npm - @quiltdata/benchling-webhook - Versions diffs - 0.7.4-20251107T001721Z → 0.7.4-20251107T155705Z - Mend

@quiltdata/benchling-webhook 0.7.4-20251107T001721Z → 0.7.4-20251107T155705Z

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (21) hide show

package/README.md +4 -6
package/dist/bin/cli.js +18 -0
package/dist/bin/cli.js.map +1 -1
package/dist/bin/commands/config-show.d.ts +14 -0
package/dist/bin/commands/config-show.d.ts.map +1 -0
package/dist/bin/commands/config-show.js +24 -0
package/dist/bin/commands/config-show.js.map +1 -0
package/dist/bin/commands/setup-wizard.d.ts.map +1 -1
package/dist/bin/commands/setup-wizard.js +45 -5
package/dist/bin/commands/setup-wizard.js.map +1 -1
package/dist/bin/commands/sync-secrets.d.ts +1 -0
package/dist/bin/commands/sync-secrets.d.ts.map +1 -1
package/dist/bin/commands/sync-secrets.js +2 -2
package/dist/bin/commands/sync-secrets.js.map +1 -1
package/dist/package.json +3 -4
package/package.json +3 -4
package/dist/bin/commands/get-env.d.ts +0 -16
package/dist/bin/commands/get-env.d.ts.map +0 -1
package/dist/bin/commands/get-env.js +0 -210
package/dist/bin/commands/get-env.js.map +0 -1
package/env.template +0 -79

package/README.md CHANGED Viewed

@@ -2,12 +2,6 @@
 Connects Benchling lab notebook entries to Quilt data packages via webhooks.
-## BREAKING CHANGE: v0.7.0
-Version 0.7.0 introduces a completely new configuration architecture using the industry-standing XDG_CONFIG_HOME.
-If you are upgrading from an earlier version, **you must reconfigure your deployment**.
-Just run the wizard and copy the necessary values from your `.env` file, if any.
 ## Prerequisites
 - Node.js 18+ with `npx` ([download](https://nodejs.org))
@@ -45,6 +39,10 @@ The wizard will:
 It will list the outputs, including the webhook URL.
+NOTE: This version no longer reads your `.env` file.
+Instead, it stores your results in the [XDG_CONFIG_HOME](https://wiki.archlinux.org/title/XDG_Base_Directory),
+where you can have more than one profile.
 ### 3. Configure Webhook URL
 After deployment, add the webhook URL to your [Benchling app settings](https://docs.benchling.com/docs/getting-started-benchling-apps#installing-your-app).

package/dist/bin/cli.js CHANGED Viewed

@@ -14,6 +14,7 @@ const manifest_1 = require("./commands/manifest");
 const setup_wizard_1 = require("./commands/setup-wizard");
 const setup_profile_1 = require("./commands/setup-profile");
 const health_check_1 = require("./commands/health-check");
+const config_show_1 = require("./commands/config-show");
 // Load package.json for version
 // eslint-disable-next-line @typescript-eslint/no-require-imports
 const pkg = require("../package.json");
@@ -185,6 +186,20 @@ program
         process.exit(1);
     }
 });
+// Config show command (for Python interop)
+program
+    .command("config")
+    .description("Show configuration for a profile as JSON")
+    .option("--profile <name>", "Configuration profile to show", "default")
+    .action(async (options) => {
+    try {
+        await (0, config_show_1.configShowCommand)(options);
+    }
+    catch (error) {
+        console.error(chalk_1.default.red(error.message));
+        process.exit(1);
+    }
+});
 // Run setup wizard when no command provided (but not for help/version flags)
 const args = process.argv.slice(2);
 const isHelpOrVersion = args.some(arg => arg === "--help" || arg === "-h" || arg === "--version" || arg === "-v");
@@ -211,6 +226,9 @@ if ((!args.length || (args.length > 0 && args[0].startsWith("--") && !isHelpOrVe
             options.awsProfile = args[i + 1];
             i++;
         }
+        else if (args[i] === "--skip-validation") {
+            options.skipValidation = true;
+        }
     }
     (0, setup_wizard_1.setupWizardCommand)(options)
         .then(() => process.exit(0))

package/dist/bin/cli.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ 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package/dist/bin/commands/config-show.d.ts ADDED Viewed

