nexus-agents 2.79.4 → 2.80.0

package/dist/{chunk-42MM7GKW.js → chunk-HBKZ2DJK.js}

@@ -1,6 +1,6 @@
 import {
   createLogger
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/config/available-models-cache.ts
 var logger = createLogger({ component: "available-models-cache" });
@@ -150,4 +150,4 @@ export {
   getDefaultAvailableModelsCache,
   setDefaultAvailableModelsCache
 };
-//# sourceMappingURL=chunk-42MM7GKW.js.map
+//# sourceMappingURL=chunk-HBKZ2DJK.js.map

package/dist/{chunk-ACP4YARI.js → chunk-J5XEJHIQ.js}

@@ -2,14 +2,14 @@ import {
   CircuitBreakerRegistry,
   CircuitError,
   mapCliErrorToCategory
-} from "./chunk-NJPFN75N.js";
+} from "./chunk-JXDDSNEK.js";
 import {
   createLogger,
   err,
   getFallbackChainForCategory,
   getTimeProvider,
   ok
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/cli-adapters/cli-circuit-breaker.ts
 var CATEGORY_TO_FALLBACK = {
@@ -152,4 +152,4 @@ export {
   CliCircuitBreakerIntegration,
   createCliCircuitBreakerIntegration
 };
-//# sourceMappingURL=chunk-ACP4YARI.js.map
+//# sourceMappingURL=chunk-J5XEJHIQ.js.map

package/dist/{chunk-PAKVXGS2.js → chunk-JLWKHYIU.js}

@@ -2,7 +2,7 @@ import {
   ConfigError,
   err,
   ok
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/adapters/sdk/types.ts
 var PROVIDER_ENV_KEYS = {
@@ -117,4 +117,4 @@ export {
   CUSTOM_API_ALLOW_PRIVATE_ENV,
   validateCustomApiBaseUrl
 };
-//# sourceMappingURL=chunk-PAKVXGS2.js.map
+//# sourceMappingURL=chunk-JLWKHYIU.js.map

package/dist/{chunk-NJPFN75N.js → chunk-JXDDSNEK.js}

@@ -5,7 +5,7 @@ import {
   getErrorMessage,
   getTimeProvider,
   ok
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/cli-adapters/circuit-breaker-types.ts
 var CircuitErrorCode = {
@@ -353,4 +353,4 @@ export {
   CircuitBreakerRegistry,
   mapCliErrorToCategory
 };
-//# sourceMappingURL=chunk-NJPFN75N.js.map
+//# sourceMappingURL=chunk-JXDDSNEK.js.map

package/dist/{chunk-NXNNT5XW.js → chunk-OO6MTUDS.js}

@@ -8,7 +8,7 @@ import {
 } from "./chunk-PQHVC4BD.js";
 import {
   SessionMemory
-} from "./chunk-45NUO4FE.js";
+} from "./chunk-AYZ6P7CK.js";
 import {
   ErrorCode,
   NexusError,
@@ -22,10 +22,10 @@ import {
   getTimeProvider,
   ok,
   setSharedMobiMemDbPathResolver
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 import {
   nexusDataPath
-} from "./chunk-7BMOZJYS.js";
+} from "./chunk-2JQXC3CK.js";
 
 // src/mcp/tools/tool-memory.ts
 import * as fs3 from "fs";
@@ -5578,4 +5578,4 @@ export {
   reinitializeMemoryBackends,
   ToolMemoryManager
 };
-//# sourceMappingURL=chunk-NXNNT5XW.js.map
+//# sourceMappingURL=chunk-OO6MTUDS.js.map

package/dist/{chunk-OFRDE7MK.js → chunk-Q2U6SFN2.js}

@@ -1,7 +1,7 @@
 import {
   DEFAULT_MODEL_PER_CLI,
   getTimeProvider
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/config/model-availability.ts
 var DEFAULT_TTL_MS = 6e4;
@@ -133,4 +133,4 @@ export {
   resetAvailabilityCache,
   filterAvailableModels
 };
-//# sourceMappingURL=chunk-OFRDE7MK.js.map
+//# sourceMappingURL=chunk-Q2U6SFN2.js.map

package/dist/{chunk-BXI6DKBU.js → chunk-QVHXEQFM.js}

@@ -1,14 +1,14 @@
 import {
   GitHubProvider,
   ScmError
-} from "./chunk-BSQ4KTY4.js";
+} from "./chunk-UVALD724.js";
 import {
   CACHE_TIMEOUTS,
   createLogger,
   err,
   getTimeProvider,
   ok
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/security/trust-types.ts
 import { z } from "zod";
@@ -1656,4 +1656,4 @@ export {
   IssueTriage,
   createIssueTriage
 };
-//# sourceMappingURL=chunk-BXI6DKBU.js.map
+//# sourceMappingURL=chunk-QVHXEQFM.js.map

