@quiltdata/benchling-webhook 0.9.9 → 0.10.0-20251224T233317Z

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Files changed (74) hide show
  1. package/README.md +0 -132
  2. package/dist/bin/benchling-webhook.d.ts +29 -5
  3. package/dist/bin/benchling-webhook.d.ts.map +1 -1
  4. package/dist/bin/benchling-webhook.js +28 -132
  5. package/dist/bin/benchling-webhook.js.map +1 -1
  6. package/dist/bin/commands/deploy.d.ts +7 -1
  7. package/dist/bin/commands/deploy.d.ts.map +1 -1
  8. package/dist/bin/commands/deploy.js +49 -152
  9. package/dist/bin/commands/deploy.js.map +1 -1
  10. package/dist/bin/commands/infer-quilt-config.d.ts +0 -2
  11. package/dist/bin/commands/infer-quilt-config.d.ts.map +1 -1
  12. package/dist/bin/commands/infer-quilt-config.js +0 -11
  13. package/dist/bin/commands/infer-quilt-config.js.map +1 -1
  14. package/dist/bin/commands/setup-wizard.d.ts +0 -1
  15. package/dist/bin/commands/setup-wizard.d.ts.map +1 -1
  16. package/dist/bin/commands/setup-wizard.js +0 -1
  17. package/dist/bin/commands/setup-wizard.js.map +1 -1
  18. package/dist/bin/commands/status.d.ts.map +1 -1
  19. package/dist/bin/commands/status.js +0 -4
  20. package/dist/bin/commands/status.js.map +1 -1
  21. package/dist/bin/commands/sync-secrets.d.ts.map +1 -1
  22. package/dist/bin/commands/sync-secrets.js +0 -4
  23. package/dist/bin/commands/sync-secrets.js.map +1 -1
  24. package/dist/bin/xdg-launch.d.ts.map +1 -1
  25. package/dist/bin/xdg-launch.js +0 -2
  26. package/dist/bin/xdg-launch.js.map +1 -1
  27. package/dist/lib/benchling-webhook-stack.d.ts +8 -7
  28. package/dist/lib/benchling-webhook-stack.d.ts.map +1 -1
  29. package/dist/lib/benchling-webhook-stack.js +6 -31
  30. package/dist/lib/benchling-webhook-stack.js.map +1 -1
  31. package/dist/lib/fargate-service.d.ts +4 -6
  32. package/dist/lib/fargate-service.d.ts.map +1 -1
  33. package/dist/lib/fargate-service.js +16 -19
  34. package/dist/lib/fargate-service.js.map +1 -1
  35. package/dist/lib/rest-api-gateway.d.ts +2 -2
  36. package/dist/lib/rest-api-gateway.d.ts.map +1 -1
  37. package/dist/lib/rest-api-gateway.js +2 -9
  38. package/dist/lib/rest-api-gateway.js.map +1 -1
  39. package/dist/lib/types/config.d.ts +0 -28
  40. package/dist/lib/types/config.d.ts.map +1 -1
  41. package/dist/lib/types/config.js +0 -2
  42. package/dist/lib/types/config.js.map +1 -1
  43. package/dist/lib/types/stack-config.d.ts +170 -0
  44. package/dist/lib/types/stack-config.d.ts.map +1 -0
  45. package/dist/lib/types/stack-config.js +17 -0
  46. package/dist/lib/types/stack-config.js.map +1 -0
  47. package/dist/lib/utils/config-transform.d.ts +92 -0
  48. package/dist/lib/utils/config-transform.d.ts.map +1 -0
  49. package/dist/lib/utils/config-transform.js +263 -0
  50. package/dist/lib/utils/config-transform.js.map +1 -0
  51. package/dist/lib/utils/service-resolver.d.ts +1 -15
  52. package/dist/lib/utils/service-resolver.d.ts.map +1 -1
  53. package/dist/lib/utils/service-resolver.js +2 -11
  54. package/dist/lib/utils/service-resolver.js.map +1 -1
  55. package/dist/lib/utils/stack-inference.d.ts +1 -7
  56. package/dist/lib/utils/stack-inference.d.ts.map +1 -1
  57. package/dist/lib/utils/stack-inference.js +1 -5
  58. package/dist/lib/utils/stack-inference.js.map +1 -1
  59. package/dist/lib/wizard/phase2-stack-query.d.ts.map +1 -1
  60. package/dist/lib/wizard/phase2-stack-query.js +0 -11
  61. package/dist/lib/wizard/phase2-stack-query.js.map +1 -1
  62. package/dist/lib/wizard/phase3-parameter-collection.d.ts.map +1 -1
  63. package/dist/lib/wizard/phase3-parameter-collection.js +12 -113
  64. package/dist/lib/wizard/phase3-parameter-collection.js.map +1 -1
  65. package/dist/lib/wizard/phase6-integrated-mode.d.ts.map +1 -1
  66. package/dist/lib/wizard/phase6-integrated-mode.js +0 -9
  67. package/dist/lib/wizard/phase6-integrated-mode.js.map +1 -1
  68. package/dist/lib/wizard/phase7-standalone-mode.d.ts.map +1 -1
  69. package/dist/lib/wizard/phase7-standalone-mode.js +0 -9
  70. package/dist/lib/wizard/phase7-standalone-mode.js.map +1 -1
  71. package/dist/lib/wizard/types.d.ts +1 -6
  72. package/dist/lib/wizard/types.d.ts.map +1 -1
  73. package/dist/package.json +1 -1
  74. package/package.json +1 -1
package/dist/lib/wizard/phase3-parameter-collection.js CHANGED
@@ -29,88 +29,28 @@ const manifest_1 = require("../../bin/commands/manifest");
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  * @returns Parameter collection result
