kibi-cli 2.1.0 → 2.2.0

package/dist/cli-protocol.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"cli-protocol.d.ts","sourceRoot":"","sources":["../src/cli-protocol.ts"],"names":[],"mappings":"AAIA,OAAO,EACL,KAAK,mBAAmB,EAEzB,MAAM,mBAAmB,CAAC;AAK3B,OAAO,KAAK,EAAE,gBAAgB,EAAE,MAAM,sCAAsC,CAAC;AAO7E,MAAM,MAAM,UAAU,GAAG,gBAAgB,GAAG;IAC1C,QAAQ,CAAC,mBAAmB,CAAC,EAAE,mBAAmB,CAAC;CACpD,CAAC;AAGF,MAAM,MAAM,iBAAiB,GAAG;IAC9B,QAAQ,CAAC,QAAQ,EAAE,MAAM,CAAC;IAC1B,QAAQ,CAAC,MAAM,CAAC,EAAE,MAAM,CAAC;IACzB,QAAQ,CAAC,MAAM,CAAC,EAAE,MAAM,CAAC;CAC1B,CAAC;AA+CF,wBAAsB,gBAAgB,CACpC,WAAW,EAAE,MAAM,EACnB,KAAK,EAAE,OAAO,EACd,OAAO,EAAE,UAAU,GAClB,OAAO,CAAC,iBAAiB,CAAC,CAwD5B"}
+{"version":3,"file":"cli-protocol.d.ts","sourceRoot":"","sources":["../src/cli-protocol.ts"],"names":[],"mappings":"AAIA,OAAO,EACL,KAAK,mBAAmB,EAEzB,MAAM,mBAAmB,CAAC;AAK3B,OAAO,KAAK,EAAE,gBAAgB,EAAE,MAAM,sCAAsC,CAAC;AAO7E,MAAM,MAAM,UAAU,GAAG,gBAAgB,GAAG;IAC1C,QAAQ,CAAC,mBAAmB,CAAC,EAAE,mBAAmB,CAAC;CACpD,CAAC;AAGF,MAAM,MAAM,iBAAiB,GAAG;IAC9B,QAAQ,CAAC,QAAQ,EAAE,MAAM,CAAC;IAC1B,QAAQ,CAAC,MAAM,CAAC,EAAE,MAAM,CAAC;IACzB,QAAQ,CAAC,MAAM,CAAC,EAAE,MAAM,CAAC;CAC1B,CAAC;AAiDF,wBAAsB,gBAAgB,CACpC,WAAW,EAAE,MAAM,EACnB,KAAK,EAAE,OAAO,EACd,OAAO,EAAE,UAAU,GAClB,OAAO,CAAC,iBAAiB,CAAC,CAyD5B"}

package/dist/cli-protocol.js

@@ -5,13 +5,14 @@ import { isOperationName } from "./cli-operation-metadata.js";
 import { prepareOperationInput, } from "./cli-validate.js";
 import { operationData, toKibiResult, } from "./public/operations/result-envelope.js";
 const outputValidator = new Ajv2020({ strict: false, allErrors: true });
-function errorResult(operation, error, spec) {
+function errorResult(operation, error, spec, attempted = true) {
     const envelope = toKibiResult(spec ?? {
         name: operation,
         effects: [],
         resultVersion: `kibi.${operation}.v1`,
     }, null, {
         status: "error",
+        attempted,
         error: {
             code: error.code,
             message: error.detail,
@@ -42,7 +43,7 @@ export async function executeOperation(catalogName, input, context) {
     const spec = await loadOperationSpec(catalogName);
     const prepared = prepareOperationInput(input, spec.businessInputSchema);
     if (!prepared.valid) {
-        return errorResult(catalogName, new InputError("VALIDATION_FAILED", prepared.errors.join("; ")), spec);
+        return errorResult(catalogName, new InputError("VALIDATION_FAILED", prepared.errors.join("; ")), spec, false);
     }
     try {
         const executionContext = prepared.telemetry

package/dist/commands/aggregated-checks.d.ts

@@ -1,5 +1,12 @@
 import { type PrologProcess } from "../prolog.js";
 import type { Violation } from "./check.js";
+/**
+ * Forward the invoking process's ontology-quality thresholds. The engine
+ * daemon outlives the CLI/MCP call that started it, so its own environment
+ * would otherwise decide. Prolog validates the values and falls back to its
+ * defaults for anything out of range.
+ */
+export declare function ontologyQualityOverridesGoal(env?: NodeJS.ProcessEnv): string;
 /**
  * Run all checks using the aggregated Prolog predicates.
  * This makes a single Prolog call and parses JSON output, significantly