@@ -0,0 +1,14 @@
+#!/usr/bin/env node
+/**
+ * Config Show Command
+ *
+ * Outputs the complete configuration for a profile as JSON.
+ * This is used by Python code to avoid config logic duplication.
+ */
+interface ConfigShowOptions {
+    profile?: string;
+    json?: boolean;
+}
+export declare function configShowCommand(options: ConfigShowOptions): Promise<void>;
+export {};
+//# sourceMappingURL=config-show.d.ts.map

package/dist/bin/commands/config-show.d.ts.map ADDED Viewed

	@@ -0,0 +1 @@
1	+ {"version":3,"file":"config-show.d.ts","sourceRoot":"","sources":["../../../bin/commands/config-show.ts"],"names":[],"mappings":";AACA;;;;;GAKG;AAIH,UAAU,iBAAiB;IACvB,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,IAAI,CAAC,EAAE,OAAO,CAAC;CAClB;AAED,wBAAsB,iBAAiB,CAAC,OAAO,EAAE,iBAAiB,GAAG,OAAO,CAAC,IAAI,CAAC,CAejF"}

package/dist/bin/commands/config-show.js ADDED Viewed

@@ -0,0 +1,24 @@
+#!/usr/bin/env node
+"use strict";
+/**
+ * Config Show Command
+ *
+ * Outputs the complete configuration for a profile as JSON.
+ * This is used by Python code to avoid config logic duplication.
+ */
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.configShowCommand = configShowCommand;
+const xdg_config_1 = require("../../lib/xdg-config");
+async function configShowCommand(options) {
+    const profile = options.profile || "default";
+    const xdg = new xdg_config_1.XDGConfig();
+    // Check if profile exists
+    if (!xdg.profileExists(profile)) {
+        throw new Error(`Profile does not exist: ${profile}`);
+    }
+    // Read the profile configuration
+    const config = xdg.readProfile(profile);
+    // Always output as JSON (for Python consumption)
+    console.log(JSON.stringify(config, null, 2));
+}
+//# sourceMappingURL=config-show.js.map

package/dist/bin/commands/config-show.js.map ADDED Viewed

@@ -0,0 +1 @@

+ {"version":3,"file":"config-show.js","sourceRoot":"","sources":["../../../bin/commands/config-show.ts"],"names":[],"mappings":";;AACA;;;;;GAKG;;AASH,8CAeC;AAtBD,qDAAiD;AAO1C,KAAK,UAAU,iBAAiB,CAAC,OAA0B;IAC9D,MAAM,OAAO,GAAG,OAAO,CAAC,OAAO,IAAI,SAAS,CAAC;IAE7C,MAAM,GAAG,GAAG,IAAI,sBAAS,EAAE,CAAC;IAE5B,0BAA0B;IAC1B,IAAI,CAAC,GAAG,CAAC,aAAa,CAAC,OAAO,CAAC,EAAE,CAAC;QAC9B,MAAM,IAAI,KAAK,CAAC,2BAA2B,OAAO,EAAE,CAAC,CAAC;IAC1D,CAAC;IAED,iCAAiC;IACjC,MAAM,MAAM,GAAG,GAAG,CAAC,WAAW,CAAC,OAAO,CAAC,CAAC;IAExC,iDAAiD;IACjD,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,MAAM,EAAE,IAAI,EAAE,CAAC,CAAC,CAAC,CAAC;AACjD,CAAC"}

package/dist/bin/commands/setup-wizard.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"setup-wizard.d.ts","sourceRoot":"","sources":["../../../bin/commands/setup-wizard.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;GAaG;~~AAimBH~~;;GAEG;AACH,MAAM,WAAW,oBAAoB;IACjC,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,cAAc,CAAC,EAAE,OAAO,CAAC;IACzB,cAAc,CAAC,EAAE,OAAO,CAAC;IACzB,eAAe,CAAC,EAAE,OAAO,CAAC;IAC1B,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,MAAM,CAAC;CACtB;AAwND;;;;;GAKG;AACH,wBAAsB,kBAAkB,CAAC,OAAO,GAAE,oBAAyB,GAAG,OAAO,CAAC,IAAI,CAAC,CAe1F"}
1	+ {"version":3,"file":"setup-wizard.d.ts","sourceRoot":"","sources":["../../../bin/commands/setup-wizard.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;GAaG;AA+oBH;;GAEG;AACH,MAAM,WAAW,oBAAoB;IACjC,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,cAAc,CAAC,EAAE,OAAO,CAAC;IACzB,cAAc,CAAC,EAAE,OAAO,CAAC;IACzB,eAAe,CAAC,EAAE,OAAO,CAAC;IAC1B,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,SAAS,CAAC,EAAE,MAAM,CAAC;CACtB;AAwND;;;;;GAKG;AACH,wBAAsB,kBAAkB,CAAC,OAAO,GAAE,oBAAyB,GAAG,OAAO,CAAC,IAAI,CAAC,CAe1F"}