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  */
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  async function runParameterCollection(input) {
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- const { stackQuery, existingConfig, yes = false, profile = "default" } = input;
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+ const { stackQuery, existingConfig, yes = false } = input;
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  // =========================================================================
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- // VPC Configuration (FIRST - most important infrastructure decision)
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+ // VPC Configuration (auto-use discovered VPC from Quilt stack)
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  // =========================================================================
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  console.log(chalk_1.default.cyan("VPC Configuration:"));
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- let vpcId;
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- // Use VPC discovered in Phase 2 (Stack Query)
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  const discoveredVpc = stackQuery.discoveredVpc;
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+ let vpcConfig = undefined;
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  if (discoveredVpc && discoveredVpc.isValid) {
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- // Report discovered VPC
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  const vpcDescription = discoveredVpc.name
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  ? `${discoveredVpc.name} (${discoveredVpc.vpcId})`
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  : discoveredVpc.vpcId;
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  console.log(` VPC: ${vpcDescription} - ${discoveredVpc.privateSubnetCount} private subnets in ${discoveredVpc.availabilityZoneCount} AZs`);
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- // Warn about potential connectivity issues
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- console.log(chalk_1.default.yellow(" ⚠ Warning: This VPC may block Benchling webhook access"));
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- if (yes) {
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- // In non-interactive mode, check if there's an existing VPC preference
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- if (existingConfig?.deployment?.vpc?.vpcId) {
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- vpcId = existingConfig.deployment.vpc.vpcId;
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- console.log(chalk_1.default.dim(` Using VPC: ${vpcId} (from existing config)`));
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- }
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- else {
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- // Default to creating new VPC in non-interactive mode (safer default)
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- vpcId = undefined;
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- console.log(chalk_1.default.dim(" Will create new standalone VPC (recommended, safer default)"));
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- }
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- }
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- else {
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- // Interactive mode - ask if they want to create standalone VPC
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- // Default to YES (create new VPC) unless existing config uses this VPC
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- const defaultCreateStandalone = existingConfig?.deployment?.vpc?.vpcId !== discoveredVpc.vpcId;
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- const { createStandaloneVpc } = await inquirer_1.default.prompt([
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- {
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- type: "confirm",
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- name: "createStandaloneVpc",
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- message: "Create standalone VPC? (No = use existing VPC from stack)",
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- default: defaultCreateStandalone,
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- },
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- ]);