package/dist/commands/aggregated-checks.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"aggregated-checks.d.ts","sourceRoot":"","sources":["../../src/commands/aggregated-checks.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,KAAK,aAAa,EAAmB,MAAM,cAAc,CAAC;AAEnE,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,YAAY,CAAC;AAW5C;;;;;;GAMG;AACH,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,IAAI,CAAC,aAAa,EAAE,OAAO,CAAC,EACpC,cAAc,EAAE,GAAG,CAAC,MAAM,CAAC,GAAG,IAAI,GACjC,OAAO,CAAC,SAAS,EAAE,CAAC,CA8DtB"}
+{"version":3,"file":"aggregated-checks.d.ts","sourceRoot":"","sources":["../../src/commands/aggregated-checks.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,KAAK,aAAa,EAAmB,MAAM,cAAc,CAAC;AAEnE,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,YAAY,CAAC;AAiB5C;;;;;GAKG;AAEH,wBAAgB,4BAA4B,CAC1C,GAAG,GAAE,MAAM,CAAC,UAAwB,GACnC,MAAM,CAYR;AAED;;;;;;GAMG;AACH,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,IAAI,CAAC,aAAa,EAAE,OAAO,CAAC,EACpC,cAAc,EAAE,GAAG,CAAC,MAAM,CAAC,GAAG,IAAI,GACjC,OAAO,CAAC,SAAS,EAAE,CAAC,CA8DtB"}

package/dist/commands/aggregated-checks.js

@@ -1,6 +1,30 @@
 import path from "node:path";
 import { resolveKbPlPath } from "../prolog.js";
 import { escapeAtom, toPrologAtom } from "../prolog/codec.js";
+function ontologyQualitySetting(raw) {
+    if (raw === undefined || raw.trim() === "")
+        return "default";
+    const value = Number(raw.trim());
+    return Number.isFinite(value) ? String(value) : "default";
+}
+/**
+ * Forward the invoking process's ontology-quality thresholds. The engine
+ * daemon outlives the CLI/MCP call that started it, so its own environment
+ * would otherwise decide. Prolog validates the values and falls back to its
+ * defaults for anything out of range.
+ */
+// implements REQ-kibi-ontology-quality
+export function ontologyQualityOverridesGoal(env = process.env) {
+    const ratio = ontologyQualitySetting(env.KIBI_ONTOLOGY_QUALITY_MAX_SINGLETON_RATIO);
+    const minFacts = ontologyQualitySetting(env.KIBI_ONTOLOGY_QUALITY_MIN_FACTS);
+    // call/1 defers resolution: a literal module-qualified goal is checked by
+    // the toplevel when the query is read, before use_module has loaded
+    // semantic_quality.pl (the same reason the check calls use call/1).
+    return `(   predicate_property(semantic_quality:set_ontology_quality_overrides(_, _), defined)
+    ->  call(semantic_quality:set_ontology_quality_overrides(${ratio}, ${minFacts}))
+    ;   true
+    )`;
+}
 /**
  * Run all checks using the aggregated Prolog predicates.
  * This makes a single Prolog call and parses JSON output, significantly
@@ -25,7 +49,7 @@ export async function runAggregatedChecks(prolog, rulesAllowlist) {
       ;   ${fallbackQuery}
       )`
         : fallbackQuery;
-    const query = `(use_module('${checksPlPathEscaped}'), ${checksQuery})`;
+    const query = `(use_module('${checksPlPathEscaped}'), ${ontologyQualityOverridesGoal()}, ${checksQuery})`;
     const result = await prolog.query(query);
     if (!result.success) {
         throw new Error(`Aggregated checks query failed: ${result.error || "Unknown error"}`);