package/dist/bin/commands/setup-wizard.js CHANGED Viewed

@@ -180,12 +180,33 @@ async function validateS3BucketAccess(bucketName, region, awsProfile) {
         return result;
     }
     try {
-        const clientConfig = { region };
+        // Start with a region-agnostic client to get bucket location
+        const clientConfig = {};
         if (awsProfile) {
             const { fromIni } = await Promise.resolve().then(() => __importStar(require("@aws-sdk/credential-providers")));
             clientConfig.credentials = fromIni({ profile: awsProfile });
         }
-        const s3Client = new client_s3_1.S3Client(clientConfig);
+        // Use us-east-1 as the default region for GetBucketLocation
+        // S3 will automatically redirect to the correct region
+        let s3Client = new client_s3_1.S3Client({ ...clientConfig, region: "us-east-1" });
+        // First, try to determine the bucket's actual region
+        let bucketRegion = region;
+        try {
+            const { GetBucketLocationCommand } = await Promise.resolve().then(() => __importStar(require("@aws-sdk/client-s3")));
+            const locationCommand = new GetBucketLocationCommand({ Bucket: bucketName });
+            const locationResponse = await s3Client.send(locationCommand);
+            // LocationConstraint is null for us-east-1, otherwise it's the region name
+            bucketRegion = locationResponse.LocationConstraint || "us-east-1";
+            if (bucketRegion !== region) {
+                console.log(`  ℹ Bucket is in region ${bucketRegion} (deployment region is ${region})`);
+            }
+        }
+        catch {
+            // If we can't determine the region, try with the provided region
+            console.log(`  ℹ Using deployment region ${region} for bucket validation`);
+        }
+        // Now use a client with the correct region
+        s3Client = new client_s3_1.S3Client({ ...clientConfig, region: bucketRegion });
         // Test HeadBucket (verify bucket exists and we have access)
         const headCommand = new client_s3_1.HeadBucketCommand({ Bucket: bucketName });
         await s3Client.send(headCommand);
@@ -201,7 +222,26 @@ async function validateS3BucketAccess(bucketName, region, awsProfile) {
     }
     catch (error) {
         const err = error;
-        result.errors.push(`S3 bucket validation failed: ${err.message}`);
+        // Extract detailed error information from AWS SDK error
+        let errorMsg = err.message || "Unknown error";
+        const errorCode = err.Code || err.code || err.name;
+        const statusCode = err.$metadata?.httpStatusCode;
+        // Build detailed error message
+        const details = [errorMsg];
+        if (errorCode && errorCode !== errorMsg) {
+            details.push(`Code: ${errorCode}`);
+        }
+        if (statusCode) {
+            details.push(`Status: ${statusCode}`);
+        }
+        result.errors.push(`S3 bucket validation failed: ${details.join(", ")}`);
+        // Add helpful hints based on error type
+        if (errorCode === "NoSuchBucket" || statusCode === 404) {
+            result.errors.push(`Hint: Bucket '${bucketName}' does not exist or is not accessible`);
+        }
+        else if (errorCode === "AccessDenied" || statusCode === 403) {
+            result.errors.push("Hint: Check that your AWS credentials have s3:GetBucketLocation, s3:HeadBucket and s3:ListBucket permissions");
+        }
     }
     return result;
 }
@@ -688,10 +728,10 @@ async function runInstallWizard(options = {}) {
             await syncSecretsToAWS({
                 profile,
                 awsProfile,
-                region: awsRegion,
+                region: config.deployment.region,
                 force: true,
             });
-            console.log(`✓ Secrets synced to AWS Secrets Manager\n`);
+            console.log("✓ Secrets synced to AWS Secrets Manager\n");
         }
         catch (error) {
             console.warn(chalk_1.default.yellow(`⚠️  Failed to sync secrets: ${error.message}`));

package/dist/bin/commands/setup-wizard.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/dist/bin/commands/sync-secrets.d.ts CHANGED Viewed