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- vpcId = createStandaloneVpc ? undefined : discoveredVpc.vpcId;
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- // Check if VPC selection changed from existing configuration
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- const existingVpcId = existingConfig?.deployment?.vpc?.vpcId;
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- const vpcChanged = existingVpcId && existingVpcId !== vpcId;
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- if (vpcChanged) {
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- // CRITICAL WARNING: Changing VPC requires stack destruction
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- // Use actual profile name for commands (omit --profile flag if default)
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- const profileFlag = profile !== "default" ? ` --profile ${profile}` : "";
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- console.log("\n" + chalk_1.default.red.bold("⚠️ IMPORTANT: VPC CONFIGURATION CHANGED"));
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- console.log(chalk_1.default.yellow(` Previous VPC: ${existingVpcId}`));
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- console.log(chalk_1.default.yellow(` New VPC: ${vpcId || "new standalone VPC"}`));
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- console.log("");
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- console.log(chalk_1.default.red(" Changing VPC requires destroying and redeploying the stack."));
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- console.log(chalk_1.default.yellow(" You will likely need to run:"));
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- console.log(chalk_1.default.cyan(` npx @quiltdata/benchling-webhook@latest destroy${profileFlag}`));
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- console.log(chalk_1.default.cyan(` npx @quiltdata/benchling-webhook@latest deploy${profileFlag}`));
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- console.log("");
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- const { confirmVpcChange } = await inquirer_1.default.prompt([
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- {
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- type: "confirm",
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- name: "confirmVpcChange",
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- message: "Do you understand that changing VPC requires stack destruction and redeployment?",
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- default: false,
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- },
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- ]);
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- if (!confirmVpcChange) {
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- console.log(chalk_1.default.yellow("\nSetup cancelled. VPC configuration not changed.\n"));
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- process.exit(0);
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- }
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- }
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- if (vpcId) {
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- console.log(chalk_1.default.dim(` Using existing VPC: ${vpcId}`));
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- }
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- else {
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- console.log(chalk_1.default.dim(" Will create new standalone VPC (2 AZs, private subnets, NAT Gateways)"));
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- }
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- }
44
+ vpcConfig = {
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+ vpcId: discoveredVpc.vpcId,
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+ privateSubnetIds: discoveredVpc.privateSubnetIds,
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+ publicSubnetIds: discoveredVpc.publicSubnetIds,
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+ availabilityZones: discoveredVpc.availabilityZones,
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+ vpcCidrBlock: discoveredVpc.cidrBlock,
50
+ };
109
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  }
110
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  else {
111
- // No valid VPC discovered - will auto-create
112
- console.log(" VPC: Will create new standalone VPC (2 AZs, private subnets, NAT Gateways)");
