aws-sdk-omics 1.17.0 → 1.19.0

checksums.yaml

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data/CHANGELOG.md

@@ -1,6 +1,16 @@
 Unreleased Changes
 ------------------
 
+1.19.0 (2023-11-09)
+------------------
+
+* Feature - Support UBAM filetype for Omics Storage and make referenceArn optional
+
+1.18.0 (2023-11-08)
+------------------
+
+* Feature - Adding Run UUID and Run Output URI: GetRun and StartRun API response has two new fields "uuid" and "runOutputUri".
+
 1.17.0 (2023-10-19)
 ------------------
 

data/VERSION

@@ -1 +1 @@
-1.17.0
+1.19.0

data/lib/aws-sdk-omics/client.rb

@@ -780,7 +780,7 @@ module Aws::Omics
     # @option params [String] :generated_from
     #   Where the source originated.
     #
-    # @option params [required, String] :reference_arn
+    # @option params [String] :reference_arn
     #   The ARN of the reference.
     #
     # @option params [required, String] :name
@@ -811,11 +811,11 @@ module Aws::Omics
     #   resp = client.create_multipart_read_set_upload({
     #     sequence_store_id: "SequenceStoreId", # required
     #     client_token: "ClientToken",
-    #     source_file_type: "FASTQ", # required, accepts FASTQ, BAM, CRAM
+    #     source_file_type: "FASTQ", # required, accepts FASTQ, BAM, CRAM, UBAM
     #     subject_id: "SubjectId", # required
     #     sample_id: "SampleId", # required
     #     generated_from: "GeneratedFrom",
-    #     reference_arn: "ReferenceArn", # required
+    #     reference_arn: "ReferenceArn",
     #     name: "ReadSetName", # required
     #     description: "ReadSetDescription",
     #     tags: {
@@ -827,7 +827,7 @@ module Aws::Omics
     #
     #   resp.sequence_store_id #=> String
     #   resp.upload_id #=> String
-    #   resp.source_file_type #=> String, one of "FASTQ", "BAM", "CRAM"
+    #   resp.source_file_type #=> String, one of "FASTQ", "BAM", "CRAM", "UBAM"
     #   resp.subject_id #=> String
     #   resp.sample_id #=> String
     #   resp.generated_from #=> String
@@ -1888,7 +1888,7 @@ module Aws::Omics
     #   resp.sources #=> Array
     #   resp.sources[0].source_files.source1 #=> String
     #   resp.sources[0].source_files.source2 #=> String
-    #   resp.sources[0].source_file_type #=> String, one of "FASTQ", "BAM", "CRAM"
+    #   resp.sources[0].source_file_type #=> String, one of "FASTQ", "BAM", "CRAM", "UBAM"
     #   resp.sources[0].status #=> String, one of "NOT_STARTED", "IN_PROGRESS", "FINISHED", "FAILED"
     #   resp.sources[0].status_message #=> String
     #   resp.sources[0].subject_id #=> String
@@ -1958,7 +1958,7 @@ module Aws::Omics
     #   resp.status #=> String, one of "ARCHIVED", "ACTIVATING", "ACTIVE", "DELETING", "DELETED", "PROCESSING_UPLOAD", "UPLOAD_FAILED"
     #   resp.name #=> String
     #   resp.description #=> String
-    #   resp.file_type #=> String, one of "FASTQ", "BAM", "CRAM"
+    #   resp.file_type #=> String, one of "FASTQ", "BAM", "CRAM", "UBAM"
     #   resp.creation_time #=> Time
     #   resp.sequence_information.total_read_count #=> Integer
     #   resp.sequence_information.total_base_count #=> Integer
@@ -2222,6 +2222,8 @@ module Aws::Omics
     #   * {Types::GetRunResponse#retention_mode #retention_mode} => String
     #   * {Types::GetRunResponse#failure_reason #failure_reason} => String
     #   * {Types::GetRunResponse#log_location #log_location} => Types::RunLogLocation
+    #   * {Types::GetRunResponse#uuid #uuid} => String
+    #   * {Types::GetRunResponse#run_output_uri #run_output_uri} => String
     #
     # @example Request syntax with placeholder values
     #
@@ -2261,6 +2263,8 @@ module Aws::Omics