package/dist/commands/check.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"check.d.ts","sourceRoot":"","sources":["../../src/commands/check.ts"],"names":[],"mappings":"AA8BA,OAAO,EAAE,aAAa,EAAE,MAAM,cAAc,CAAC;AAgE7C,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,2BAA2B,CAAC;AAE3D,YAAY,EAAE,SAAS,EAAE,CAAC;AAE1B,MAAM,WAAW,YAAY;IAC3B,GAAG,CAAC,EAAE,OAAO,CAAC;IACd,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,QAAQ,CAAC,EAAE,MAAM,GAAG,MAAM,CAAC;IAC3B,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,MAAM,CAAC,EAAE,MAAM,GAAG,MAAM,CAAC;CAC1B;AAifD,wBAAgB,mBAAmB,CAAC,CAAC,EAAE,CAAC,EACtC,MAAM,EAAE,CAAC,GAAG,IAAI,GAAG,SAAS,EAC5B,MAAM,EAAE,CAAC,GAAG,IAAI,GAAG,SAAS,GAC3B,WAAW,CAAC,CAAC,GAAG,CAAC,CAAC,CAMpB;AAGD,wBAAsB,YAAY,CAChC,OAAO,EAAE,YAAY,GACpB,OAAO,CAAC;IAAE,QAAQ,EAAE,MAAM,CAAA;CAAE,CAAC,CAib/B;AAED,wBAAsB,yBAAyB,CAC7C,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAoDtB;AAID,wBAAsB,oBAAoB,CACxC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,MAAM,EAAE,CAAC,CAgBnB;AAED,wBAAsB,eAAe,CACnC,MAAM,EAAE,aAAa,EACrB,IAAI,CAAC,EAAE,MAAM,GACZ,OAAO,CAAC,MAAM,EAAE,CAAC,CAiBnB;AACD,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CA+DtB;AAID,wBAAsB,aAAa,CACjC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAmGtB;AAED,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,EACrB,YAAY,EAAE,MAAM,EAAE,GACrB,OAAO,CAAC,SAAS,EAAE,CAAC,CAyCtB;AAED,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAgDtB;AAED,wBAAsB,yBAAyB,CAC7C,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CA0BtB;AAED,wBAAsB,oBAAoB,CACxC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAqBtB;AAED,wBAAsB,yBAAyB,CAC7C,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAqBtB;AAED,wBAAsB,oBAAoB,CACxC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAqBtB;AAED,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CA+BtB"}
+{"version":3,"file":"check.d.ts","sourceRoot":"","sources":["../../src/commands/check.ts"],"names":[],"mappings":"AA8BA,OAAO,EAAE,aAAa,EAAE,MAAM,cAAc,CAAC;AAiE7C,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,2BAA2B,CAAC;AAE3D,YAAY,EAAE,SAAS,EAAE,CAAC;AAE1B,MAAM,WAAW,YAAY;IAC3B,GAAG,CAAC,EAAE,OAAO,CAAC;IACd,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,QAAQ,CAAC,EAAE,MAAM,GAAG,MAAM,CAAC;IAC3B,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,MAAM,CAAC,EAAE,MAAM,GAAG,MAAM,CAAC;CAC1B;AAifD,wBAAgB,mBAAmB,CAAC,CAAC,EAAE,CAAC,EACtC,MAAM,EAAE,CAAC,GAAG,IAAI,GAAG,SAAS,EAC5B,MAAM,EAAE,CAAC,GAAG,IAAI,GAAG,SAAS,GAC3B,WAAW,CAAC,CAAC,GAAG,CAAC,CAAC,CAMpB;AAGD,wBAAsB,YAAY,CAChC,OAAO,EAAE,YAAY,GACpB,OAAO,CAAC;IAAE,QAAQ,EAAE,MAAM,CAAA;CAAE,CAAC,CA4b/B;AAED,wBAAsB,yBAAyB,CAC7C,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAoDtB;AAID,wBAAsB,oBAAoB,CACxC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,MAAM,EAAE,CAAC,CAgBnB;AAED,wBAAsB,eAAe,CACnC,MAAM,EAAE,aAAa,EACrB,IAAI,CAAC,EAAE,MAAM,GACZ,OAAO,CAAC,MAAM,EAAE,CAAC,CAiBnB;AACD,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAgEtB;AAID,wBAAsB,aAAa,CACjC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAmGtB;AAED,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,EACrB,YAAY,EAAE,MAAM,EAAE,GACrB,OAAO,CAAC,SAAS,EAAE,CAAC,CAyCtB;AAED,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAgDtB;AAED,wBAAsB,yBAAyB,CAC7C,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CA0BtB;AAED,wBAAsB,oBAAoB,CACxC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAqBtB;AAED,wBAAsB,yBAAyB,CAC7C,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAqBtB;AAED,wBAAsB,oBAAoB,CACxC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CAqBtB;AAED,wBAAsB,mBAAmB,CACvC,MAAM,EAAE,aAAa,GACpB,OAAO,CAAC,SAAS,EAAE,CAAC,CA+BtB"}

package/dist/commands/check.js

@@ -29,6 +29,7 @@ import { KIBI_NO_IMPACT_DECLARATION, KIBI_SYMBOLS_MANIFEST_PATH, KIBI_SYMBOL_COO
 import { getStagedInventory, supportedStagedFiles, } from "../traceability/git-staged.js";
 import { validateStagedMarkdown } from "../traceability/markdown-validate.js";
 import { collectStagedKibiDiagnostics, } from "../traceability/staged-diagnostics.js";
+import { createStagedEntityIdStyleDiagnostics } from "../traceability/staged-entity-id-style.js";
 import { analyzeStagedFileCoverage, } from "../traceability/staged-file-coverage.js";
 import { classifyKibiImpactEvidence, isBehaviorSourceEdit, parseKibiImpactOverride, } from "../traceability/staged-impact-contract.js";
 import { assessStagedSymbolsManifest, collectStagedAuthoredSymbolsManifestEvidence, } from "../traceability/staged-symbols-manifest.js";
@@ -544,23 +545,26 @@ export async function checkCommand(options) {
                         ? { activeEntityIds: activeStagedSymbolEntityIds }
                         : {}),
                     symbolsByFile,
-                }), ...createSemanticReviewDiagnostics({ symbolsByFile }));
+                }), ...createSemanticReviewDiagnostics({ symbolsByFile }), ...createStagedEntityIdStyleDiagnostics(markdownFiles));
                 if (allSymbols.length === 0 && stagedEntityResults.length === 0) {
                     if (stagedKibiDiagnostics.length > 0) {
+                        const blocking = hasBlockingImpactDiagnostics(stagedKibiDiagnostics);
                         printStagedResult({
                             format: options.format,
                             coverage: stagedCoverage,
                             qualityDiagnostics: stagedKibiDiagnostics,
-                            messages: [formatStagedKibiDiagnostics(stagedKibiDiagnostics)],
+                            messages: [
+                                formatStagedKibiDiagnostics(stagedKibiDiagnostics),
+                                // Advisory-only findings still pass; say so explicitly.
+                                ...(!blocking
+                                    ? ["✓ No violations found in staged files."]
+                                    : []),
+                            ],
                         });
                         if (options.dryRun) {
                             return { exitCode: 0 };
                         }
-                        return {
-                            exitCode: hasBlockingImpactDiagnostics(stagedKibiDiagnostics)
-                                ? 1
-                                : 0,
-                        };
+                        return { exitCode: blocking ? 1 : 0 };
                     }
                     printStagedResult({
                         format: options.format,
@@ -573,20 +577,23 @@ export async function checkCommand(options) {
                 }
                 if (allSymbols.length === 0) {
                     if (stagedKibiDiagnostics.length > 0) {
+                        const blocking = hasBlockingImpactDiagnostics(stagedKibiDiagnostics);
                         printStagedResult({
                             format: options.format,
                             coverage: stagedCoverage,
                             qualityDiagnostics: stagedKibiDiagnostics,
-                            messages: [formatStagedKibiDiagnostics(stagedKibiDiagnostics)],
+                            messages: [
+                                formatStagedKibiDiagnostics(stagedKibiDiagnostics),
+                                // Advisory-only findings still pass; say so explicitly.
+                                ...(!blocking
+                                    ? ["✓ No violations found in staged files."]
+                                    : []),
+                            ],
                         });
                         if (options.dryRun) {
                             return { exitCode: 0 };
                         }
-                        return {
-                            exitCode: hasBlockingImpactDiagnostics(stagedKibiDiagnostics)
-                                ? 1
-                                : 0,
-                        };
+                        return { exitCode: blocking ? 1 : 0 };
                     }
                     printStagedResult({
                         format: options.format,
@@ -850,6 +857,7 @@ export async function checkNoDanglingRefs(prolog) {
         "constrains",
         "requires_property",
         "supersedes",
+        "restates",
         "relates_to",
     ];
     const allRels = [];