package/dist/{chunk-TN5ZKSGC.js → chunk-RIUUFBX4.js}

@@ -4,7 +4,7 @@ import {
 import {
   createLogger,
   getTimeProvider
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 
 // src/mcp/tools/scanner-registry-fetcher.ts
 import { z } from "zod";
@@ -721,4 +721,4 @@ export {
   generateSecurityPlan,
   buildPlanFromAnalysis
 };
-//# sourceMappingURL=chunk-TN5ZKSGC.js.map
+//# sourceMappingURL=chunk-RIUUFBX4.js.map

package/dist/{chunk-PDCLBWH5.js → chunk-SHVGZK4A.js}

@@ -1,17 +1,17 @@
 import {
   getToolMemory
-} from "./chunk-NXNNT5XW.js";
+} from "./chunk-OO6MTUDS.js";
 import {
   CLI_NAMES,
   StrategyDistiller,
   createLogger,
   getOutcomeStore,
   registerPersistentDistillerFactory
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 import {
   ensureLearningDir,
   getRulesFile
-} from "./chunk-7BMOZJYS.js";
+} from "./chunk-2JQXC3CK.js";
 
 // src/learning/strategy-distiller-persistence.ts
 import { writeFileSync, readFileSync, renameSync, unlinkSync, existsSync } from "fs";
@@ -273,4 +273,4 @@ export {
   inferTaskCategory,
   summarizeContextForPrompt
 };
-//# sourceMappingURL=chunk-PDCLBWH5.js.map
+//# sourceMappingURL=chunk-SHVGZK4A.js.map

package/dist/{chunk-UOR2JWFH.js → chunk-SJUSQGKH.js}

@@ -1,6 +1,6 @@
 import {
   DEFAULTS
-} from "./chunk-UNRTM43V.js";
+} from "./chunk-BSIGP5XF.js";
 import {
   resolveInsideRoot
 } from "./chunk-NUBSJGQZ.js";
@@ -10,7 +10,7 @@ import {
 import {
   createAllAdapters,
   probeCli
-} from "./chunk-BIH2CBC5.js";
+} from "./chunk-ZU2Q3DWE.js";
 import {
   CliNameSchema,
   DEFAULT_CAPABILITIES,
@@ -26,18 +26,21 @@ import {
   ok,
   symbols,
   writeLine
-} from "./chunk-UQOSVOEU.js";
+} from "./chunk-YMT6H2HQ.js";
 import {
   detectSandbox,
   getLearningDir,
   getNexusDataDir,
+  getNexusRepoDir,
   getOutcomesFile,
+  getPerRepoSubdirs,
   getRulesFile,
-  isPersistenceEnabled
-} from "./chunk-7BMOZJYS.js";
+  isPersistenceEnabled,
+  nexusDataPath
+} from "./chunk-2JQXC3CK.js";
 
 // src/version.ts
-var VERSION = true ? "2.79.4" : "dev";
+var VERSION = true ? "2.80.0" : "dev";
 
 // src/config/schemas-core.ts
 import { z } from "zod";
@@ -1006,6 +1009,12 @@ import { resolve, join } from "path";
 import * as yaml from "yaml";
 var DEFAULT_CONFIG_FILE = "nexus-agents.yaml";
 var ALTERNATE_CONFIG_FILE = "nexus-agents.yml";
+var CONFIG_LOOKUP_PATHS = [
+  `.nexus-agents/${DEFAULT_CONFIG_FILE}`,
+  `.nexus-agents/${ALTERNATE_CONFIG_FILE}`,
+  DEFAULT_CONFIG_FILE,
+  ALTERNATE_CONFIG_FILE
+];
 var ConfigLoadError = class extends Error {
   code;
   constructor(message, code, cause) {
@@ -1034,13 +1043,11 @@ function findConfigPath(cwd) {
       return validation.value;
     }
   }
-  const yamlPath = resolve(cwd, DEFAULT_CONFIG_FILE);
-  if (existsSync(yamlPath)) {
-    return yamlPath;
-  }
-  const ymlPath = resolve(cwd, ALTERNATE_CONFIG_FILE);
-  if (existsSync(ymlPath)) {
-    return ymlPath;
+  for (const rel of CONFIG_LOOKUP_PATHS) {
+    const abs = resolve(cwd, rel);
+    if (existsSync(abs)) {
+      return abs;
+    }
   }
   const globalDir = getNexusDataDir();
   const globalYamlPath = join(globalDir, DEFAULT_CONFIG_FILE);
@@ -1174,7 +1181,6 @@ function getConfig(options) {
 
