@quiltdata/benchling-webhook 0.7.7 → 0.7.9

package/dist/lib/wizard/phase6-integrated-mode.js.map

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package/dist/lib/wizard/phase7-standalone-mode.d.ts

@@ -0,0 +1,25 @@
+/**
+ * Phase 7: Standalone Mode
+ *
+ * Handles standalone webhook mode where a new dedicated BenchlingSecret is created
+ * and optionally deployed as a separate stack.
+ *
+ * @module wizard/phase7-standalone-mode
+ */
+import { StandaloneModeInput, StandaloneModeResult } from "./types";
+/**
+ * Phase 7: Standalone Mode
+ *
+ * Responsibilities:
+ * - Build complete configuration
+ * - Save config with integratedStack: false
+ * - Create new secret with pattern
+ * - Ask about deployment
+ * - Deploy if user confirms
+ * - Show next steps
+ *
+ * @param input - Standalone mode input
+ * @returns Standalone mode result
+ */
+export declare function runStandaloneMode(input: StandaloneModeInput): Promise<StandaloneModeResult>;
+//# sourceMappingURL=phase7-standalone-mode.d.ts.map

package/dist/lib/wizard/phase7-standalone-mode.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"phase7-standalone-mode.d.ts","sourceRoot":"","sources":["../../../lib/wizard/phase7-standalone-mode.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAOH,OAAO,EAAE,mBAAmB,EAAE,oBAAoB,EAAE,MAAM,SAAS,CAAC;AAyDpE;;;;;;;;;;;;;GAaG;AACH,wBAAsB,iBAAiB,CAAC,KAAK,EAAE,mBAAmB,GAAG,OAAO,CAAC,oBAAoB,CAAC,CAuGjG"}