113
- vpcId = undefined;
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+ console.log(" Using wizard-managed VPC (no stack VPC detected)");
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54
  }
115
55
  // =========================================================================
116
56
  // Benchling Configuration
@@ -344,40 +284,6 @@ async function runParameterCollection(input) {
344
284
  ? existingConfig.benchling.clientSecret
345
285
  : credentialAnswers.clientSecret;
346
286
  }
347
- // Test Entry ID (optional) - can be reused even when creating new app
348
- let testEntryId;
349
- if (input.benchlingTestEntryId) {
350
- testEntryId = input.benchlingTestEntryId;
351
- console.log(` Test Entry ID: ${testEntryId} (from CLI)`);
352
- }
353
- else if (yes) {
354
- // In non-interactive mode, use existing config if available
355
- testEntryId = existingConfig?.benchling?.testEntryId;
356
- if (testEntryId) {
357
- console.log(` Test Entry ID: ${testEntryId} (from existing config)`);
358
- }
359
- }
360
- else {
361
- // Always show prompt with default from existing config (even for new apps)
362
- const existingTestEntryId = existingConfig?.benchling?.testEntryId;
363
- const testEntryAnswer = await inquirer_1.default.prompt([
364
- {
365
- type: "input",
366
- name: "testEntryId",
367
- message: "Benchling Test Entry ID (optional)" +
368
- (existingTestEntryId ? " (press Enter to keep existing):" : ":"),
369
- default: existingTestEntryId || "",
370
- },
371
- ]);
372
- // Accept both empty (to keep existing) and new values
373
- if (testEntryAnswer.testEntryId && testEntryAnswer.testEntryId.trim() !== "") {
374
- testEntryId = testEntryAnswer.testEntryId.trim();
375
- }
376
- else if (existingTestEntryId) {
377
- // User pressed Enter with existing value - keep it
378
- testEntryId = existingTestEntryId;
379
- }
380
- }
381
287
  // =========================================================================
382
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  // Package Configuration
383
289
  // =========================================================================
@@ -493,7 +399,6 @@ async function runParameterCollection(input) {
493
399
  clientId,
494
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  clientSecret,
495
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  appDefinitionId,
496
- testEntryId,
497
402
  },
498
403
  packages: {
499
404
  bucket,
@@ -503,13 +408,7 @@ async function runParameterCollection(input) {
503
408
  deployment: {
504
409
  region,
505
410
  account,
506
- vpc: vpcId && discoveredVpc ? {
507
- vpcId,
508
- privateSubnetIds: discoveredVpc.privateSubnetIds,
509
- publicSubnetIds: discoveredVpc.publicSubnetIds,
510
- availabilityZones: discoveredVpc.availabilityZones,
511
- vpcCidrBlock: discoveredVpc.cidrBlock,
512
- } : undefined,
411
+ vpc: vpcConfig,
513
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  },
514
413
  logging: {
515
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  level: logLevel,
package/dist/lib/wizard/phase3-parameter-collection.js.map CHANGED
@@ -1 +1 @@
1
- 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package/dist/lib/wizard/phase6-integrated-mode.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"phase6-integrated-mode.d.ts","sourceRoot":"","sources":["../../../lib/wizard/phase6-integrated-mode.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAMH,OAAO,EAAE,mBAAmB,EAAE,oBAAoB,EAAE,MAAM,SAAS,CAAC;AAmFpE;;;;;;;;;;;;;GAaG;AACH,wBAAsB,iBAAiB,CAAC,KAAK,EAAE,mBAAmB,GAAG,OAAO,CAAC,oBAAoB,CAAC,CAuOjG"}
1
+ {"version":3,"file":"phase6-integrated-mode.d.ts","sourceRoot":"","sources":["../../../lib/wizard/phase6-integrated-mode.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAMH,OAAO,EAAE,mBAAmB,EAAE,oBAAoB,EAAE,MAAM,SAAS,CAAC;AAyEpE;;;;;;;;;;;;;GAaG;AACH,wBAAsB,iBAAiB,CAAC,KAAK,EAAE,mBAAmB,GAAG,OAAO,CAAC,oBAAoB,CAAC,CAuOjG"}
package/dist/lib/wizard/phase6-integrated-mode.js CHANGED
@@ -96,9 +96,6 @@ function buildProfileConfig(input) {
96
96
  source: "wizard",
97
97
  },
98
98
  };
99
- if (parameters.benchling.testEntryId) {
100
- config.benchling.testEntryId = parameters.benchling.testEntryId;
101
- }
102
99
  // Add discovered workgroups and resources if present
103
100
  if (stackQuery.athenaUserWorkgroup) {
104
101
  config.quilt.athenaUserWorkgroup = stackQuery.athenaUserWorkgroup;
@@ -106,12 +103,6 @@ function buildProfileConfig(input) {
106
103
  if (stackQuery.athenaUserPolicy) {
