@orcabus/platform-cdk-constructs 0.0.99 → 0.0.101

package/.jsii

@@ -7163,6 +7163,6 @@
       "symbolId": "shared-config/slack:SlackAlerts"
     }
   },
-  "version": "0.0.99",
-  "fingerprint": "BNtXshN3DS2beoDlgK1LGEgZsu9g5SSO+xhoDSiVLSE="
+  "version": "0.0.101",
+  "fingerprint": "zvLwqJtTziHgrpFnG4EL5SxYV18znkqslm91rEBOpXI="
 }

package/api-gateway/api-gateway.js

@@ -15,7 +15,7 @@ const aws_lambda_1 = require("aws-cdk-lib/aws-lambda");
 const aws_route53_targets_1 = require("aws-cdk-lib/aws-route53-targets");
 const config_1 = require("./config");
 class OrcaBusApiGateway extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.apigateway.OrcaBusApiGateway", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.apigateway.OrcaBusApiGateway", version: "0.0.101" };
     /**
      * The AWS region where the API Gateway is deployed.
      */

package/deployment-stack-pipeline/artifact-bucket.js

@@ -13,7 +13,7 @@ exports.CROSS_DEPLOYMENT_ARTIFACT_BUCKET_NAME = "orcabus-cross-deployment-codepi
 exports.CROSS_DEPLOYMENT_ARTIFACT_KMS_ALIAS = "orcabus-cross-deployment-codepipeline-artifact";
 exports.CROSS_DEPLOYMENT_ARTIFACT_KMS_ARN_SSM_PARAMETER_NAME = "/orcabus/deployment-stack-pipeline/artifact-bucket/kms-key-arn";
 class CrossDeploymentArtifactBucket extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.deploymentPipeline.CrossDeploymentArtifactBucket", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.deploymentPipeline.CrossDeploymentArtifactBucket", version: "0.0.101" };
     /**
      * The S3 bucket used to store artifacts for cross-deployment pipelines.
      */

package/deployment-stack-pipeline/pipeline.js

@@ -32,7 +32,7 @@ exports.DEFAULT_SYNTH_STEP_PARTIAL_BUILD_SPEC = {
  * before using this construct.
  */
 class DeploymentStackPipeline extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.deploymentPipeline.DeploymentStackPipeline", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.deploymentPipeline.DeploymentStackPipeline", version: "0.0.101" };
     /**
      * The code pipeline construct that is created.
      */

package/dynamodb/index.js

@@ -40,7 +40,7 @@ const dynamodb = __importStar(require("aws-cdk-lib/aws-dynamodb"));
 const aws_cdk_lib_1 = require("aws-cdk-lib");
 const config_1 = require("./config");
 class DynamoDbPartitionedConstruct extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.dynamodb.DynamoDbPartitionedConstruct", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.dynamodb.DynamoDbPartitionedConstruct", version: "0.0.101" };
     table;
     constructor(scope, id, props) {
         super(scope, id);
@@ -75,7 +75,7 @@ class DynamoDbPartitionedConstruct extends constructs_1.Construct {
 }
 exports.DynamoDbPartitionedConstruct = DynamoDbPartitionedConstruct;
 class DynamoDbNonPartitionedConstruct extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.dynamodb.DynamoDbNonPartitionedConstruct", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.dynamodb.DynamoDbNonPartitionedConstruct", version: "0.0.101" };
     table;
     constructor(scope, id, props) {
         super(scope, id);

package/ecs/index.js

@@ -55,7 +55,7 @@ exports.LAMBDA_ARCHITECTURE_MAP = {
     ['ARM64']: lambda.Architecture.ARM_64
 };
 class EcsFargateTaskConstruct extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.ecs.EcsFargateTaskConstruct", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.ecs.EcsFargateTaskConstruct", version: "0.0.101" };
     cluster;
     taskDefinition;
     taskExecutionRole;