package/dist/commands/doctor.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"doctor.d.ts","sourceRoot":"","sources":["../../src/commands/doctor.ts"],"names":[],"mappings":"AA6DA,MAAM,WAAW,aAAa;IAC5B,MAAM,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC;CAC3B;AAGD,wBAAsB,aAAa,CACjC,OAAO,GAAE,aAAkB,GAC1B,OAAO,CAAC;IAAE,QAAQ,EAAE,MAAM,CAAA;CAAE,CAAC,CAwF/B;AAED,wBAAsB,4BAA4B,CAChD,IAAI,GAAE,MAAM,OAAO,CAAC;IAAE,gBAAgB,CAAC,EAAE,OAAO,CAAA;CAAE,CACT,GACxC,OAAO,CAAC,OAAO,CAAC,CAOlB;AAED,wBAAsB,uBAAuB,CAC3C,OAAO,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;;;;;;;;;;;;;;;;MAkE3C;AAkGD,wBAAgB,qBAAqB,CAAC,OAAO,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAGzE;AAED,wBAAgB,2BAA2B,CACzC,QAAQ,EAAE,MAAM,EAChB,IAAI,EAAE,MAAM,GACX,MAAM,GAAG,SAAS,CAepB"}
+{"version":3,"file":"doctor.d.ts","sourceRoot":"","sources":["../../src/commands/doctor.ts"],"names":[],"mappings":"AAkEA,MAAM,WAAW,aAAa;IAC5B,MAAM,CAAC,EAAE,MAAM,GAAG,OAAO,CAAC;CAC3B;AAGD,wBAAsB,aAAa,CACjC,OAAO,GAAE,aAAkB,GAC1B,OAAO,CAAC;IAAE,QAAQ,EAAE,MAAM,CAAA;CAAE,CAAC,CAgG/B;AAED,wBAAsB,4BAA4B,CAChD,IAAI,GAAE,MAAM,OAAO,CAAC;IAAE,gBAAgB,CAAC,EAAE,OAAO,CAAA;CAAE,CACT,GACxC,OAAO,CAAC,OAAO,CAAC,CAOlB;AAED,wBAAsB,uBAAuB,CAC3C,OAAO,EAAE,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;;;;;;;;;;;;;;;;MAkE3C;AAkGD,wBAAgB,qBAAqB,CAAC,OAAO,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAGzE;AAED,wBAAgB,2BAA2B,CACzC,QAAQ,EAAE,MAAM,EAChB,IAAI,EAAE,MAAM,GACX,MAAM,GAAG,SAAS,CAepB"}

