@codyswann/lisa 3.4.1 → 3.5.0

package/README.md

@@ -172,6 +172,28 @@ bun add --dev --trust @codyswann/lisa
 
 Lisa's dependency `postinstall` runs `lisa apply` for that project. A later
 `bun update @codyswann/lisa` reapplies the updated project-scoped artifacts.
+
+That bootstrap is **loud but non-fatal**: a failed apply prints the real error
+plus a warning naming the consequence, and still exits 0, because a postinstall
+that aborts would break `bun install` in every environment where apply
+legitimately cannot run. The durable signal is
+`lisa doctor` — a successful apply writes `.lisa/apply-receipt.json`, and doctor
+reports any repo whose receipt is missing or older than the installed Lisa
+("this repo has not successfully applied templates since `<version>`"). Run it
+whenever a project seems to have stopped tracking upstream changes; a repo can
+otherwise sit silently stale for months.
+
+The same check covers a second, quieter gap. A package install runs apply in
+**postinstall-safe** mode (`--skip-git-check`), which deliberately skips every
+agent emit — Codex, Claude, agy, Copilot, OpenCode — and the Sonar integration,
+because those rewrite host-owned files. So no `bun install` at any version can
+reconcile `.codex/config.toml`; only a full `lisa apply .` does. Doctor now says
+so instead of reporting such a repo as current.
+
+Lisa drives `js-yaml` through one interop shim and works with the 3.x, 4.x, and
+5.x lines, so a host `overrides`/`resolutions` pin that collapses Lisa's own
+copy is fine. A pin Lisa genuinely cannot drive is reported by `lisa doctor` as
+a named incompatibility rather than a crash.
 Lisa does not register user-wide Codex plugins, skills, hooks, rules, MCP
 servers, or configuration. Other harnesses retain their existing delivery
 behavior. For a new project, run the CLI ephemerally with

package/all/copy-contents/gitignore

@@ -238,6 +238,13 @@ expo-env.d.ts
 # /lisa:automation-status. Runbooks are project knowledge; run records are not.
 .lisa/automations/runs/
 
+# Proof that `lisa apply` completed in THIS checkout, read by `lisa doctor` to
+# report a repo that has silently stopped receiving templates. Machine-local by
+# construction: committing it would churn on every version bump, conflict
+# between developers on different Lisa versions, and lie about a fresh clone
+# that has never installed.
+.lisa/apply-receipt.json
+
 # Remote-dispatch ledger. Records the sessions this machine started so a later
 # run can find them. Per developer by construction — each fires their own
 # routine under their own account — so committing it would collide on every

package/all/copy-overwrite/scripts/lisa-command-envelope.mjs

@@ -33,10 +33,41 @@ const SCHEMA_PATH = path.join(
   "lisa-command-envelope.v1.schema.json"
 );
 
-/** The published envelope schema, read from the shipped JSON document. */
-export const COMMAND_ENVELOPE_SCHEMA = JSON.parse(
-  fs.readFileSync(SCHEMA_PATH, "utf8")
-);
+/**
+ * Read the shipped schema document, or explain why it could not be read.
+ *
+ * A throw at module scope happens before any handler runs, so an adopter with a
+ * partially-copied `scripts/` directory got a raw ENOENT stack from an import
+ * they never made directly — and any caller that merely wanted to VALIDATE
+ * something died on load. Reading it into a nullable value instead turns that
+ * into a first-class, fail-closed validation error with the missing path named
+ * in it.
+ * @returns {{schema: object|null, error: string|null}} The schema or the reason.
+ */
+function readSchemaDocument() {
+  try {
+    return {
+      schema: JSON.parse(fs.readFileSync(SCHEMA_PATH, "utf8")),
+      error: null,
+    };
+  } catch (error) {
+    return {
+      schema: null,
+      error: `the published envelope schema is not readable at ${SCHEMA_PATH} (${error.message}); scripts/schemas/ must be copied alongside scripts/`,
+    };
+  }
+}
+
+const SCHEMA_DOCUMENT = readSchemaDocument();
+
+/**
+ * The published envelope schema, read from the shipped JSON document.
+ *
+ * `null` when the document is missing — see {@link readSchemaDocument}. Every
+ * consumer must treat that as a validation FAILURE, never as "no schema to
+ * check against".
+ */
+export const COMMAND_ENVELOPE_SCHEMA = SCHEMA_DOCUMENT.schema;
 