@@ -25,6 +25,7 @@ interface SyncSecretsOptions {
     region?: string;
     dryRun?: boolean;
     force?: boolean;
+    baseDir?: string;
 }
 /**
  * Sync result

package/dist/bin/commands/sync-secrets.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"sync-secrets.d.ts","sourceRoot":"","sources":["../../../bin/commands/sync-secrets.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;GAeG;AAYH,OAAO,EAAiB,WAAW,EAAE,MAAM,wBAAwB,CAAC;AAGpE;;GAEG;AACH,UAAU,kBAAkB;IACxB,OAAO,CAAC,EAAE,WAAW,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,KAAK,CAAC,EAAE,OAAO,CAAC;~~CACnB~~;AAWD;;GAEG;AACH,UAAU,UAAU;IAChB,UAAU,EAAE,MAAM,CAAC;IACnB,SAAS,EAAE,MAAM,CAAC;IAClB,MAAM,EAAE,SAAS,GAAG,SAAS,GAAG,SAAS,CAAC;IAC1C,OAAO,EAAE,MAAM,CAAC;CACnB;AAgQD;;;;;GAKG;AACH,wBAAsB,gBAAgB,CAAC,OAAO,GAAE,kBAAuB,GAAG,OAAO,CAAC,UAAU,EAAE,CAAC,CA4G9F;AAED;;;;;GAKG;AACH,wBAAsB,iBAAiB,CAAC,OAAO,EAAE;IAC7C,OAAO,CAAC,EAAE,WAAW,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,MAAM,CAAC,EAAE,MAAM,CAAC;CACnB,GAAG,OAAO,CAAC,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC,CAmBlC;AAED;;;;;GAKG;AACH,wBAAsB,qBAAqB,CAAC,OAAO,EAAE;IACjD,OAAO,CAAC,EAAE,WAAW,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,MAAM,CAAC,EAAE,MAAM,CAAC;CACnB,GAAG,OAAO,CAAC,OAAO,CAAC,CAQnB"}
1	+ {"version":3,"file":"sync-secrets.d.ts","sourceRoot":"","sources":["../../../bin/commands/sync-secrets.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;GAeG;AAYH,OAAO,EAAiB,WAAW,EAAE,MAAM,wBAAwB,CAAC;AAGpE;;GAEG;AACH,UAAU,kBAAkB;IACxB,OAAO,CAAC,EAAE,WAAW,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,MAAM,CAAC,EAAE,OAAO,CAAC;IACjB,KAAK,CAAC,EAAE,OAAO,CAAC;IAChB,OAAO,CAAC,EAAE,MAAM,CAAC;CACpB;AAWD;;GAEG;AACH,UAAU,UAAU;IAChB,UAAU,EAAE,MAAM,CAAC;IACnB,SAAS,EAAE,MAAM,CAAC;IAClB,MAAM,EAAE,SAAS,GAAG,SAAS,GAAG,SAAS,CAAC;IAC1C,OAAO,EAAE,MAAM,CAAC;CACnB;AAgQD;;;;;GAKG;AACH,wBAAsB,gBAAgB,CAAC,OAAO,GAAE,kBAAuB,GAAG,OAAO,CAAC,UAAU,EAAE,CAAC,CA4G9F;AAED;;;;;GAKG;AACH,wBAAsB,iBAAiB,CAAC,OAAO,EAAE;IAC7C,OAAO,CAAC,EAAE,WAAW,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,MAAM,CAAC,EAAE,MAAM,CAAC;CACnB,GAAG,OAAO,CAAC,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC,CAmBlC;AAED;;;;;GAKG;AACH,wBAAsB,qBAAqB,CAAC,OAAO,EAAE;IACjD,OAAO,CAAC,EAAE,WAAW,CAAC;IACtB,UAAU,CAAC,EAAE,MAAM,CAAC;IACpB,MAAM,CAAC,EAAE,MAAM,CAAC;CACnB,GAAG,OAAO,CAAC,OAAO,CAAC,CAQnB"}

package/dist/bin/commands/sync-secrets.js CHANGED Viewed

@@ -283,11 +283,11 @@ function buildSecretValue(config, clientSecret) {
  * @returns Array of sync results
  */
 async function syncSecretsToAWS(options = {}) {
-    const { profile = "default", awsProfile, region = "us-east-1", dryRun = false, force = false } = options;
+    const { profile = "default", awsProfile, region = "us-east-1", dryRun = false, force = false, baseDir } = options;
     const results = [];
     // Step 1: Load configuration
     console.log(`Loading configuration from profile: ${profile}...`);
-    const xdgConfig = new xdg_config_1.XDGConfig();
+    const xdgConfig = new xdg_config_1.XDGConfig(baseDir);
     let config;
     try {
         config = xdgConfig.readProfile(profile);

package/dist/bin/commands/sync-secrets.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/dist/package.json CHANGED Viewed