package/dist/commands/doctor.js

@@ -23,7 +23,9 @@ import { fileURLToPath } from "node:url";
 import { bootstrapKibiEnvironment, secretSourceFromBootstrap, } from "../env/bootstrap.js";
 import { describeConfiguredCapabilityPlugins, readProjectKibiConfig, } from "../plugins/project-config.js";
 import { buildMigrationPlan, migrationAction, } from "../public/operations/migration-plan.js";
+import { resolveGitRepository, } from "../utils/git-repository-context.js";
 import { readKbManifestStatus } from "../utils/kb-manifest.js";
+import { hasManagedHooks, outdatedManagedHooks } from "./init-helpers.js";
 import { planLegacyStorageMigration } from "./legacy-storage-migration.js";
 /**
  * First-party plugin diagnostics known without importing the package.
@@ -38,6 +40,10 @@ const JEV_DEFAULT_MODEL = "jev-latest";
 const JEV_MAX_TIMEOUT_MS = 120_000;
 // implements REQ-003
 export async function doctorCommand(options = {}) {
+    // The repository context is per-diagnostic-run state: clearing here keeps
+    // repeated in-process invocations honest when core.hooksPath changes
+    // between runs, without introducing another ambient cache.
+    cachedRepositoryContext = undefined;
     const checks = [
         {
             name: "SWI-Prolog",
@@ -71,6 +77,10 @@ export async function doctorCommand(options = {}) {
             name: "post-rewrite hook",
             check: checkPostRewriteHook,
         },
+        {
+            name: "Kibi-managed hook sections",
+            check: checkManagedHookSections,
+        },
         {
             name: "Capability plugins",
             check: checkCapabilityPlugins,
@@ -525,15 +535,86 @@ function checkGitRepository() {
         };
     }
 }
+// Hook health must be diagnosed against the hooks directory Git actually
+// executes (resolved via git rev-parse --git-path hooks, honoring
+// core.hooksPath and linked worktrees), not against <cwd>/.git/hooks.
+// implements REQ-git-hook-effective-install
+let cachedRepositoryContext;
+function doctorRepositoryContext() {
+    const cwd = process.cwd();
+    if (cachedRepositoryContext?.cwd !== cwd) {
+        const resolution = resolveGitRepository(cwd);
+        cachedRepositoryContext = {
+            cwd,
+            context: resolution.status === "ok" ? resolution.context : null,
+        };
+    }
+    return cachedRepositoryContext.context;
+}
+function effectiveHooksDir() {
+    const context = doctorRepositoryContext();
+    return (context?.effectiveHooksDir ?? path.join(process.cwd(), ".git", "hooks"));
+}
+function shellQuote(value) {
+    return `'${value.replace(/'/g, `'\\''`)}'`;
+}
+function remediationHookPaths(...hooks) {
+    const dir = effectiveHooksDir();
+    return `Run: chmod +x ${hooks.map((hook) => shellQuote(path.join(dir, hook))).join(" ")}`;
+}
+function hooksPathSuffix() {
+    const context = doctorRepositoryContext();
+    if (!context?.hooksPathConfig)
+        return "";
+    const origin = context.hooksPathOrigin
+        ? ` from ${context.hooksPathOrigin}`
+        : "";
+    return ` (core.hooksPath=${context.hooksPathConfig}${origin})`;
+}
+/**
+ * Kibi-managed hook sections must match what this CLI installs. A section
+ * written by an older CLI keeps running while silently lacking newer gates
+ * (the pre-commit `check-generated` step, for example), and the other hook
+ * checks only confirm that kibi is invoked at all.
+ */
+// implements REQ-cli-doctor
+function checkManagedHookSections() {
+    const hooksDir = effectiveHooksDir();
+    let outdated;
+    try {
+        if (!hasManagedHooks(hooksDir)) {
+            return { passed: true, message: "Not installed (optional)" };
+        }
+        outdated = outdatedManagedHooks(hooksDir);
+    }
+    catch {
+        return {
+            passed: false,
+            message: "Unable to read hook content",
+            remediation: "Run: kibi init",
+        };
+    }
+    if (outdated.length > 0) {
+        return {
+            passed: false,
+            message: `Outdated for this Kibi CLI: ${outdated.join(", ")} (installed by a different version; newer gates may be missing)${hooksPathSuffix()}`,
+            remediation: "Run: kibi init to refresh the kibi-managed hook sections",
+        };
+    }
+    return { passed: true, message: "Current for this Kibi CLI" };
+}
 function checkGitHooks() {
-    const postCheckoutPath = path.join(process.cwd(), ".git/hooks/post-checkout");
-    const postMergePath = path.join(process.cwd(), ".git/hooks/post-merge");
+    const postCheckoutPath = path.join(effectiveHooksDir(), "post-checkout");
+    const postMergePath = path.join(effectiveHooksDir(), "post-merge");
+    const preCommitPath = path.join(effectiveHooksDir(), "pre-commit");
     const postCheckoutExists = existsSync(postCheckoutPath);
     const postMergeExists = existsSync(postMergePath);
-    if (!postCheckoutExists && !postMergeExists) {
+    // An existing pre-commit is hard enforcement; the companions being absent