package/dist/lib/wizard/phase7-standalone-mode.js

@@ -0,0 +1,210 @@
+"use strict";
+/**
+ * Phase 7: Standalone Mode
+ *
+ * Handles standalone webhook mode where a new dedicated BenchlingSecret is created
+ * and optionally deployed as a separate stack.
+ *
+ * @module wizard/phase7-standalone-mode
+ */
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || (function () {
+    var ownKeys = function(o) {
+        ownKeys = Object.getOwnPropertyNames || function (o) {
+            var ar = [];
+            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
+            return ar;
+        };
+        return ownKeys(o);
+    };
+    return function (mod) {
+        if (mod && mod.__esModule) return mod;
+        var result = {};
+        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
+        __setModuleDefault(result, mod);
+        return result;
+    };
+})();
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.runStandaloneMode = runStandaloneMode;
+const inquirer_1 = __importDefault(require("inquirer"));
+const chalk_1 = __importDefault(require("chalk"));
+const sync_secrets_1 = require("../../bin/commands/sync-secrets");
+const next_steps_generator_1 = require("../next-steps-generator");
+/**
+ * Builds ProfileConfig from collected parameters
+ */
+function buildProfileConfig(input) {
+    const { stackQuery, parameters, catalogDns } = input;
+    const now = new Date().toISOString();
+    const config = {
+        quilt: {
+            stackArn: stackQuery.stackArn,
+            catalog: catalogDns,
+            database: stackQuery.database,
+            queueUrl: stackQuery.queueUrl,
+            region: stackQuery.region,
+        },
+        benchling: {
+            tenant: parameters.benchling.tenant,
+            clientId: parameters.benchling.clientId,
+            clientSecret: parameters.benchling.clientSecret,
+            appDefinitionId: parameters.benchling.appDefinitionId,
+            // No secretArn yet - will be set after creating secret
+        },
+        packages: {
+            bucket: parameters.packages.bucket,
+            prefix: parameters.packages.prefix,
+            metadataKey: parameters.packages.metadataKey,
+        },
+        deployment: {
+            region: parameters.deployment.region,
+            account: parameters.deployment.account,
+        },
+        integratedStack: false, // CRITICAL: Mark as standalone mode
+        logging: {
+            level: parameters.logging.level,
+        },
+        security: {
+            enableVerification: parameters.security.enableVerification,
+            webhookAllowList: parameters.security.webhookAllowList,
+        },
+        _metadata: {
+            version: "0.7.0",
+            createdAt: now,
+            updatedAt: now,
+            source: "wizard",
+        },
+    };
+    if (parameters.benchling.testEntryId) {
+        config.benchling.testEntryId = parameters.benchling.testEntryId;
+    }
+    return config;
+}
+/**
+ * Phase 7: Standalone Mode
+ *
+ * Responsibilities:
+ * - Build complete configuration
+ * - Save config with integratedStack: false
+ * - Create new secret with pattern
+ * - Ask about deployment
+ * - Deploy if user confirms
+ * - Show next steps
+ *
+ * @param input - Standalone mode input
+ * @returns Standalone mode result
+ */
+async function runStandaloneMode(input) {
+    const { profile, configStorage, yes = false, setupOnly = false, awsProfile } = input;
+    console.log(chalk_1.default.bold("\nStandalone Webhook Mode\n"));
+    // Step 1: Build configuration
+    const config = buildProfileConfig(input);
+    // Step 2: Save configuration
+    console.log(`Saving configuration to profile: ${profile}...\n`);
+    try {
+        configStorage.writeProfile(profile, config);
+        console.log(chalk_1.default.green(`✓ Configuration saved to: ~/.config/benchling-webhook/${profile}/config.json\n`));
+    }
+    catch (error) {
+        throw new Error(`Failed to save configuration: ${error.message}`);
+    }
+    // Step 3: Create dedicated BenchlingSecret
+    console.log("Creating dedicated BenchlingSecret...\n");
+    let secretArn = "";
+    try {
+        const results = await (0, sync_secrets_1.syncSecretsToAWS)({
+            profile,
+            awsProfile,
+            region: config.deployment.region,
+            force: true,
+            configStorage,
+        });
+        if (results.length > 0) {
+            secretArn = results[0].secretArn;
+            console.log(chalk_1.default.green("✓ Secret created for standalone deployment\n"));
+        }
+    }
+    catch (error) {
+        console.warn(chalk_1.default.yellow(`⚠️  Failed to sync secrets: ${error.message}`));
+        console.warn(chalk_1.default.yellow("   You can sync secrets manually later with:"));
+        console.warn(chalk_1.default.cyan(`   npm run setup:sync-secrets -- --profile ${profile}\n`));
+    }
+    // Step 4: Ask about deployment (unless --setup-only)
+    let deployed = false;
+    if (!setupOnly) {
+        let shouldDeploy = false;
+        if (yes) {
+            shouldDeploy = false; // In --yes mode, don't auto-deploy
+        }
+        else {
+            const { deploy } = await inquirer_1.default.prompt([
+                {
+                    type: "confirm",
+                    name: "deploy",
+                    message: "Deploy to AWS now?",
+                    default: true,
+                },
+            ]);
+            shouldDeploy = deploy;
+        }
+        if (shouldDeploy) {
+            console.log(chalk_1.default.blue("\nDeploying webhook stack...\n"));
+            try {
+                const { deployCommand } = await Promise.resolve().then(() => __importStar(require("../../bin/commands/deploy")));
+                await deployCommand({
+                    profile,
+                    stage: profile === "prod" ? "prod" : "dev",
+                    yes: true,
+                });
+                console.log(chalk_1.default.green("\n✓ Deployment completed successfully\n"));
+                deployed = true;
+            }
+            catch (error) {
+                console.error(chalk_1.default.red(`\n❌ Deployment failed: ${error.message}\n`));
+                console.log(chalk_1.default.yellow("You can deploy manually later with:"));
+                console.log(chalk_1.default.cyan(`   npm run deploy:${profile === "prod" ? "prod" : "dev"} -- --profile ${profile}\n`));
+            }
+        }
+    }
+    // Step 5: Show completion message
+    console.log("╔═══════════════════════════════════════════════════════════╗");
+    console.log("║   Setup Complete!                                         ║");
+    console.log("╚═══════════════════════════════════════════════════════════╝\n");
+    if (!deployed && !setupOnly) {
+        const nextSteps = (0, next_steps_generator_1.generateNextSteps)({
+            profile,
+            stage: profile === "prod" ? "prod" : "dev",
+        });
+        console.log(nextSteps + "\n");
+    }
+    else if (setupOnly) {
+        console.log(chalk_1.default.bold("Configuration saved. Use deploy command to deploy:\n"));
+        console.log(chalk_1.default.cyan(`   npm run deploy:${profile === "prod" ? "prod" : "dev"} -- --profile ${profile}\n`));
+    }
+    return {
+        success: true,
+        configPath: `~/.config/benchling-webhook/${profile}/config.json`,
+        secretArn,
+        deployed,
+    };
+}
+//# sourceMappingURL=phase7-standalone-mode.js.map