 // src/cli/setup-data-dir.ts
 import { mkdirSync, existsSync as existsSync4 } from "fs";
-import { join as join4 } from "path";
 
 // src/cli/doctor.ts
 import {
@@ -1184,7 +1190,6 @@ import {
   accessSync,
   constants as fsConstants
 } from "fs";
-import { join as join3 } from "path";
 
 // src/mcp/server.ts
 import { McpServer } from "@modelcontextprotocol/sdk/server/mcp.js";
@@ -1529,34 +1534,36 @@ function printSqliteCheck(check) {
     writeLine(`  ${colors.dim}Fix: npm install -g better-sqlite3${colors.reset}`);
   }
 }
+function printDataDirGroup(label, rootHint, subdirs) {
+  if (subdirs.length === 0) return;
+  const existCount = subdirs.filter((d) => d.exists).length;
+  writeLine(
+    `  ${colors.dim}${label} \u2014 ${rootHint} (${String(existCount)}/${String(subdirs.length)})${colors.reset}`
+  );
+  for (const dir of subdirs) {
+    let marker;
+    if (!dir.exists) marker = `${colors.dim}\xB7${colors.reset}`;
+    else if (!dir.writable) marker = `${colors.yellow}!${colors.reset}`;
+    else marker = `${colors.green}\u2713${colors.reset}`;
+    const note = !dir.exists ? ` ${colors.dim}(missing \u2014 created on first use)${colors.reset}` : !dir.writable ? ` ${colors.yellow}(not writable)${colors.reset}` : "";
+    writeLine(`    ${marker} ${dir.name}  ${colors.dim}${dir.path}${colors.reset}${note}`);
+  }
+}
 function printDataDirectory(check) {
-  if (check.rootExists) {
-    const existCount = check.subdirectories.filter((d) => d.exists).length;
-    const totalCount = check.subdirectories.length;
-    const allExist = existCount === totalCount;
-    const allWritable = check.subdirectories.every((d) => !d.exists || d.writable);
-    const healthy = allExist && allWritable;
-    writeLine(
-      `${formatStatus(healthy, !healthy)} Data directory: ${check.rootPath} (${String(existCount)}/${String(totalCount)} subdirs)`
-    );
-    if (!allExist) {
-      const missing = check.subdirectories.filter((d) => !d.exists);
-      for (const dir of missing) {
-        writeLine(`  ${colors.dim}Missing: ${dir.name}/${colors.reset}`);
-      }
-      writeLine(`  ${colors.dim}Fix: nexus-agents setup${colors.reset}`);
-    }
-    if (!allWritable) {
-      const readonly_ = check.subdirectories.filter((d) => d.exists && !d.writable);
-      for (const dir of readonly_) {
-        writeLine(`  ${colors.yellow}Not writable: ${dir.name}/${colors.reset}`);
-      }
-    }
+  const allExist = check.subdirectories.every((d) => d.exists);
+  const allWritable = check.subdirectories.every((d) => !d.exists || d.writable);
+  const healthy = check.rootExists && allWritable;
+  writeLine(`${formatStatus(healthy, !healthy)} Data directory layout:`);
+  const perRepo = check.subdirectories.filter((d) => d.scope === "per-repo");
+  const crossRepo = check.subdirectories.filter((d) => d.scope === "cross-repo");
+  if (check.repoRoot !== null) {
+    printDataDirGroup("Per-repo", check.repoRoot, perRepo);
   } else {
-    writeLine(
-      `${formatStatus(false, true)} Data directory: ${colors.yellow}Not created${colors.reset}`
-    );
-    writeLine(`  ${colors.dim}Run: nexus-agents setup${colors.reset}`);
+    printDataDirGroup("Per-repo (homedir \u2014 repo-preferred off)", check.rootPath, perRepo);
+  }
+  printDataDirGroup("Cross-repo", check.rootPath, crossRepo);
+  if (!allExist) {
+    writeLine(`  ${colors.dim}Fix: nexus-agents setup${colors.reset}`);
   }
 }
 function printSandboxHeader(check) {
@@ -1744,7 +1751,12 @@ function inspectFile(harness, relativePath, absolutePath) {
 // src/cli/doctor.ts
 var REQUIRED_NODE_MAJOR2 = 22;
 var API_KEY_VARS = ["ANTHROPIC_API_KEY", "OPENAI_API_KEY", "GOOGLE_AI_API_KEY"];
-var CONFIG_FILE_PATHS = ["./nexus-agents.yaml", "./nexus-agents.yml"];
+var CONFIG_FILE_PATHS = [
