google-api-ruby-client/generated/google/apis/genomics_v1/classes.rb

# Copyright 2015 Google Inc.
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#      http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

require 'date'
require 'google/apis/core/base_service'
require 'google/apis/core/json_representation'
require 'google/apis/core/hashable'
require 'google/apis/errors'

module Google
  module Apis
    module GenomicsV1
      
      # An annotation describes a region of reference genome. The value of an
      # annotation may be one of several canonical types, supplemented by arbitrary
      # info tags. An annotation is not inherently associated with a specific
      # sample or individual (though a client could choose to use annotations in
      # this way). Example canonical annotation types are `GENE` and
      # `VARIANT`.
      class Annotation
        include Google::Apis::Core::Hashable
      
        # The annotation set to which this annotation belongs.
        # Corresponds to the JSON property `annotationSetId`
        # @return [String]
        attr_accessor :annotation_set_id
      
        # The end position of the range on the reference, 0-based exclusive.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The server-generated annotation ID, unique across all annotations.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional read alignment information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # The display name of this annotation.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The ID of the Google Genomics reference associated with this range.
        # Corresponds to the JSON property `referenceId`
        # @return [String]
        attr_accessor :reference_id
      
        # The display name corresponding to the reference specified by
        # `referenceId`, for example `chr1`, `1`, or `chrX`.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # Whether this range refers to the reverse strand, as opposed to the forward
        # strand. Note that regardless of this field, the start/end position of the
        # range always refer to the forward strand.
        # Corresponds to the JSON property `reverseStrand`
        # @return [Boolean]
        attr_accessor :reverse_strand
        alias_method :reverse_strand?, :reverse_strand
      
        # The start position of the range on the reference, 0-based inclusive.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        # A transcript represents the assertion that a particular region of the
        # reference genome may be transcribed as RNA.
        # Corresponds to the JSON property `transcript`
        # @return [Google::Apis::GenomicsV1::Transcript]
        attr_accessor :transcript
      
        # The data type for this annotation. Must match the containing annotation
        # set's type.
        # Corresponds to the JSON property `type`
        # @return [String]
        attr_accessor :type
      
        # A variant annotation, which describes the effect of a variant on the
        # genome, the coding sequence, and/or higher level consequences at the
        # organism level e.g. pathogenicity. This field is only set for annotations
        # of type `VARIANT`.
        # Corresponds to the JSON property `variant`
        # @return [Google::Apis::GenomicsV1::VariantAnnotation]
        attr_accessor :variant
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @annotation_set_id = args[:annotation_set_id] if args.key?(:annotation_set_id)
          @end = args[:end] if args.key?(:end)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @name = args[:name] if args.key?(:name)
          @reference_id = args[:reference_id] if args.key?(:reference_id)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @reverse_strand = args[:reverse_strand] if args.key?(:reverse_strand)
          @start = args[:start] if args.key?(:start)
          @transcript = args[:transcript] if args.key?(:transcript)
          @type = args[:type] if args.key?(:type)
          @variant = args[:variant] if args.key?(:variant)
        end
      end
      
      # An annotation set is a logical grouping of annotations that share consistent
      # type information and provenance. Examples of annotation sets include 'all
      # genes from refseq', and 'all variant annotations from ClinVar'.
      class AnnotationSet
        include Google::Apis::Core::Hashable
      
        # The dataset to which this annotation set belongs.
        # Corresponds to the JSON property `datasetId`
        # @return [String]
        attr_accessor :dataset_id
      
        # The server-generated annotation set ID, unique across all annotation sets.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional read alignment information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # The display name for this annotation set.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The ID of the reference set that defines the coordinate space for this
        # set's annotations.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        # The source URI describing the file from which this annotation set was
        # generated, if any.
        # Corresponds to the JSON property `sourceUri`
        # @return [String]
        attr_accessor :source_uri
      
        # The type of annotations contained within this set.
        # Corresponds to the JSON property `type`
        # @return [String]
        attr_accessor :type
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_id = args[:dataset_id] if args.key?(:dataset_id)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @name = args[:name] if args.key?(:name)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
          @source_uri = args[:source_uri] if args.key?(:source_uri)
          @type = args[:type] if args.key?(:type)
        end
      end
      
      # 
      class BatchCreateAnnotationsRequest
        include Google::Apis::Core::Hashable
      
        # The annotations to be created. At most 4096 can be specified in a single
        # request.
        # Corresponds to the JSON property `annotations`
        # @return [Array<Google::Apis::GenomicsV1::Annotation>]
        attr_accessor :annotations
      