     #   resp.failure_reason #=> String
     #   resp.log_location.engine_log_stream #=> String
     #   resp.log_location.run_log_stream #=> String
+    #   resp.uuid #=> String
+    #   resp.run_output_uri #=> String
     #
     #
     # The following waiters are defined for this operation (see {Client#wait_until} for detailed usage):
@@ -2865,7 +2869,7 @@ module Aws::Omics
     #   resp.uploads #=> Array
     #   resp.uploads[0].sequence_store_id #=> String
     #   resp.uploads[0].upload_id #=> String
-    #   resp.uploads[0].source_file_type #=> String, one of "FASTQ", "BAM", "CRAM"
+    #   resp.uploads[0].source_file_type #=> String, one of "FASTQ", "BAM", "CRAM", "UBAM"
     #   resp.uploads[0].subject_id #=> String
     #   resp.uploads[0].sample_id #=> String
     #   resp.uploads[0].generated_from #=> String
@@ -3146,7 +3150,7 @@ module Aws::Omics
     #     filter: {
     #       name: "ReadSetName",
     #       status: "ARCHIVED", # accepts ARCHIVED, ACTIVATING, ACTIVE, DELETING, DELETED, PROCESSING_UPLOAD, UPLOAD_FAILED
-    #       reference_arn: "ReferenceArn",
+    #       reference_arn: "ReferenceArnFilter",
     #       created_after: Time.now,
     #       created_before: Time.now,
     #       sample_id: "SampleId",
@@ -3169,7 +3173,7 @@ module Aws::Omics
     #   resp.read_sets[0].name #=> String
     #   resp.read_sets[0].description #=> String
     #   resp.read_sets[0].reference_arn #=> String
-    #   resp.read_sets[0].file_type #=> String, one of "FASTQ", "BAM", "CRAM"
+    #   resp.read_sets[0].file_type #=> String, one of "FASTQ", "BAM", "CRAM", "UBAM"
     #   resp.read_sets[0].sequence_information.total_read_count #=> Integer
     #   resp.read_sets[0].sequence_information.total_base_count #=> Integer
     #   resp.read_sets[0].sequence_information.generated_from #=> String
@@ -4046,11 +4050,11 @@ module Aws::Omics
     #           source1: "S3Uri", # required
     #           source2: "S3Uri",
     #         },
-    #         source_file_type: "FASTQ", # required, accepts FASTQ, BAM, CRAM
+    #         source_file_type: "FASTQ", # required, accepts FASTQ, BAM, CRAM, UBAM
     #         subject_id: "SubjectId", # required
     #         sample_id: "SampleId", # required
     #         generated_from: "GeneratedFrom",
-    #         reference_arn: "ReferenceArn", # required
+    #         reference_arn: "ReferenceArn",
     #         name: "ReadSetName",
     #         description: "ReadSetDescription",
     #         tags: {
@@ -4200,6 +4204,8 @@ module Aws::Omics
     #   * {Types::StartRunResponse#id #id} => String
     #   * {Types::StartRunResponse#status #status} => String
     #   * {Types::StartRunResponse#tags #tags} => Hash<String,String>
+    #   * {Types::StartRunResponse#uuid #uuid} => String
+    #   * {Types::StartRunResponse#run_output_uri #run_output_uri} => String
     #
     # @example Request syntax with placeholder values
     #
@@ -4230,6 +4236,8 @@ module Aws::Omics
     #   resp.status #=> String, one of "PENDING", "STARTING", "RUNNING", "STOPPING", "COMPLETED", "DELETED", "CANCELLED", "FAILED"
     #   resp.tags #=> Hash
     #   resp.tags["TagKey"] #=> String
+    #   resp.uuid #=> String
+    #   resp.run_output_uri #=> String
     #
     # @see http://docs.aws.amazon.com/goto/WebAPI/omics-2022-11-28/StartRun AWS API Documentation
     #
@@ -4622,7 +4630,7 @@ module Aws::Omics
         params: params,
         config: config)
       context[:gem_name] = 'aws-sdk-omics'
-      context[:gem_version] = '1.17.0'
+      context[:gem_version] = '1.19.0'
       Seahorse::Client::Request.new(handlers, context)
     end
 