 /**
  * Statuses that may exit 0.
@@ -67,6 +98,9 @@ export function exitCodeForStatus(status) {
  * @returns {{ valid: boolean, errors: string[] }} Validation outcome
  */
 export function validateEnvelope(envelope) {
+  if (!COMMAND_ENVELOPE_SCHEMA) {
+    return { valid: false, errors: [SCHEMA_DOCUMENT.error] };
+  }
   const base = validateAgainstSchema(envelope, COMMAND_ENVELOPE_SCHEMA);
   if (!base.valid) {
     return base;
@@ -154,6 +188,12 @@ export function emitEnvelope(envelope, io = {}) {
  */
 export function main(argv) {
   if (argv.includes("--print-schema")) {
+    if (!COMMAND_ENVELOPE_SCHEMA) {
+      process.stderr.write(
+        `[command-envelope] FAIL: ${SCHEMA_DOCUMENT.error}\n`
+      );
+      return 1;
+    }
     process.stdout.write(
       `${JSON.stringify(COMMAND_ENVELOPE_SCHEMA, null, 2)}\n`
     );

package/all/copy-overwrite/scripts/lisa-schema-validate.mjs

@@ -9,7 +9,8 @@
  * keyword it does not implement**, so a schema can never silently validate less
  * than it claims: an unsupported keyword is a validator error, not a pass.
  *
- * Supported: `type`, `const`, `enum`, `required`, `properties`,
+ * Supported: `type` (a single name or an array of names), `const`, `enum`,
+ * `required`, `properties`,
  * `additionalProperties` (boolean), `items`, `minLength`, `minimum`, `pattern`,
  * `$ref` (local `#/$defs/<name>` only), `$defs`, plus the annotation-only
  * keywords `$schema`, `$id`, `title`, `description`.
@@ -79,15 +80,13 @@ function resolveRef(ref, root) {
 }
 
 /**
- * Validate one value against one subschema, appending human-readable errors.
- * @param {unknown} value - Value under validation
- * @param {object} schema - Subschema to apply
- * @param {object} root - Root schema document (for `$ref` resolution)
+ * Refuse any keyword this validator does not implement.
+ * @param {object} schema - Subschema to inspect
  * @param {string} instancePath - JSON-pointer-ish path for messages
- * @param {string[]} errors - Accumulator, mutated in place
  * @returns {void}
+ * @throws {Error} When the subschema uses an unimplemented keyword
  */
-function validateNode(value, schema, root, instancePath, errors) {
+function assertSupportedKeywords(schema, instancePath) {
   for (const keyword of Object.keys(schema)) {
     if (!SUPPORTED_KEYWORDS.has(keyword) && !ANNOTATION_KEYWORDS.has(keyword)) {
       throw new Error(
@@ -95,43 +94,76 @@ function validateNode(value, schema, root, instancePath, errors) {
       );
     }
   }
+}
 
-  if (typeof schema.$ref === "string") {
-    validateNode(
-      value,
-      resolveRef(schema.$ref, root),
-      root,
-      instancePath,
-      errors
-    );
-    return;
-  }
-
-  const where = instancePath || "(root)";
-  const actualType = jsonTypeOf(value);
+/**
+ * Whether one declared type name accepts an observed JSON type.
+ * @param {string} declared - A JSON Schema type name
+ * @param {string} actualType - The observed type
+ * @returns {boolean} Whether it matches
+ */
+function typeAccepts(declared, actualType) {
+  return (
+    declared === actualType ||
+    (declared === "number" && actualType === "integer")
+  );
+}
 