107
104
  config.quilt.athenaUserPolicy = stackQuery.athenaUserPolicy;
108
105
  }
109
- if (stackQuery.icebergWorkgroup) {
110
- config.quilt.icebergWorkgroup = stackQuery.icebergWorkgroup;
111
- }
112
- if (stackQuery.icebergDatabase) {
113
- config.quilt.icebergDatabase = stackQuery.icebergDatabase;
114
- }
115
106
  if (stackQuery.athenaResultsBucket) {
116
107
  config.quilt.athenaResultsBucket = stackQuery.athenaResultsBucket;
117
108
  }
package/dist/lib/wizard/phase6-integrated-mode.js.map CHANGED
@@ -1 +1 @@
1
- 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package/dist/lib/wizard/phase7-standalone-mode.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"phase7-standalone-mode.d.ts","sourceRoot":"","sources":["../../../lib/wizard/phase7-standalone-mode.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAMH,OAAO,EAAE,mBAAmB,EAAE,oBAAoB,EAAE,MAAM,SAAS,CAAC;AAmFpE;;;;;;;;;;;;;GAaG;AACH,wBAAsB,iBAAiB,CAAC,KAAK,EAAE,mBAAmB,GAAG,OAAO,CAAC,oBAAoB,CAAC,CAqGjG"}
1
+ {"version":3,"file":"phase7-standalone-mode.d.ts","sourceRoot":"","sources":["../../../lib/wizard/phase7-standalone-mode.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAMH,OAAO,EAAE,mBAAmB,EAAE,oBAAoB,EAAE,MAAM,SAAS,CAAC;AAyEpE;;;;;;;;;;;;;GAaG;AACH,wBAAsB,iBAAiB,CAAC,KAAK,EAAE,mBAAmB,GAAG,OAAO,CAAC,oBAAoB,CAAC,CAqGjG"}
package/dist/lib/wizard/phase7-standalone-mode.js CHANGED
@@ -95,9 +95,6 @@ function buildProfileConfig(input) {
95
95
  source: "wizard",
96
96
  },
97
97
  };
98
- if (parameters.benchling.testEntryId) {
99
- config.benchling.testEntryId = parameters.benchling.testEntryId;
100
- }
101
98
  // Add discovered workgroups and resources if present
102
99
  if (stackQuery.athenaUserWorkgroup) {
103
100
  config.quilt.athenaUserWorkgroup = stackQuery.athenaUserWorkgroup;
@@ -105,12 +102,6 @@ function buildProfileConfig(input) {
105
102
  if (stackQuery.athenaUserPolicy) {
106
103
  config.quilt.athenaUserPolicy = stackQuery.athenaUserPolicy;
107
104
  }
108
- if (stackQuery.icebergWorkgroup) {
109
- config.quilt.icebergWorkgroup = stackQuery.icebergWorkgroup;
110
- }
111
- if (stackQuery.icebergDatabase) {
112
- config.quilt.icebergDatabase = stackQuery.icebergDatabase;
113
- }
114
105
  if (stackQuery.athenaResultsBucket) {
115
106
  config.quilt.athenaResultsBucket = stackQuery.athenaResultsBucket;
116
107
  }
package/dist/lib/wizard/phase7-standalone-mode.js.map CHANGED
@@ -1 +1 @@
1
- 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1
+ 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package/dist/lib/wizard/types.d.ts CHANGED
@@ -70,10 +70,7 @@ export interface StackQueryResult {
70
70
  athenaUserWorkgroup?: string;
71
71
  /** Athena user policy ARN (optional) */
72
72
  athenaUserPolicy?: string;
73
- /** Athena workgroup for Iceberg queries (optional) */
74
- icebergWorkgroup?: string;
75
- /** Iceberg database name - now from both outputs and resources */
76
- icebergDatabase?: string;
73
+ /** Athena workgroup */
77
74
  /** User Athena results bucket (S3 bucket for query results) */
78
75
  athenaResultsBucket?: string;
79
76
  /** User Athena results bucket policy ARN */
@@ -97,7 +94,6 @@ export interface ParameterCollectionInput {
97
94
  benchlingClientId?: string;
98
95
  benchlingClientSecret?: string;
99
96
  benchlingAppDefinitionId?: string;
100
- benchlingTestEntryId?: string;
101
97
  userBucket?: string;
102
98
  pkgPrefix?: string;
103
99
  pkgKey?: string;
@@ -113,7 +109,6 @@ export interface ParameterCollectionResult {
113
109
  clientId: string;
114
110
  clientSecret: string;
115
111
  appDefinitionId: string;
116
- testEntryId?: string;
117
112
  };
118
113
  packages: {
119
114
  bucket: string;
package/dist/lib/wizard/types.d.ts.map CHANGED
@@ -1 +1 @@
1
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package/dist/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@quiltdata/benchling-webhook",
3
- "version": "0.9.9",
3
+ "version": "0.10.0-20251224T233317Z",
4
4
  "description": "AWS CDK deployment for Benchling webhook processing using Fargate - Deploy directly with npx",
5
5
  "main": "dist/lib/index.js",
6
6
  "types": "dist/lib/index.d.ts",
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@quiltdata/benchling-webhook",
3
- "version": "0.9.9",
3
+ "version": "0.10.0-20251224T233317Z",
4
4
  "description": "AWS CDK deployment for Benchling webhook processing using Fargate - Deploy directly with npx",
5
5
  "main": "dist/lib/index.js",
6
6
  "types": "dist/lib/index.d.ts",