+  "./.nexus-agents/nexus-agents.yaml",
+  "./.nexus-agents/nexus-agents.yml",
+  "./nexus-agents.yaml",
+  "./nexus-agents.yml"
+];
 var DATA_SUBDIRECTORIES = [
   "memory",
   "memory/beliefs",
@@ -2003,12 +2015,16 @@ async function checkSqlite() {
 function checkDataDirectory() {
   const rootPath = getNexusDataDir();
   const rootExists = existsSync3(rootPath);
+  const repoRoot = getNexusRepoDir();
+  const perRepoSet = getPerRepoSubdirs();
   const subdirectories = DATA_SUBDIRECTORIES.map((name) => {
-    const fullPath = join3(rootPath, name);
+    const segments = name.split("/");
+    const fullPath = nexusDataPath(...segments);
     const exists = existsSync3(fullPath);
-    return { name, path: fullPath, exists, writable: exists && isWritable(fullPath) };
+    const scope = perRepoSet.has(segments[0] ?? "") ? "per-repo" : "cross-repo";
+    return { name, path: fullPath, scope, exists, writable: exists && isWritable(fullPath) };
   });
-  return { rootExists, rootPath, subdirectories };
+  return { rootExists, rootPath, repoRoot, subdirectories };
 }
 function isWritable(dirPath) {
   try {
@@ -2091,7 +2107,7 @@ async function runDoctorFix(result) {
   writeLine2("\u2500".repeat(40));
   let fixCount = 0;
   if (!result.dataDirectory.rootExists || result.dataDirectory.subdirectories.some((d) => !d.exists || !d.writable)) {
-    const { runSetup } = await import("./setup-command-QOXG36UV.js");
+    const { runSetup } = await import("./setup-command-ZPLPOJF2.js");
     const setupResult = runSetup({
       skipMcp: true,
       skipRules: true,
@@ -2105,7 +2121,7 @@ async function runDoctorFix(result) {
     }
   }
   if (!result.configFile.found) {
-    const { runConfigInitSync } = await import("./setup-config-B4V4QHDP.js");
+    const { runConfigInitSync } = await import("./setup-config-F7VRWXY3.js");
     const configResult = runConfigInitSync(process.cwd(), false, false);
     if (configResult.success && configResult.created) {
       writeLine2(`\u2713 Generated config: ${configResult.path}`);
@@ -2134,17 +2150,26 @@ var RESTRICTED_DIRS = /* @__PURE__ */ new Set(["auth"]);
 function initDataDirectories(dryRun = false) {
   const created = [];
   const alreadyExisted = [];
-  try {
-    ensureDir(NEXUS_DATA_DIR, dryRun, created, alreadyExisted);
-    for (const subdir of DATA_SUBDIRECTORIES) {
-      const mode = RESTRICTED_DIRS.has(subdir) ? 448 : void 0;
-      ensureDir(join4(NEXUS_DATA_DIR, subdir), dryRun, created, alreadyExisted, mode);
+  const failures = [];
+  for (const subdir of DATA_SUBDIRECTORIES) {
+    const mode = RESTRICTED_DIRS.has(subdir) ? 448 : void 0;
+    const target = nexusDataPath(...subdir.split("/"));
+    try {
+      ensureDir(target, dryRun, created, alreadyExisted, mode);
+    } catch (error) {
+      failures.push(`${target}: ${error instanceof Error ? error.message : String(error)}`);
     }
-    return { success: true, rootPath: NEXUS_DATA_DIR, created, alreadyExisted, error: null };
-  } catch (error) {
-    const msg = error instanceof Error ? error.message : String(error);
-    return { success: false, rootPath: NEXUS_DATA_DIR, created, alreadyExisted, error: msg };
   }
+  if (failures.length > 0) {
+    return {
+      success: false,
+      rootPath: NEXUS_DATA_DIR,
+      created,
+      alreadyExisted,
+      error: `Failed to create ${String(failures.length)} dir(s): ${failures.join("; ")}`
+    };
+  }
+  return { success: true, rootPath: NEXUS_DATA_DIR, created, alreadyExisted, error: null };
 }
 function ensureDir(dirPath, dryRun, created, alreadyExisted, mode) {
   if (existsSync4(dirPath)) {
@@ -2194,4 +2219,4 @@ export {
   startStdioServer,
   closeServer
 };
-//# sourceMappingURL=chunk-UOR2JWFH.js.map
+//# sourceMappingURL=chunk-SJUSQGKH.js.map