-  if (typeof schema.type === "string") {
-    const ok =
-      schema.type === actualType ||
-      (schema.type === "number" && actualType === "integer");
-    if (!ok) {
-      errors.push(`${where}: expected type ${schema.type}, got ${actualType}`);
-      return;
-    }
+/**
+ * The `type` mismatch message, or null when the value's type is acceptable.
+ *
+ * BOTH declared forms are handled. `type` may be a single name or an ARRAY of
+ * names (`["string", "null"]`), and the array form previously fell through the
+ * `typeof === "string"` test entirely: the keyword passed the allowlist, so the
+ * module's central promise — an unimplemented keyword is an error, never a
+ * silent pass — was broken for the one form nobody checked.
+ * @param {object} schema - Subschema to apply
+ * @param {string} actualType - The observed type
+ * @param {string} where - Location for the message
+ * @returns {string|null} The error, or null
+ */
+function typeError(schema, actualType, where) {
+  const declared = schema.type;
+  if (typeof declared === "string") {
+    return typeAccepts(declared, actualType)
+      ? null
+      : `${where}: expected type ${declared}, got ${actualType}`;
   }
+  if (declared === undefined) return null;
+  if (
+    !Array.isArray(declared) ||
+    declared.length === 0 ||
+    !declared.every(entry => typeof entry === "string")
+  ) {
+    throw new Error(
+      `schema at ${where} declares a "type" that is neither a name nor an array of names`
+    );
+  }
+  return declared.some(entry => typeAccepts(entry, actualType))
+    ? null
+    : `${where}: expected type ${declared.join(" or ")}, got ${actualType}`;
+}
 
+/**
+ * Apply the value-level keywords: `const`, `enum`, and the string and number
+ * constraints.
+ * @param {unknown} value - Value under validation
+ * @param {object} schema - Subschema to apply
+ * @param {string} where - Location for messages
+ * @param {string[]} errors - Accumulator, mutated in place
+ * @returns {void}
+ */
+function checkValueKeywords(value, schema, where, errors) {
   if ("const" in schema && value !== schema.const) {
     errors.push(
       `${where}: expected constant ${JSON.stringify(schema.const)}, got ${JSON.stringify(value)}`
     );
   }
-
   if (Array.isArray(schema.enum) && !schema.enum.includes(value)) {
     errors.push(
       `${where}: ${JSON.stringify(value)} is not one of ${schema.enum.map(entry => JSON.stringify(entry)).join(", ")}`
     );
   }
-
   if (typeof value === "string") {
     if (
       typeof schema.minLength === "number" &&
@@ -146,29 +178,32 @@ function validateNode(value, schema, root, instancePath, errors) {
       errors.push(`${where}: does not match pattern ${schema.pattern}`);
     }
   }
-
-  if (typeof value === "number" && typeof schema.minimum === "number") {
-    if (value < schema.minimum) {
-      errors.push(`${where}: below minimum ${schema.minimum}`);
-    }
-  }
-
-  if (actualType === "array" && schema.items) {
-    value.forEach((entry, index) => {
-      validateNode(entry, schema.items, root, `${where}[${index}]`, errors);
-    });
-  }
-
-  if (actualType !== "object") {
-    return;
+  if (
+    typeof value === "number" &&
+    typeof schema.minimum === "number" &&
+    value < schema.minimum
+  ) {
+    errors.push(`${where}: below minimum ${schema.minimum}`);
   }
+}
 
+/**
+ * Apply the object-level keywords: `required`, `properties`, and
+ * `additionalProperties`.
+ * @param {object} value - Object under validation
+ * @param {object} schema - Subschema to apply
+ * @param {object} root - Root schema document (for `$ref` resolution)
+ * @param {string} instancePath - JSON-pointer-ish path for messages
+ * @param {string[]} errors - Accumulator, mutated in place
+ * @returns {void}
+ */
+function checkObjectKeywords(value, schema, root, instancePath, errors) {
+  const where = instancePath || "(root)";
   for (const key of schema.required ?? []) {
     if (!(key in value)) {
       errors.push(`${where}: missing required property "${key}"`);
     }
   }
-
   const properties = schema.properties ?? {};
   for (const [key, subschema] of Object.entries(properties)) {
     if (key in value) {
@@ -181,7 +216,6 @@ function validateNode(value, schema, root, instancePath, errors) {
       );
     }
   }
-
   if (schema.additionalProperties === false) {
     for (const key of Object.keys(value)) {
       if (!(key in properties)) {
@@ -191,6 +225,50 @@ function validateNode(value, schema, root, instancePath, errors) {
   }
 }
 