package/eventbridge-rules/sfn-slack-notification.js

@@ -17,7 +17,7 @@ var SfnEventStatus;
     SfnEventStatus["ABORTED"] = "ABORTED";
 })(SfnEventStatus || (exports.SfnEventStatus = SfnEventStatus = {}));
 class SfnSlackNotification extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.eventbridgeRule.SfnSlackNotification", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.eventbridgeRule.SfnSlackNotification", version: "0.0.101" };
     rule;
     constructor(scope, id, props) {
         super(scope, id);

package/lambda/index.js

@@ -57,7 +57,7 @@ function getPythonUvDockerImage() {
     return aws_cdk_lib_1.DockerImage.fromBuild(path_1.default.join(__dirname, 'build_python'));
 }
 class PythonUvFunction extends aws_lambda_python_alpha_1.PythonFunction {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.lambda.PythonUvFunction", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.lambda.PythonUvFunction", version: "0.0.101" };
     // Class constructs, to be used for caching the layers
     // This means that if there are multiple lambdas throughout the stack
     // They will all use the same layer

package/lambda/layers/orcabus_api_tools/src/orcabus_api_tools/sequence/__init__.py

@@ -7,7 +7,8 @@ from typing import Dict, Optional
 from ..utils.requests_helpers import (
     get_request_response_results,
     get_request,
-    get_url
+    get_url,
+    post_request
 )
 from .globals import SEQUENCE_SUBDOMAIN_NAME
 from .models import Sequence, SequenceDetail, SampleSheet
@@ -39,6 +40,15 @@ def get_sequence_request_response_results(
     return get_request_response_results(get_sequence_url(endpoint), params=params)
 
 
+def sequence_post_request(
+        endpoint: str,
+        json_data: Optional[Dict] = None,
+) -> Dict:
+    return post_request(
+        get_sequence_url(endpoint),
+        json_data=json_data
+)
+
 
 from .sequence_helpers import (
     get_sequence_object_from_instrument_run_id,
@@ -47,7 +57,8 @@ from .sequence_helpers import (
     get_libraries_from_instrument_run_id,  # Deprecated
     get_sample_sheet_from_orcabus_id,
     get_library_ids_in_sequence,  # Deprecated
-    get_sample_sheet_from_instrument_run_id
+    get_sample_sheet_from_instrument_run_id,
+    add_samplesheet,
 )
 
 __all__ = [
@@ -58,6 +69,7 @@ __all__ = [
     "get_sample_sheet_from_instrument_run_id",
     "get_library_id_list_in_sequence",
     "get_library_id_list_from_instrument_run_id",
+    "add_samplesheet",
 ]
 
 

package/lambda/layers/orcabus_api_tools/src/orcabus_api_tools/sequence/sequence_helpers.py

@@ -1,14 +1,19 @@
 #!/usr/bin/env python3
-import warnings
+
+"""
+Interact with the SRM service
+"""
+
 # Standard imports
-from typing import Optional, cast, List
+from pathlib import Path
+import warnings
+from typing import Optional, cast, List, Dict
 import logging
 
-
 # Local imports
-from . import get_sequence_request
+from . import get_sequence_request, sequence_post_request
 from .globals import SEQUENCE_RUN_ENDPOINT, SEQUENCE_ENDPOINT
-from .models import SequenceDetail, SampleSheet, Sequence
+from .models import SampleSheet, Sequence
 
 
 def get_sample_sheet_from_instrument_run_id(instrument_run_id: str) -> Optional[SampleSheet]:
@@ -121,3 +126,30 @@ def get_sample_sheet_from_orcabus_id(sequence_orcabus_id: str) -> SampleSheet:
     )
 