+    // must not downgrade the summary to "optional".
+    if (!postCheckoutExists && !postMergeExists && !existsSync(preCommitPath)) {
         return {
             passed: true,
-            message: "Not installed (optional)",
+            message: `Not installed (optional)${hooksPathSuffix()}`,
         };
     }
     if (postCheckoutExists && postMergeExists) {
@@ -545,13 +626,13 @@ function checkGitHooks() {
             if (checkoutExecutable && mergeExecutable) {
                 return {
                     passed: true,
-                    message: "Installed and executable",
+                    message: `Installed and executable${hooksPathSuffix()}`,
                 };
             }
             return {
                 passed: false,
-                message: "Installed but not executable",
-                remediation: "Run: chmod +x .git/hooks/post-checkout .git/hooks/post-merge",
+                message: `Installed but not executable${hooksPathSuffix()}`,
+                remediation: remediationHookPaths("post-checkout", "post-merge"),
             };
         }
         catch (error) {
@@ -563,20 +644,20 @@ function checkGitHooks() {
     }
     return {
         passed: false,
-        message: "Partially installed",
+        message: `Partially installed${hooksPathSuffix()}`,
         remediation: "Run: kibi init",
     };
 }
 function checkPreCommitHook() {
-    const postCheckoutPath = path.join(process.cwd(), ".git/hooks/post-checkout");
-    const postMergePath = path.join(process.cwd(), ".git/hooks/post-merge");
-    const preCommitPath = path.join(process.cwd(), ".git/hooks/pre-commit");
+    const postCheckoutPath = path.join(effectiveHooksDir(), "post-checkout");
+    const postMergePath = path.join(effectiveHooksDir(), "post-merge");
+    const preCommitPath = path.join(effectiveHooksDir(), "pre-commit");
     const postCheckoutExists = existsSync(postCheckoutPath);
     const postMergeExists = existsSync(postMergePath);
-    if (!postCheckoutExists && !postMergeExists) {
+    if (!postCheckoutExists && !postMergeExists && !existsSync(preCommitPath)) {
         return {
             passed: true,
-            message: "Not installed (optional)",
+            message: `Not installed (optional)${hooksPathSuffix()}`,
         };
     }
     const preCommitExists = existsSync(preCommitPath);
@@ -620,7 +701,7 @@ function checkPreCommitHook() {
                 }
                 return {
                     passed: true,
-                    message: "Installed and executable (resolves kibi CLI; uses 'kibi check --staged')",
+                    message: `Installed and executable (resolves kibi CLI; uses 'kibi check --staged')${hooksPathSuffix()}`,
                 };
             }
             // Warn but pass if using legacy kibi check without --staged
@@ -632,8 +713,8 @@ function checkPreCommitHook() {
         }
         return {
             passed: false,
-            message: "Installed but not executable",
-            remediation: "Run: chmod +x .git/hooks/pre-commit",
+            message: `Installed but not executable${hooksPathSuffix()}`,
+            remediation: remediationHookPaths("pre-commit"),
         };
     }
     catch (error) {
@@ -645,15 +726,15 @@ function checkPreCommitHook() {
     }
 }
 function checkPostRewriteHook() {
-    const postCheckoutPath = path.join(process.cwd(), ".git/hooks/post-checkout");
-    const postMergePath = path.join(process.cwd(), ".git/hooks/post-merge");
-    const postRewritePath = path.join(process.cwd(), ".git/hooks/post-rewrite");
+    const postCheckoutPath = path.join(effectiveHooksDir(), "post-checkout");
+    const postMergePath = path.join(effectiveHooksDir(), "post-merge");
+    const postRewritePath = path.join(effectiveHooksDir(), "post-rewrite");
     const postCheckoutExists = existsSync(postCheckoutPath);
     const postMergeExists = existsSync(postMergePath);
-    if (!postCheckoutExists && !postMergeExists) {
+    if (!postCheckoutExists && !postMergeExists && !existsSync(postRewritePath)) {
         return {
             passed: true,
-            message: "Not installed (optional)",
+            message: `Not installed (optional)${hooksPathSuffix()}`,
         };
     }
     const postRewriteExists = existsSync(postRewritePath);
@@ -689,13 +770,13 @@ function checkPostRewriteHook() {
             }
             return {
                 passed: true,
-                message: "Installed and executable",
+                message: `Installed and executable${hooksPathSuffix()}`,
             };
         }
         return {
             passed: false,
-            message: "Installed but not executable",
-            remediation: "Run: chmod +x .git/hooks/post-rewrite",
+            message: `Installed but not executable${hooksPathSuffix()}`,
+            remediation: remediationHookPaths("post-rewrite"),
         };
     }
     catch (error) {