+/**
+ * Validate one value against one subschema, appending human-readable errors.
+ * @param {unknown} value - Value under validation
+ * @param {object} schema - Subschema to apply
+ * @param {object} root - Root schema document (for `$ref` resolution)
+ * @param {string} instancePath - JSON-pointer-ish path for messages
+ * @param {string[]} errors - Accumulator, mutated in place
+ * @returns {void}
+ */
+function validateNode(value, schema, root, instancePath, errors) {
+  assertSupportedKeywords(schema, instancePath);
+
+  if (typeof schema.$ref === "string") {
+    validateNode(
+      value,
+      resolveRef(schema.$ref, root),
+      root,
+      instancePath,
+      errors
+    );
+    return;
+  }
+
+  const where = instancePath || "(root)";
+  const actualType = jsonTypeOf(value);
+  const mismatch = typeError(schema, actualType, where);
+  if (mismatch) {
+    errors.push(mismatch);
+    return;
+  }
+
+  checkValueKeywords(value, schema, where, errors);
+
+  if (actualType === "array" && schema.items) {
+    value.forEach((entry, index) => {
+      validateNode(entry, schema.items, root, `${where}[${index}]`, errors);
+    });
+  }
+
+  if (actualType === "object") {
+    checkObjectKeywords(value, schema, root, instancePath, errors);
+  }
+}
+
 /**
  * Validate a document against a schema.
  * @param {unknown} document - The value to validate

package/cdk/merge/.oxlintrc.json

@@ -1,6 +1,6 @@
 {
   "$schema": "./node_modules/oxlint/configuration_schema.json",
-  "extends": ["./node_modules/@codyswann/lisa/oxlint/cdk.json"],
+  "extends": ["./.lisa/lisa-oxlint/cdk.json"],
   "ignorePatterns": [
     "build/**",
     "dist/**",

package/dist/cli/apply.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"apply.d.ts","sourceRoot":"","sources":["../../src/cli/apply.ts"],"names":[],"mappings":"AAiBA,OAAO,EACL,KAAK,UAAU,EAGhB,MAAM,qBAAqB,CAAC;AA+J7B;;;;;;;;;;GAUG;AACH,wBAAsB,QAAQ,CAC5B,WAAW,EAAE,MAAM,GAAG,SAAS,EAC/B,OAAO,EAAE,UAAU,GAClB,OAAO,CAAC,IAAI,CAAC,CAqEf"}
+{"version":3,"file":"apply.d.ts","sourceRoot":"","sources":["../../src/cli/apply.ts"],"names":[],"mappings":"AAkBA,OAAO,EACL,KAAK,UAAU,EAGhB,MAAM,qBAAqB,CAAC;AA0M7B;;;;;;;;;;GAUG;AACH,wBAAsB,QAAQ,CAC5B,WAAW,EAAE,MAAM,GAAG,SAAS,EAC/B,OAAO,EAAE,UAAU,GAClB,OAAO,CAAC,IAAI,CAAC,CAmEf"}