 
+def add_samplesheet(
+        instrument_run_id: str,
+        samplesheet_path: Path,
+        created_by: str,
+        comment: str
+) -> Dict:
+    """
+    Add a sample sheet to the sequence run.
+    :param instrument_run_id: The instrument run identifier for which the sample sheet is being added.
+    :param samplesheet: Path to the sample sheet file to be uploaded.
+    :param created_by: The user who is adding the sample sheet.
+    :param comment: A comment describing the sample sheet or the reason for adding it.
+    :return: Response from the API containing the updated sequence information.
+    """
+    # Open the sample sheet file
+    with open(samplesheet, 'r') as ss_file:
+        ss_content = ss_file.read()
+
+    return sequence_post_request(
+        endpoint=f"{SEQUENCE_RUN_ENDPOINT}/action/add_samplesheet/",
+        json_data={
+            "file": ss_content,
+            "instrument_run_id": instrument_run_id,
+            "created_by": created_by,
+            "comment": comment
+        }
+    )

package/monitored-queue/index.js

@@ -13,7 +13,7 @@ const aws_cloudwatch_actions_1 = require("aws-cdk-lib/aws-cloudwatch-actions");
  * SNS topic.
  */
 class MonitoredQueue extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.monitoredQueue.MonitoredQueue", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.monitoredQueue.MonitoredQueue", version: "0.0.101" };
     queue;
     deadLetterQueue;
     alarm;

package/named-lambda-role/index.js

@@ -7,7 +7,7 @@ const aws_iam_1 = require("aws-cdk-lib/aws-iam");
  * A construct which represents a named role that a Lambda function can assume.
  */
 class NamedLambdaRole extends aws_iam_1.Role {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.namedLambdaRole.NamedLambdaRole", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.namedLambdaRole.NamedLambdaRole", version: "0.0.101" };
     constructor(scope, id, props) {
         super(scope, id, {
             assumedBy: new aws_iam_1.ServicePrincipal("lambda.amazonaws.com"),

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@orcabus/platform-cdk-constructs",
-  "version": "0.0.99",
+  "version": "0.0.101",
   "description": "CDK Package for OrcaBus infrastructure.",
   "main": "index.ts",
   "types": "index.d.ts",

package/provider-function/index.js

@@ -15,7 +15,7 @@ const aws_cdk_lib_1 = require("aws-cdk-lib");
  * to the provider framework.
  */
 class ProviderFunction extends constructs_1.Construct {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.provider.ProviderFunction", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.provider.ProviderFunction", version: "0.0.101" };
     _function;
     _response;
     constructor(scope, id, props) {

package/shared-config/networking.js

@@ -23,7 +23,7 @@ exports.VPC_LOOKUP_PROPS = {
  * Helper for looking up the shared OrcaBus VPC.
  */
 class OrcaBusVpc {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.sharedConfig.networking.OrcaBusVpc", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.sharedConfig.networking.OrcaBusVpc", version: "0.0.101" };
     /**
      * The shared VPC that is used by OrcaBus.
      * @param scope
@@ -42,7 +42,7 @@ exports.SHARED_SECURITY_GROUP_NAME = "OrcaBusSharedComputeSecurityGroup";
  * Helper for looking up the shared compute security group by name.
  */
 class OrcaBusSharedComputeSecurityGroup {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.sharedConfig.networking.OrcaBusSharedComputeSecurityGroup", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.sharedConfig.networking.OrcaBusSharedComputeSecurityGroup", version: "0.0.101" };
     /**
      * The shared security group that is used by compute resources to access the database.
      * @param scope

package/shared-config/slack.js

@@ -11,7 +11,7 @@ exports.SLACK_ALERTS_SNS_TOPIC = "AwsChatBotTopic-alerts";
  * A helper class to construct the arn for the slack SNS topic.
  */
 class SlackAlerts {
-    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.sharedConfig.slack.SlackAlerts", version: "0.0.99" };
+    static [JSII_RTTI_SYMBOL_1] = { fqn: "@orcabus/platform-cdk-constructs.sharedConfig.slack.SlackAlerts", version: "0.0.101" };
     /**
      * Format the ARN for the slack alerts SNS topic for the current stack.
      * @param stack