package/dist/lib/wizard/phase7-standalone-mode.js.map

@@ -0,0 +1 @@
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package/dist/lib/wizard/types.d.ts

@@ -0,0 +1,178 @@
+/**
+ * Shared TypeScript interfaces for setup wizard phases
+ *
+ * This module defines all the input/output types for the 7 wizard phases,
+ * ensuring type-safe data flow between phases.
+ *
+ * @module wizard/types
+ */
+import { ProfileConfig } from "../types/config";
+import { XDGBase } from "../xdg-base";
+/**
+ * Phase 1: Catalog Discovery Result
+ */
+export interface CatalogDiscoveryResult {
+    /** Confirmed catalog DNS (without protocol) */
+    catalogDns: string;
+    /** Whether the catalog was manually entered by user */
+    wasManuallyEntered: boolean;
+    /** The catalog that was initially detected (if any) */
+    detectedCatalog?: string;
+}
+/**
+ * Phase 2: Stack Query Result
+ */
+export interface StackQueryResult {
+    /** CloudFormation stack ARN */
+    stackArn: string;
+    /** Catalog URL */
+    catalog: string;
+    /** Athena database name */
+    database: string;
+    /** SQS queue URL */
+    queueUrl: string;
+    /** AWS region */
+    region: string;
+    /** AWS account ID */
+    account: string;
+    /** BenchlingSecret ARN from stack outputs (if exists) */
+    benchlingSecretArn?: string;
+    /** Whether BenchlingIntegration parameter is enabled in the stack */
+    benchlingIntegrationEnabled?: boolean;
+    /** Whether stack query succeeded */
+    stackQuerySucceeded: boolean;
+}
+/**
+ * Phase 3: Parameter Collection Input
+ */
+export interface ParameterCollectionInput {
+    stackQuery: StackQueryResult;
+    existingConfig?: ProfileConfig | null;
+    yes?: boolean;
+    benchlingTenant?: string;
+    benchlingClientId?: string;
+    benchlingClientSecret?: string;
+    benchlingAppDefinitionId?: string;
+    benchlingTestEntryId?: string;
+    userBucket?: string;
+    pkgPrefix?: string;
+    pkgKey?: string;
+    logLevel?: string;
+    webhookAllowList?: string;
+}
+/**
+ * Phase 3: Parameter Collection Result
+ */
+export interface ParameterCollectionResult {
+    benchling: {
+        tenant: string;
+        clientId: string;
+        clientSecret: string;
+        appDefinitionId: string;
+        testEntryId?: string;
+    };
+    packages: {
+        bucket: string;
+        prefix: string;
+        metadataKey: string;
+    };
+    deployment: {
+        region: string;
+        account: string;
+    };
+    logging: {
+        level: "DEBUG" | "INFO" | "WARNING" | "ERROR";
+    };
+    security: {
+        enableVerification: boolean;
+        webhookAllowList: string;
+    };
+}
+/**
+ * Phase 4: Validation Input
+ */
+export interface ValidationInput {
+    stackQuery: StackQueryResult;
+    parameters: ParameterCollectionResult;
+    awsProfile?: string;
+}
+/**
+ * Phase 4: Validation Result
+ */
+export interface ValidationResult {
+    /** Whether validation passed */
+    success: boolean;
+    /** Fatal validation errors */
+    errors: string[];
+    /** Non-fatal warnings */
+    warnings: string[];
+    /** Whether to exit for manifest creation flow */
+    shouldExitForManifest: boolean;
+}
+/**
+ * Phase 5: Mode Decision Input
+ */
+export interface ModeDecisionInput {
+    stackQuery: StackQueryResult;
+    yes?: boolean;
+}
+/**
+ * Phase 5: Mode Decision Result
+ */
+export interface ModeDecisionResult {
+    /** Chosen deployment mode */
+    mode: "integrated" | "standalone";
+    /** BenchlingSecret ARN (for integrated mode) */
+    benchlingSecretArn?: string;
+}
+/**
+ * Phase 6: Integrated Mode Input
+ */
+export interface IntegratedModeInput {
+    profile: string;
+    catalogDns: string;
+    stackQuery: StackQueryResult;
+    parameters: ParameterCollectionResult;
+    benchlingSecretArn: string;
+    configStorage: XDGBase;
+    awsProfile?: string;
+    yes?: boolean;
+}
+/**
+ * Phase 6: Integrated Mode Result
+ */
+export interface IntegratedModeResult {
+    /** Whether integrated mode setup succeeded */
+    success: boolean;
+    /** Path to saved configuration file */
+    configPath: string;
+    /** BenchlingSecret ARN that was updated */
+    secretArn: string;
+}
+/**
+ * Phase 7: Standalone Mode Input
+ */
+export interface StandaloneModeInput {
+    profile: string;
+    catalogDns: string;
+    stackQuery: StackQueryResult;
+    parameters: ParameterCollectionResult;
+    configStorage: XDGBase;
+    yes?: boolean;
+    setupOnly?: boolean;
+    awsProfile?: string;
+}
+/**
+ * Phase 7: Standalone Mode Result
+ */
+export interface StandaloneModeResult {
+    /** Whether standalone mode setup succeeded */
+    success: boolean;
+    /** Path to saved configuration file */
+    configPath: string;
+    /** Secret ARN that was created */
+    secretArn: string;
+    /** Whether deployment was executed */
+    deployed: boolean;
+}
+//# sourceMappingURL=types.d.ts.map