package/dist/cli/apply.js

@@ -1,5 +1,6 @@
 import * as path from "node:path";
 import { fileURLToPath } from "node:url";
+import { recordSuccessfulApply } from "../core/apply-receipt.js";
 import { getBootstrapApplySkipNotice } from "../core/bootstrap-environment.js";
 import { ACCEPTED_HARNESS_INPUTS } from "../core/config.js";
 import { Lisa } from "../core/lisa.js";
@@ -8,6 +9,7 @@ import { ConsoleLogger } from "../logging/index.js";
 import { toAbsolutePath } from "../utils/path-utils.js";
 import { nudgeCrossPollinate } from "./cross-pollinate-nudge.js";
 import { createDependencies, parseRefreshTemplates, } from "./shared-options.js";
+import { getPackageVersion } from "./version.js";
 const __dirname = path.dirname(fileURLToPath(import.meta.url));
 /**
  * Get Lisa directory (where configs are stored)
@@ -108,6 +110,41 @@ function buildApplyConfig(parts) {
         ...(refreshTemplates === undefined ? {} : { refreshTemplates }),
     };
 }
+/**
+ * Persist everything a completed, real (non-validate, non-dry-run) apply owes
+ * the project: its `.lisa.config.json`, any legacy harness migration, and the
+ * receipt proving the apply finished.
+ * @param parts - Resolved state for this invocation
+ * @param parts.destDir - Project directory that was applied to
+ * @param parts.logger - Logger for migration notices
+ * @param parts.config - The config this apply ran with
+ * @param parts.harness - Resolved harness for this invocation
+ * @param parts.persistence - Inputs deciding whether config must be written
+ */
+async function finalizeSuccessfulApply(parts) {
+    const { destDir, logger, config, harness, persistence } = parts;
+    // Ensure every applied project carries a .lisa.config.json. A missing file is
+    // always backfilled with the resolved harness (the default when no --harness
+    // was passed) so no project is left config-less; an existing file is only
+    // rewritten when --harness actually changes the persisted value.
+    await persistProjectConfigIfNeeded(destDir, persistence);
+    // Rewrite retired legacy harness values (e.g. "both") in place so the
+    // committed config stops carrying a value newer Lisa versions reject.
+    await migrateLegacyHarnessIfNeeded(destDir, logger);
+    // Record that an apply actually completed here. The postinstall bootstrap is
+    // non-fatal by design, so absence of this receipt is the only reliable
+    // evidence that a repo has silently stopped receiving templates — which is
+    // what `lisa doctor` reports (CodySwannGT/lisa#2467).
+    await recordSuccessfulApply(destDir, {
+        lisaVersion: getPackageVersion(),
+        harness,
+        // `--skip-git-check` IS postinstall-safe mode: it skips every agent emit,
+        // so a bump alone can never reconcile `.codex/config.toml` and friends.
+        // Recording which mode ran is what lets doctor say that work is still
+        // outstanding rather than reporting the repo as current.
+        applyMode: config.skipGitCheck ? "postinstall-safe" : "full",
+    });
+}
 /**
  * Apply Lisa to the given destination with the given options.
  *
@@ -154,21 +191,19 @@ export async function runApply(destination, options) {
             result.errors.forEach(error => logger.error(error));
             process.exit(1);
         }
-        // Ensure every applied project carries a .lisa.config.json (not on
-        // validate / dry-run). A missing file is always backfilled with the
-        // resolved harness (the default when no --harness was passed) so no
-        // project is left config-less; an existing file is only rewritten when
-        // --harness actually changes the persisted value, avoiding churn.
         if (!options.validate && !dryRun) {
-            await persistProjectConfigIfNeeded(destDir, {
-                fileExists: configFileExists,
-                flagHarness: options.harness,
-                existingHarness: projectConfig.harness,
-                resolvedHarness: harness,
+            await finalizeSuccessfulApply({
+                destDir,
+                logger,
+                config,
+                harness,
+                persistence: {
+                    fileExists: configFileExists,
+                    flagHarness: options.harness,
+                    existingHarness: projectConfig.harness,
+                    resolvedHarness: harness,
+                },
             });
-            // Rewrite retired legacy harness values (e.g. "both") in place so the
-            // committed config stops carrying a value newer Lisa versions reject.
-            await migrateLegacyHarnessIfNeeded(destDir, logger);
         }
         // After a real apply, surface (read-only) whether any locally-authored
         // agent definitions need cross-pollinating to the project's other agents.

package/dist/cli/apply.js.map

@@ -1 +1 @@
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package/dist/cli/doctor-apply-freshness.d.ts

@@ -0,0 +1,29 @@
+/** One doctor check result, structurally identical to `DoctorCheck`. */
+interface FreshnessCheck {
+    name: string;
+    status: "ok" | "warn" | "fail";
+    detail: string;
+}
+/**
+ * Report whether template application is current for this checkout.
+ * @param targetPath - Project path to inspect
+ * @returns Doctor check result
+ */
+export declare function checkApplyFreshness(targetPath: string): Promise<FreshnessCheck>;
+/**
+ * Report whether the js-yaml this install resolved can actually be driven.
+ *
+ * Separate from the freshness check because it answers the follow-up question:
+ * *why* has nothing applied? A host `overrides`/`resolutions` entry collapses
+ * Lisa's own js-yaml onto the host's pin, and an incompatible pin used to kill
+ * the CLI at module-load time with a bare stack trace. Lisa now links against
+ * any js-yaml shape and reports the incompatibility in plain language here.
+ *
+ * `fail`, not `warn`: nothing that parses YAML works in this state — Codex and
+ * OpenCode artifact generation, CI workflow readiness, and the console's deploy
+ * pipeline all stop — and the remedy is a one-line manifest edit.
+ * @returns Doctor check result
+ */
+export declare function checkYamlRuntime(): FreshnessCheck;
+export {};
+//# sourceMappingURL=doctor-apply-freshness.d.ts.map

package/dist/cli/doctor-apply-freshness.d.ts.map

@@ -0,0 +1 @@
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