@@ -1,14 +1,13 @@
 {
     "name": "@quiltdata/benchling-webhook",
-    "version": "0.7.4-20251107T001721Z",
+    "version": "0.7.4-20251107T155705Z",
     "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",
     "files": [
         "dist/",
         "README.md",
-        "LICENSE",
-        "env.template"
+        "LICENSE"
     ],
     "bin": {
         "benchling-webhook": "./dist/bin/cli.js"
@@ -37,7 +36,7 @@
         "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/package.json CHANGED Viewed

@@ -1,14 +1,13 @@
 {
   "name": "@quiltdata/benchling-webhook",
-  "version": "0.7.4-20251107T001721Z",
+  "version": "0.7.4-20251107T155705Z",
   "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",
   "files": [
     "dist/",
     "README.md",
-    "LICENSE",
-    "env.template"
+    "LICENSE"
   ],
   "bin": {
     "benchling-webhook": "./dist/bin/cli.js"
@@ -37,7 +36,7 @@
     "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/bin/commands/get-env.d.ts DELETED Viewed

@@ -1,16 +0,0 @@
-#!/usr/bin/env node
-/**
- * Get environment configuration from a Quilt catalog's config.json
- *
- * This script fetches config.json from a Quilt catalog URL and attempts to:
- * 1. Parse the configuration
- * 2. Query AWS CloudFormation to find the stack using resource identifiers
- * 3. Extract stack outputs and parameters
- * 4. Generate environment variables for .env
- *
- * Usage:
- *   node bin/get-env.ts https://quilt-catalog.yourcompany.com
- *   node bin/get-env.ts https://quilt-catalog.yourcompany.com --write
- */
-export * from "../../lib/utils/stack-inference";
-//# sourceMappingURL=get-env.d.ts.map

package/dist/bin/commands/get-env.d.ts.map DELETED Viewed

	@@ -1 +0,0 @@
1	- {"version":3,"file":"get-env.d.ts","sourceRoot":"","sources":["../../../bin/commands/get-env.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;GAYG;AA+KH,cAAc,iCAAiC,CAAC"}