package/dist/lib/wizard/types.d.ts.map

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package/dist/lib/wizard/types.js

@@ -0,0 +1,11 @@
+"use strict";
+/**
+ * Shared TypeScript interfaces for setup wizard phases
+ *
+ * This module defines all the input/output types for the 7 wizard phases,
+ * ensuring type-safe data flow between phases.
+ *
+ * @module wizard/types
+ */
+Object.defineProperty(exports, "__esModule", { value: true });
+//# sourceMappingURL=types.js.map

package/dist/lib/wizard/types.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"types.js","sourceRoot":"","sources":["../../../lib/wizard/types.ts"],"names":[],"mappings":";AAAA;;;;;;;GAOG"}

package/dist/package.json

@@ -1,6 +1,6 @@
 {
     "name": "@quiltdata/benchling-webhook",
-    "version": "0.7.7",
+    "version": "0.7.9",
     "description": "AWS CDK deployment for Benchling webhook processing using Fargate - Deploy directly with npx",
     "main": "dist/lib/index.js",
     "types": "dist/lib/index.d.ts",
@@ -8,8 +8,7 @@
         "dist/",
         "cdk.json",
         "README.md",
-        "LICENSE",
-        "env.template"
+        "LICENSE"
     ],
     "bin": {
         "benchling-webhook": "./dist/bin/cli.js"
@@ -38,7 +37,7 @@
         "test": "npm run build:typecheck && npm run test:ts && npm run test:python",
         "test:ci": "npm run build:typecheck && npm run test:ts",
         "test:dev": "make -C docker test-deployed-dev PROFILE=dev",
-        "test:local": "make -C docker build && make -C docker test-local",
+        "test:local": "make -C docker build && make -C docker test-local PROFILE=dev",
         "test:prod": "make -C docker test-deployed-prod",
         "test:python": "make -C docker test-unit",
         "test:ts": "cross-env NODE_ENV=test jest --maxWorkers=50%",

package/dist/scripts/check-logs.d.ts

@@ -2,8 +2,15 @@
 /**
  * Check CloudWatch logs for the deployed Benchling webhook ECS service
  *
- * Uses profile deployment tracking (v0.7.0) to find deployment details.
- * Falls back to CloudFormation stack outputs if no deployment record exists.
+ * @deprecated Use `npx @quiltdata/benchling-webhook logs` instead
+ *
+ * This script is deprecated and will be removed in v1.0.0.
+ * Please use the new `logs` command which provides the same functionality
+ * with better NPX compatibility and proper profile support.
+ *
+ * Migration:
+ *   Old: npx ts-node scripts/check-logs.ts --profile sales --type ecs
+ *   New: npx @quiltdata/benchling-webhook logs --profile sales --type ecs
  *
  * @module scripts/check-logs
  * @version 0.7.0