package/dist/commands/github-init.d.ts

@@ -2,7 +2,7 @@ export declare const GITHUB_REPORT_WORKFLOW_RELPATH = ".github/workflows/kibi-re
 export declare const GITHUB_BADGE_WORKFLOW_RELPATH = ".github/workflows/kibi-badge.yml";
 export declare const GITHUB_PAGES_NAMESPACE = "kibi-report";
 export declare const KIBI_BADGE_ALT = "Kibi requirement health";
-export declare const KIBI_METRIC_DOCS_URL = "https://github.com/Looted/kibi/blob/develop/docs/github-integration.md#what-the-badge-means";
+export declare const KIBI_METRIC_DOCS_URL = "https://looted.github.io/kibi/guide/github-integration.html#what-the-badge-means";
 export declare const PLACEHOLDER_OWNER = "OWNER";
 export declare const PLACEHOLDER_REPO = "REPOSITORY";
 export type GitHubRepo = Readonly<{

package/dist/commands/github-init.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"github-init.d.ts","sourceRoot":"","sources":["../../src/commands/github-init.ts"],"names":[],"mappings":"AA0BA,eAAO,MAAM,8BAA8B,sCACN,CAAC;AACtC,eAAO,MAAM,6BAA6B,qCAAqC,CAAC;AAChF,eAAO,MAAM,sBAAsB,gBAAgB,CAAC;AACpD,eAAO,MAAM,cAAc,4BAA4B,CAAC;AACxD,eAAO,MAAM,oBAAoB,qFACmD,CAAC;AACrF,eAAO,MAAM,iBAAiB,UAAU,CAAC;AACzC,eAAO,MAAM,gBAAgB,eAAe,CAAC;AAM7C,MAAM,MAAM,UAAU,GAAG,QAAQ,CAAC;IAChC,KAAK,EAAE,MAAM,CAAC;IACd,IAAI,EAAE,MAAM,CAAC;CACd,CAAC,CAAC;AAEH,MAAM,MAAM,SAAS,GAAG,QAAQ,CAAC;IAC/B,IAAI,EAAE,MAAM,CAAC;IACb,GAAG,EAAE,MAAM,CAAC;CACb,CAAC,CAAC;AAEH,MAAM,MAAM,eAAe,GAAG,QAAQ,CAAC;IACrC,OAAO,EAAE,MAAM,CAAC;IAChB,QAAQ,EAAE,MAAM,CAAC;CAClB,CAAC,CAAC;AAEH,MAAM,MAAM,kBAAkB,GAAG,QAAQ,GAAG,OAAO,CAAC;AAEpD,MAAM,MAAM,mBAAmB,GAAG,SAAS,GAAG,WAAW,GAAG,UAAU,CAAC;AACvE,MAAM,MAAM,iBAAiB,GACzB,SAAS,GACT,WAAW,GACX,SAAS,GACT,sBAAsB,CAAC;AAC3B,MAAM,MAAM,oBAAoB,GAAG,SAAS,GAAG,WAAW,CAAC;AAE3D,MAAM,MAAM,qBAAqB,GAAG,QAAQ,CAAC;IAC3C,GAAG,EAAE,MAAM,CAAC;IACZ,SAAS,EAAE,OAAO,CAAC;CACpB,CAAC,CAAC;AAEH,MAAM,MAAM,cAAc,GAAG,QAAQ,CAAC;IACpC,WAAW,CAAC,EAAE,CAAC,GAAG,EAAE,MAAM,KAAK,SAAS,EAAE,CAAC;IAC3C,GAAG,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;IAChC,KAAK,CAAC,EAAE,CAAC,OAAO,EAAE,MAAM,KAAK,IAAI,CAAC;CACnC,CAAC,CAAC;AAEH,MAAM,MAAM,oBAAoB,GAAG,QAAQ,CAAC;IAC1C,QAAQ,EAAE,MAAM,CAAC;IACjB,QAAQ,EAAE,mBAAmB,CAAC;IAC9B,MAAM,EAAE,iBAAiB,CAAC;IAC1B,SAAS,EAAE,oBAAoB,CAAC;IAChC,IAAI,EAAE,UAAU,GAAG,SAAS,CAAC;CAC9B,CAAC,CAAC;AAGH,wBAAgB,iBAAiB,IAAI,MAAM,CAE1C;AAED,wBAAgB,8BAA8B,CAC5C,IAAI,EAAE,kBAAkB,GACvB,MAAM,CAER;AAED,wBAAgB,0BAA0B,CAAC,IAAI,EAAE,kBAAkB,GAAG,MAAM,CAS3E;AAED,wBAAgB,iBAAiB,CAAC,GAAG,EAAE,MAAM,GAAG,UAAU,GAAG,SAAS,CA+BrE;AAED,wBAAgB,eAAe,CAAC,IAAI,EAAE,UAAU,GAAG,eAAe,CAUjE;AAED,wBAAgB,uBAAuB,CACrC,QAAQ,EAAE,MAAM,EAChB,OAAO,EAAE,MAAM,GACd,MAAM,CAER;AAED,wBAAgB,oBAAoB,IAAI,eAAe,CAKtD;AAED,wBAAgB,wBAAwB,CAAC,SAAS,EAAE,OAAO,GAAG,MAAM,CAMnE;AAED,wBAAgB,YAAY,CAAC,OAAO,EAAE,MAAM,GAAG,OAAO,CAErD;AAED,wBAAgB,gBAAgB,CAAC,GAAG,EAAE,MAAM,GAAG,MAAM,GAAG,SAAS,CAQhE;AAED,wBAAgB,eAAe,CAC7B,OAAO,EAAE,MAAM,EACf,aAAa,EAAE,MAAM,GACpB,MAAM,CAuBR;AAED,wBAAgB,cAAc,CAAC,GAAG,EAAE,MAAM,GAAG,SAAS,EAAE,CAiBvD;AAED,wBAAgB,iBAAiB,CAC/B,OAAO,EAAE,SAAS,SAAS,EAAE,GAC5B,UAAU,GAAG,SAAS,CASxB;AAED,wBAAgB,mBAAmB,CACjC,GAAG,EAAE,MAAM,EACX,IAAI,EAAE,kBAAkB,EACxB,QAAQ,EAAE,MAAM,GACf,mBAAmB,CAcrB;AAED,wBAAgB,yBAAyB,CAAC,GAAG,EAAE,MAAM,GAAG,oBAAoB,CAa3E;AAGD,wBAAgB,yBAAyB,CACvC,OAAO,EAAE,qBAAqB,EAC9B,IAAI,GAAE,cAAmB,GACxB,oBAAoB,CAsDtB;AAsDD,wBAAgB,cAAc,CAC5B,KAAK,EAAE,SAAS,MAAM,EAAE,EACxB,KAAK,EAAE,MAAM,GACZ,MAAM,CAMR"}