package/dist/bin/commands/get-env.js DELETED Viewed

@@ -1,210 +0,0 @@
-#!/usr/bin/env node
-"use strict";
-/**
- * Get environment configuration from a Quilt catalog's config.json
- *
- * This script fetches config.json from a Quilt catalog URL and attempts to:
- * 1. Parse the configuration
- * 2. Query AWS CloudFormation to find the stack using resource identifiers
- * 3. Extract stack outputs and parameters
- * 4. Generate environment variables for .env
- *
- * Usage:
- *   node bin/get-env.ts https://quilt-catalog.yourcompany.com
- *   node bin/get-env.ts https://quilt-catalog.yourcompany.com --write
- */
-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 __exportStar = (this && this.__exportStar) || function(m, exports) {
-    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const fs = __importStar(require("fs"));
-const path = __importStar(require("path"));
-// Import utility functions from lib/utils
-const stack_inference_1 = require("../../lib/utils/stack-inference");
-// Parse command line arguments (only when run directly)
-let args;
-let catalogUrl;
-let outputFile;
-let writeFile;
-if (require.main === module) {
-    args = process.argv.slice(2);
-    catalogUrl = args.find((arg) => !arg.startsWith("--"));
-    outputFile = args.find((arg) => arg.startsWith("--output="))?.split("=")[1];
-    writeFile = args.includes("--write");
-    if (!catalogUrl || args.includes("--help") || args.includes("-h")) {
-        printHelp();
-        process.exit(catalogUrl ? 0 : 1);
-    }
-}
-// CLI-specific functions moved to lib/utils/stack-inference.ts
-// Re-export for backward compatibility if needed
-/**
- * Format environment variables for output
- */
-function formatEnvVars(vars) {
-    const lines = [];
-    lines.push("# ==============================================================================");
-    lines.push("# INFERRED CONFIGURATION");
-    lines.push("# ==============================================================================");
-    lines.push("# Generated by: bin/get-env.ts");
-    lines.push("# Date: " + new Date().toISOString());
-    lines.push("#");
-    lines.push("# ⚠️  IMPORTANT: Review and verify all values before using!");
-    lines.push("#    Some values may need manual verification or completion.");
-    lines.push("# ==============================================================================");
-    lines.push("");
-    for (const [key, value] of Object.entries(vars)) {
-        if (key.startsWith("#")) {
-            lines.push(`${key}: ${value}`);
-        }
-        else {
-            lines.push(`${key}=${value}`);
-        }
-    }
-    lines.push("");
-    lines.push("# ==============================================================================");
-    lines.push("# REQUIRED VALUES NOT INFERRED - Must be filled manually");
-    lines.push("# ==============================================================================");
-    lines.push("PREFIX=benchling-webhook");
-    lines.push("BENCHLING_TENANT=your-tenant");
-    lines.push("BENCHLING_CLIENT_ID=your-client-id");
-    lines.push("BENCHLING_CLIENT_SECRET=your-client-secret");
-    lines.push("BENCHLING_APP=benchling-webhook");
-    lines.push("BENCHLING_API_KEY=your-api-key");
-    lines.push("BENCHLING_APP_DEFINITION_ID=appdef_your_id_here");
-    lines.push("ENABLE_WEBHOOK_VERIFICATION=true");
-    lines.push("BENCHLING_TEST_ENTRY=etr_123456789");
-    lines.push("");
-    return lines.join("\n");
-}
-/**
- * Print help
- */
-function printHelp() {
-    console.log("Usage: node bin/get-env.ts <catalog-url> [options]");
-    console.log("");
-    console.log("Arguments:");
-    console.log("  catalog-url    URL of Quilt catalog (e.g., https://quilt-catalog.yourcompany.com)");
-    console.log("");
-    console.log("Options:");
-    console.log("  --output=FILE  Write output to FILE instead of stdout");
-    console.log("  --write        Write to env.inferred by default (without dot - user-visible)");
-    console.log("  --help, -h     Show this help message");
-    console.log("");
-    console.log("Examples:");
-    console.log("  node bin/get-env.ts https://nightly.quilttest.com");
-    console.log("  node bin/get-env.ts https://nightly.quilttest.com --write");
-    console.log("  node bin/get-env.ts https://nightly.quilttest.com --output=env.staging");
-    console.log("");
-    console.log("Description:");
-    console.log("  This script fetches config.json from a Quilt catalog and infers");
-    console.log("  environment variables needed for benchling-webhook deployment by:");
-    console.log("  1. Parsing the catalog configuration");
-    console.log("  2. Querying AWS CloudFormation to find the associated stack");
-    console.log("  3. Extracting stack outputs and parameters");
-    console.log("  4. Generating environment variable assignments");
-    console.log("");
-    console.log("Requirements:");
-    console.log("  - AWS CLI installed and configured");
-    console.log("  - AWS credentials with CloudFormation read permissions");
-    console.log("  - Network access to the catalog URL");
-}
-/**
- * Main execution
- */
-async function main() {
-    if (!catalogUrl) {
-        throw new Error("Catalog URL is required");
-    }
-    try {
-        const result = await (0, stack_inference_1.inferStackConfig)(catalogUrl);
-        // Format output
-        const output = formatEnvVars(result.inferredVars);
-        // Print summary
-        console.log("=".repeat(80));
-        console.log("INFERRED CONFIGURATION");
-        console.log("=".repeat(80));
-        console.log("");
-        console.log(output);
-        console.log("");
-        // Write to file if requested
-        const targetFile = outputFile || (writeFile ? "env.inferred" : null);
-        if (targetFile) {
-            const fullPath = path.resolve(targetFile);
-            // Check if .env already exists and warn before proceeding
-            const envPath = path.resolve(".env");
-            if (fs.existsSync(envPath)) {
-                console.log("⚠️  NOTICE: A .env file already exists!");
-                console.log(`   Writing to ${targetFile} instead to avoid overwriting your configuration.`);
-                console.log("");
-            }
-            fs.writeFileSync(fullPath, output);
-            console.log("=".repeat(80));
-            console.log(`✓ Configuration written to: ${fullPath}`);
-            console.log("=".repeat(80));
-            console.log("");
-            console.log("Next steps:");
-            console.log("  1. Review the generated file and verify all values");
-            console.log("  2. Fill in the REQUIRED VALUES section with your Benchling credentials");
-            if (fs.existsSync(envPath)) {
-                console.log("  3. Carefully merge with your existing .env file (DO NOT overwrite!)");
-                console.log("     Compare: diff .env env.inferred");
-            }
-            else {
-                console.log("  3. Copy to .env when ready: cp env.inferred .env");
-            }
-            console.log("");
-        }
-        else {
-            console.log("=".repeat(80));
-            console.log("To save this configuration, run:");
-            console.log(`  node bin/get-env.ts ${catalogUrl} --write`);
-            console.log("=".repeat(80));
-            console.log("");
-        }
-    }
-    catch (error) {
-        const err = error;
-        console.error("Error:", err.message);
-        process.exit(1);
-    }
-}
-if (require.main === module) {
-    main();
-}
-// For backward compatibility, re-export from the new location
-__exportStar(require("../../lib/utils/stack-inference"), exports);
-//# sourceMappingURL=get-env.js.map