package/dist/scripts/check-logs.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"check-logs.d.ts","sourceRoot":"","sources":["../../scripts/check-logs.ts"],"names":[],"mappings":";AACA;;;;;;;;GAQG"}
+{"version":3,"file":"check-logs.d.ts","sourceRoot":"","sources":["../../scripts/check-logs.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;GAeG"}

package/dist/scripts/check-logs.js

@@ -3,8 +3,15 @@
 /**
  * Check CloudWatch logs for the deployed Benchling webhook ECS service
  *
- * Uses profile deployment tracking (v0.7.0) to find deployment details.
- * Falls back to CloudFormation stack outputs if no deployment record exists.
+ * @deprecated Use `npx @quiltdata/benchling-webhook logs` instead
+ *
+ * This script is deprecated and will be removed in v1.0.0.
+ * Please use the new `logs` command which provides the same functionality
+ * with better NPX compatibility and proper profile support.
+ *
+ * Migration:
+ *   Old: npx ts-node scripts/check-logs.ts --profile sales --type ecs
+ *   New: npx @quiltdata/benchling-webhook logs --profile sales --type ecs
  *
  * @module scripts/check-logs
  * @version 0.7.0
@@ -125,6 +132,22 @@ function printStackInfo(outputs, logGroup, logType, profile, stage) {
     console.log("");
 }
 function main() {
+    // Show deprecation warning
+    console.warn("\n⚠️  DEPRECATION WARNING");
+    console.warn("═".repeat(80));
+    console.warn("This script is deprecated. Please use the new 'logs' command instead:");
+    console.warn("");
+    console.warn("  npx @quiltdata/benchling-webhook logs [options]");
+    console.warn("");
+    console.warn("The new command provides:");
+    console.warn("  - Better NPX compatibility (no ts-node required)");
+    console.warn("  - Proper profile support");
+    console.warn("  - Listed in --help output");
+    console.warn("  - Same functionality as this script");
+    console.warn("");
+    console.warn("This script will be removed in v1.0.0");
+    console.warn("═".repeat(80));
+    console.warn("");
     const args = process.argv.slice(2);
     const logType = args.find((arg) => arg.startsWith("--type="))?.split("=")[1] || "all";
     const filterPattern = args.find((arg) => arg.startsWith("--filter="))?.split("=")[1];
@@ -230,6 +253,7 @@ function main() {
     }
 }
 function printHelp() {
+    console.log("⚠️  DEPRECATED - Use 'npx @quiltdata/benchling-webhook logs' instead\n");
     console.log("Usage: npm run logs [options]");
     console.log("");
     console.log("Options:");

package/dist/scripts/check-logs.js.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@quiltdata/benchling-webhook",
-  "version": "0.7.7",
+  "version": "0.7.9",
   "description": "AWS CDK deployment for Benchling webhook processing using Fargate - Deploy directly with npx",
   "main": "dist/lib/index.js",
   "types": "dist/lib/index.d.ts",
@@ -8,8 +8,7 @@
     "dist/",
     "cdk.json",
     "README.md",
-    "LICENSE",
-    "env.template"
+    "LICENSE"
   ],
   "bin": {
     "benchling-webhook": "./dist/bin/cli.js"
@@ -38,7 +37,7 @@
     "test": "npm run build:typecheck && npm run test:ts && npm run test:python",
     "test:ci": "npm run build:typecheck && npm run test:ts",
     "test:dev": "make -C docker test-deployed-dev PROFILE=dev",
-    "test:local": "make -C docker build && make -C docker test-local",
+    "test:local": "make -C docker build && make -C docker test-local PROFILE=dev",
     "test:prod": "make -C docker test-deployed-prod",
     "test:python": "make -C docker test-unit",
     "test:ts": "cross-env NODE_ENV=test jest --maxWorkers=50%",