data/lib/aws-sdk-omics/client_api.rb

@@ -313,6 +313,7 @@ module Aws::Omics
     ReadSetUploadPartListItemPartNumberInteger = Shapes::IntegerShape.new(name: 'ReadSetUploadPartListItemPartNumberInteger')
     ReadSetUploadPartListItemPartSizeLong = Shapes::IntegerShape.new(name: 'ReadSetUploadPartListItemPartSizeLong')
     ReferenceArn = Shapes::StringShape.new(name: 'ReferenceArn')
+    ReferenceArnFilter = Shapes::StringShape.new(name: 'ReferenceArnFilter')
     ReferenceDescription = Shapes::StringShape.new(name: 'ReferenceDescription')
     ReferenceFile = Shapes::StringShape.new(name: 'ReferenceFile')
     ReferenceFiles = Shapes::StructureShape.new(name: 'ReferenceFiles')
@@ -378,6 +379,7 @@ module Aws::Omics
     RunStatus = Shapes::StringShape.new(name: 'RunStatus')
     RunStatusMessage = Shapes::StringShape.new(name: 'RunStatusMessage')
     RunTimestamp = Shapes::TimestampShape.new(name: 'RunTimestamp', timestampFormat: "iso8601")
+    RunUuid = Shapes::StringShape.new(name: 'RunUuid')
     S3Destination = Shapes::StringShape.new(name: 'S3Destination')
     S3Uri = Shapes::StringShape.new(name: 'S3Uri')
     SampleId = Shapes::StringShape.new(name: 'SampleId')
@@ -699,7 +701,7 @@ module Aws::Omics
     CreateMultipartReadSetUploadRequest.add_member(:subject_id, Shapes::ShapeRef.new(shape: SubjectId, required: true, location_name: "subjectId"))
     CreateMultipartReadSetUploadRequest.add_member(:sample_id, Shapes::ShapeRef.new(shape: SampleId, required: true, location_name: "sampleId"))
     CreateMultipartReadSetUploadRequest.add_member(:generated_from, Shapes::ShapeRef.new(shape: GeneratedFrom, location_name: "generatedFrom"))
-    CreateMultipartReadSetUploadRequest.add_member(:reference_arn, Shapes::ShapeRef.new(shape: ReferenceArn, required: true, location_name: "referenceArn"))
+    CreateMultipartReadSetUploadRequest.add_member(:reference_arn, Shapes::ShapeRef.new(shape: ReferenceArn, location_name: "referenceArn"))
     CreateMultipartReadSetUploadRequest.add_member(:name, Shapes::ShapeRef.new(shape: ReadSetName, required: true, location_name: "name"))
     CreateMultipartReadSetUploadRequest.add_member(:description, Shapes::ShapeRef.new(shape: ReadSetDescription, location_name: "description"))
     CreateMultipartReadSetUploadRequest.add_member(:tags, Shapes::ShapeRef.new(shape: TagMap, location_name: "tags"))
@@ -1139,6 +1141,8 @@ module Aws::Omics
     GetRunResponse.add_member(:retention_mode, Shapes::ShapeRef.new(shape: RunRetentionMode, location_name: "retentionMode"))
     GetRunResponse.add_member(:failure_reason, Shapes::ShapeRef.new(shape: RunFailureReason, location_name: "failureReason"))
     GetRunResponse.add_member(:log_location, Shapes::ShapeRef.new(shape: RunLogLocation, location_name: "logLocation"))
+    GetRunResponse.add_member(:uuid, Shapes::ShapeRef.new(shape: RunUuid, location_name: "uuid"))
+    GetRunResponse.add_member(:run_output_uri, Shapes::ShapeRef.new(shape: RunOutputUri, location_name: "runOutputUri"))
     GetRunResponse.struct_class = Types::GetRunResponse
 
     GetRunTaskRequest.add_member(:id, Shapes::ShapeRef.new(shape: RunId, required: true, location: "uri", location_name: "id"))
@@ -1569,7 +1573,7 @@ module Aws::Omics
 