package/dist/bin/commands/get-env.js.map DELETED Viewed

@@ -1 +0,0 @@

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package/env.template DELETED Viewed

@@ -1,79 +0,0 @@
-#
-# ALWAYS REQUIRED PARAMETERS
-#
-# --- Benchling OAuth Configuration ---
-# Tenant: Use XXX if you login at XXX.benchling.com
-BENCHLING_TENANT=your-tenant
-# OAuth credentials from your Benchling app
-BENCHLING_CLIENT_ID=your-client-id
-BENCHLING_CLIENT_SECRET=your-client-secret
-# App definition ID from Benchling app manifest
-BENCHLING_APP_DEFINITION_ID=appdef_your_id_here
-# S3 bucket for storing Benchling exports (YOUR data bucket)
-BENCHLING_PKG_BUCKET=your-data-bucket # (without s3:// prefix)
-#
-# POSSIBLY REQUIRED PARAMETERS
-#
-QUILT_CATALOG=quilt-stack.your-company.com
-# Required UNLESS available from 'quilt3 config'
-BENCHLING_TEST_ENTRY=etr_123456789
-# Actual entry ID from your tenant, needed to run integration tests
-#
-# Optional PARAMETERS
-#
-# --- Package Configuration ---
-# Prefix for Quilt package names (e.g., "benchling/my-experiment")
-BENCHLING_PKG_PREFIX=benchling
-# Metadata key to link Benchling entries to packages
-BENCHLING_PKG_KEY=experiment_id
-# --- Application Configuration (Required) ---
-# Logging level: DEBUG, INFO, WARNING, ERROR, CRITICAL
-BENCHLING_LOG_LEVEL=INFO
-# Enable/disable webhook signature verification (true/false)
-BENCHLING_ENABLE_WEBHOOK_VERIFICATION=true
-# Comma-separated list of allowed source IPs (leave empty to allow all)
-# Example: 34.216.192.90,34.217.183.162
-BENCHLING_WEBHOOK_ALLOW_LIST=
-# ==============================================================================
-# NOTES
-# ==============================================================================
-#
-# Quick Start:
-#   1. Copy this file to .env: cp env.template .env
-#   2. Fill in BENCHLING_* variables (section 2)
-#   3. Create secret: npm run config
-#   4. Fill in QuiltStackARN (section 1)
-#   5. Deploy: npm run deploy
-#
-# Configuration at Runtime:
-#   The deployed stack resolves ALL configuration from just 2 sources:
-#   - QuiltStackARN → gets Quilt catalog, database, SQS queue from CloudFormation
-#   - BenchlingSecret → gets all Benchling credentials and app config from Secrets Manager
-#
-#   No other environment variables are needed for production deployment.
-#
-# Local Development:
-#   For testing locally without AWS:
-#   - make -C docker run-local   (starts Flask with mocked AWS)
-#   - make -C docker test-local  (runs tests against local server)
-#
-# For More Information:
-#   - See docs/PARAMETERS.md for parameter reference
-#   - See README.md for complete setup guide
-#   - Run: npm run cli -- --help
-#