package/dist/commands/github-init.js

@@ -25,7 +25,7 @@ export const GITHUB_REPORT_WORKFLOW_RELPATH = ".github/workflows/kibi-report.yml
 export const GITHUB_BADGE_WORKFLOW_RELPATH = ".github/workflows/kibi-badge.yml";
 export const GITHUB_PAGES_NAMESPACE = "kibi-report";
 export const KIBI_BADGE_ALT = "Kibi requirement health";
-export const KIBI_METRIC_DOCS_URL = "https://github.com/Looted/kibi/blob/develop/docs/github-integration.md#what-the-badge-means";
+export const KIBI_METRIC_DOCS_URL = "https://looted.github.io/kibi/guide/github-integration.html#what-the-badge-means";
 export const PLACEHOLDER_OWNER = "OWNER";
 export const PLACEHOLDER_REPO = "REPOSITORY";
 const README_CANDIDATES = ["README.md", "readme.md", "Readme.md"];

package/dist/commands/init-helpers.d.ts

@@ -4,6 +4,21 @@ export declare function createManifestFile(kbDir: string): void;
 export declare function updateGitIgnore(cwd: string): void;
 export declare function ensureSymbolsManifestFile(cwd: string): void;
 export declare function copySchemaFiles(kbDir: string, schemaSourceDir: string): Promise<void>;
-export declare function installHook(hookPath: string, content: string): void;
-export declare function installGitHooks(gitDir: string): void;
+export type InstallHookResult = "installed" | "updated" | "skipped-foreign" | "skipped-symlink" | "skipped-unsupported";
+export declare function installHook(hookPath: string, content: string): InstallHookResult;
+export interface GitHookInstallResult {
+    hook: "pre-commit" | "post-checkout" | "post-merge" | "post-rewrite";
+    result: InstallHookResult;
+}
+/**
+ * Installed kibi-managed hooks whose managed section differs from what this
+ * CLI installs, such as a pre-commit gate written before `check-generated`
+ * joined it. User-authored hooks without kibi markers are not reported.
+ */
+export declare function outdatedManagedHooks(hooksDir: string): string[];
+/** Whether any hook in the directory carries a kibi-managed section. */
+export declare function hasManagedHooks(hooksDir: string): boolean;
+export declare function installGitHooks(hooksDir: string, options?: {
+    hooksPathOrigin?: string | null;
+}): GitHookInstallResult[];
 //# sourceMappingURL=init-helpers.d.ts.map

package/dist/commands/init-helpers.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"init-helpers.d.ts","sourceRoot":"","sources":["../../src/commands/init-helpers.ts"],"names":[],"mappings":"AAyIA,wBAAsB,gBAAgB,CACpC,GAAG,GAAE,MAAsB,GAC1B,OAAO,CAAC,MAAM,CAAC,CASjB;AAED,wBAAgB,0BAA0B,CACxC,KAAK,EAAE,MAAM,EACb,aAAa,EAAE,MAAM,GACpB,IAAI,CAUN;AAED,wBAAgB,kBAAkB,CAAC,KAAK,EAAE,MAAM,GAAG,IAAI,CAGtD;AAED,wBAAgB,eAAe,CAAC,GAAG,EAAE,MAAM,GAAG,IAAI,CA6BjD;AAkDD,wBAAgB,yBAAyB,CAAC,GAAG,EAAE,MAAM,GAAG,IAAI,CAU3D;AAED,wBAAsB,eAAe,CACnC,KAAK,EAAE,MAAM,EACb,eAAe,EAAE,MAAM,GACtB,OAAO,CAAC,IAAI,CAAC,CAYf;AASD,MAAM,MAAM,iBAAiB,GACzB,WAAW,GACX,SAAS,GACT,iBAAiB,GACjB,iBAAiB,GACjB,qBAAqB,CAAC;AAoB1B,wBAAgB,WAAW,CACzB,QAAQ,EAAE,MAAM,EAChB,OAAO,EAAE,MAAM,GACd,iBAAiB,CAyEnB;AAED,MAAM,WAAW,oBAAoB;IACnC,IAAI,EAAE,YAAY,GAAG,eAAe,GAAG,YAAY,GAAG,cAAc,CAAC;IACrE,MAAM,EAAE,iBAAiB,CAAC;CAC3B;AAiBD;;;;GAIG;AAEH,wBAAgB,oBAAoB,CAAC,QAAQ,EAAE,MAAM,GAAG,MAAM,EAAE,CAU/D;AAED,wEAAwE;AAExE,wBAAgB,eAAe,CAAC,QAAQ,EAAE,MAAM,GAAG,OAAO,CAQzD;AAED,wBAAgB,eAAe,CAC7B,QAAQ,EAAE,MAAM,EAChB,OAAO,GAAE;IAAE,eAAe,CAAC,EAAE,MAAM,GAAG,IAAI,CAAA;CAAO,GAChD,oBAAoB,EAAE,CA8CxB"}