     ReadSetFilter.add_member(:name, Shapes::ShapeRef.new(shape: ReadSetName, location_name: "name"))
     ReadSetFilter.add_member(:status, Shapes::ShapeRef.new(shape: ReadSetStatus, location_name: "status"))
-    ReadSetFilter.add_member(:reference_arn, Shapes::ShapeRef.new(shape: ReferenceArn, location_name: "referenceArn"))
+    ReadSetFilter.add_member(:reference_arn, Shapes::ShapeRef.new(shape: ReferenceArnFilter, location_name: "referenceArn"))
     ReadSetFilter.add_member(:created_after, Shapes::ShapeRef.new(shape: SyntheticTimestamp_date_time, location_name: "createdAfter"))
     ReadSetFilter.add_member(:created_before, Shapes::ShapeRef.new(shape: SyntheticTimestamp_date_time, location_name: "createdBefore"))
     ReadSetFilter.add_member(:sample_id, Shapes::ShapeRef.new(shape: SampleId, location_name: "sampleId"))
@@ -1811,7 +1815,7 @@ module Aws::Omics
     StartReadSetImportJobSourceItem.add_member(:subject_id, Shapes::ShapeRef.new(shape: SubjectId, required: true, location_name: "subjectId"))
     StartReadSetImportJobSourceItem.add_member(:sample_id, Shapes::ShapeRef.new(shape: SampleId, required: true, location_name: "sampleId"))
     StartReadSetImportJobSourceItem.add_member(:generated_from, Shapes::ShapeRef.new(shape: GeneratedFrom, location_name: "generatedFrom"))
-    StartReadSetImportJobSourceItem.add_member(:reference_arn, Shapes::ShapeRef.new(shape: ReferenceArn, required: true, location_name: "referenceArn"))
+    StartReadSetImportJobSourceItem.add_member(:reference_arn, Shapes::ShapeRef.new(shape: ReferenceArn, location_name: "referenceArn"))
     StartReadSetImportJobSourceItem.add_member(:name, Shapes::ShapeRef.new(shape: ReadSetName, location_name: "name"))
     StartReadSetImportJobSourceItem.add_member(:description, Shapes::ShapeRef.new(shape: ReadSetDescription, location_name: "description"))
     StartReadSetImportJobSourceItem.add_member(:tags, Shapes::ShapeRef.new(shape: TagMap, location_name: "tags"))
@@ -1858,6 +1862,8 @@ module Aws::Omics
     StartRunResponse.add_member(:id, Shapes::ShapeRef.new(shape: RunId, location_name: "id"))
     StartRunResponse.add_member(:status, Shapes::ShapeRef.new(shape: RunStatus, location_name: "status"))
     StartRunResponse.add_member(:tags, Shapes::ShapeRef.new(shape: TagMap, location_name: "tags"))
+    StartRunResponse.add_member(:uuid, Shapes::ShapeRef.new(shape: RunUuid, location_name: "uuid"))
+    StartRunResponse.add_member(:run_output_uri, Shapes::ShapeRef.new(shape: RunOutputUri, location_name: "runOutputUri"))
     StartRunResponse.struct_class = Types::StartRunResponse
 
     StartVariantImportRequest.add_member(:destination_name, Shapes::ShapeRef.new(shape: StoreName, required: true, location_name: "destinationName"))

data/lib/aws-sdk-omics/types.rb

@@ -2675,6 +2675,14 @@ module Aws::Omics
     #   The location of the run log.
     #   @return [Types::RunLogLocation]
     #
+    # @!attribute [rw] uuid
+    #   The universally unique identifier for a run.
+    #   @return [String]
+    #
+    # @!attribute [rw] run_output_uri
+    #   The destination for workflow outputs.
+    #   @return [String]
+    #
     # @see http://docs.aws.amazon.com/goto/WebAPI/omics-2022-11-28/GetRunResponse AWS API Documentation
     #
     class GetRunResponse < Struct.new(
@@ -2704,7 +2712,9 @@ module Aws::Omics
       :accelerators,
       :retention_mode,
       :failure_reason,
-      :log_location)
+      :log_location,
+      :uuid,
+      :run_output_uri)
       SENSITIVE = []
       include Aws::Structure
     end
@@ -5825,13 +5835,23 @@ module Aws::Omics
     #   The run's tags.
     #   @return [Hash<String,String>]
     #
+    # @!attribute [rw] uuid
+    #   The universally unique identifier for a run.
+    #   @return [String]
+    #
+    # @!attribute [rw] run_output_uri
+    #   The destination for workflow outputs.
+    #   @return [String]
+    #
     # @see http://docs.aws.amazon.com/goto/WebAPI/omics-2022-11-28/StartRunResponse AWS API Documentation
     #
     class StartRunResponse < Struct.new(
       :arn,
       :id,
       :status,
-      :tags)
+      :tags,
+      :uuid,
+      :run_output_uri)
       SENSITIVE = []
       include Aws::Structure
     end

data/lib/aws-sdk-omics.rb

@@ -53,6 +53,6 @@ require_relative 'aws-sdk-omics/customizations'
 # @!group service
 module Aws::Omics
 
-  GEM_VERSION = '1.17.0'
+  GEM_VERSION = '1.19.0'
 
 end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: aws-sdk-omics
 version: !ruby/object:Gem::Version
-  version: 1.17.0
+  version: 1.19.0
 platform: ruby
 authors:
 - Amazon Web Services
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2023-10-19 00:00:00.000000000 Z
+date: 2023-11-09 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: aws-sdk-core