers go at the top under any name. `kappa`, `self_test`, `funnel`, `recall_audit` and
+`claim` have the shapes above. It is judged once the study is `done`.
+
+## What a machine never sees
+
+A `"none"` that is false, a threshold chosen to be easy, a `result` that names the wrong number. These
+are read by the author when they approve the plan (`author_check`) — which is why the gates are few,
+named in plain words, and visible in the diff.
+
+## Rejected
+
+- **Optional gates, "when they apply".** An author who forgets one would read as an author who did
+  not need it. Every gate is present and says `"none"` out loud.
+- **A "kind of measurement" field choosing which gates apply.** One more field that can be wrong;
+  `"none"` per gate says the same thing where it is checked.
+- **Free-text gates** (`why`, `raters`, the subset's share and seed). No check reads them; they stay
+  in the study's design.
+- **A gate per study design** (admissibility of executed versions, a replication frame, one unit per
+  cluster). Specific to one paper so far; a paper keeps such keys in the plan's `extra` until two
+  papers have needed them unchanged.

package/docs/rules/repro/outputs-before-decision.md

@@ -42,6 +42,12 @@ A study decided before its run — its plan's `mode` is `decide_before_run`, the
 - **`shallow`** — the clone is shallow, so every file's first commit is the clone's: no order can be
   read, and the rule says so instead of judging.
 - **`no-history`** — git could not answer (not installed, not a repository).
+- **`gates-changed`** — the plan is a plan v2 ([`docs/design/study-gates.md`](../../design/study-gates.md)),
+  and one of its gates (`mode.we_lose_if`, `second_check`, `self_test`, `funnel`, `recall_audit`) differs from what
+  the plan declared at the commit of the study's first output after its decision: a threshold moved
+  after a result exists. One finding per changed gate, with its value then and now.
+- **`gates-not-fixed`** — the plan v2 was not in history at that commit, or was a plan v1 or no
+  readable plan there: its gates were not fixed before the run.
 
 The study's own files — `plan.json`, `README.md` and the decision file — are never outputs. A symbolic
 link in the study's folder is one entry, as git stores it, and is never followed: a link to the folder
@@ -93,6 +99,8 @@ No rule options. The study declares its mode in its plan.
 - What the decision says. The gate is that it is committed, not its content.
 - **A decision amended after the outputs**: the order is between FIRST commits. A later edit of the
   decision file is visible in its history (`git log -- <file>`) but not reported.
+- A plan v1, or a plan v2's parts other than its four gates: the question, the source and the note
+  may be reworded after the outputs. Only the gates are frozen.
 - That nobody ran the study before the decision and kept the outputs out of git. History records
   what was committed; a run on a machine that never committed it leaves no trace.
 - A study whose row names a folder that is not one inside `repro/` (`../x`), or a folder that is a