        # A unique request ID which enables the server to detect duplicated requests.
        # If provided, duplicated requests will result in the same response; if not
        # provided, duplicated requests may result in duplicated data. For a given
        # annotation set, callers should not reuse `request_id`s when writing
        # different batches of annotations - behavior in this case is undefined.
        # A common approach is to use a UUID. For batch jobs where worker crashes are
        # a possibility, consider using some unique variant of a worker or run ID.
        # Corresponds to the JSON property `requestId`
        # @return [String]
        attr_accessor :request_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @annotations = args[:annotations] if args.key?(:annotations)
          @request_id = args[:request_id] if args.key?(:request_id)
        end
      end
      
      # 
      class BatchCreateAnnotationsResponse
        include Google::Apis::Core::Hashable
      
        # The resulting per-annotation entries, ordered consistently with the
        # original request.
        # Corresponds to the JSON property `entries`
        # @return [Array<Google::Apis::GenomicsV1::Entry>]
        attr_accessor :entries
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @entries = args[:entries] if args.key?(:entries)
        end
      end
      
      # Associates `members` with a `role`.
      class Binding
        include Google::Apis::Core::Hashable
      
        # Specifies the identities requesting access for a Cloud Platform resource.
        # `members` can have the following values:
        # * `allUsers`: A special identifier that represents anyone who is
        # on the internet; with or without a Google account.
        # * `allAuthenticatedUsers`: A special identifier that represents anyone
        # who is authenticated with a Google account or a service account.
        # * `user:`emailid``: An email address that represents a specific Google
        # account. For example, `alice@gmail.com` or `joe@example.com`.
        # * `serviceAccount:`emailid``: An email address that represents a service
        # account. For example, `my-other-app@appspot.gserviceaccount.com`.
        # * `group:`emailid``: An email address that represents a Google group.
        # For example, `admins@example.com`.
        # * `domain:`domain``: A Google Apps domain name that represents all the
        # users of that domain. For example, `google.com` or `example.com`.
        # Corresponds to the JSON property `members`
        # @return [Array<String>]
        attr_accessor :members
      
        # Role that is assigned to `members`.
        # For example, `roles/viewer`, `roles/editor`, or `roles/owner`.
        # Required
        # Corresponds to the JSON property `role`
        # @return [String]
        attr_accessor :role
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @members = args[:members] if args.key?(:members)
          @role = args[:role] if args.key?(:role)
        end
      end
      
      # A call set is a collection of variant calls, typically for one sample. It
      # belongs to a variant set.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      class CallSet
        include Google::Apis::Core::Hashable
      
        # The date this call set was created in milliseconds from the epoch.
        # Corresponds to the JSON property `created`
        # @return [Fixnum]
        attr_accessor :created
      
        # The server-generated call set ID, unique across all call sets.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional call set information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # The call set name.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The sample ID this call set corresponds to.
        # Corresponds to the JSON property `sampleId`
        # @return [String]
        attr_accessor :sample_id
      
        # The IDs of the variant sets this call set belongs to. This field must
        # have exactly length one, as a call set belongs to a single variant set.
        # This field is repeated for compatibility with the
        # [GA4GH 0.5.1
        # API](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/
        # variants.avdl#L76).
        # Corresponds to the JSON property `variantSetIds`
        # @return [Array<String>]
        attr_accessor :variant_set_ids
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @created = args[:created] if args.key?(:created)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @name = args[:name] if args.key?(:name)
          @sample_id = args[:sample_id] if args.key?(:sample_id)
          @variant_set_ids = args[:variant_set_ids] if args.key?(:variant_set_ids)
        end
      end
      
      # The request message for Operations.CancelOperation.
      class CancelOperationRequest
        include Google::Apis::Core::Hashable
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
        end
      end
      
      # A single CIGAR operation.
      class CigarUnit
        include Google::Apis::Core::Hashable
      
        # 
        # Corresponds to the JSON property `operation`
        # @return [String]
        attr_accessor :operation
      
        # The number of genomic bases that the operation runs for. Required.
        # Corresponds to the JSON property `operationLength`
        # @return [Fixnum]
        attr_accessor :operation_length
      
        # `referenceSequence` is only used at mismatches
        # (`SEQUENCE_MISMATCH`) and deletions (`DELETE`).
        # Filling this field replaces SAM's MD tag. If the relevant information is
        # not available, this field is unset.
        # Corresponds to the JSON property `referenceSequence`
        # @return [String]
        attr_accessor :reference_sequence
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @operation = args[:operation] if args.key?(:operation)
          @operation_length = args[:operation_length] if args.key?(:operation_length)
          @reference_sequence = args[:reference_sequence] if args.key?(:reference_sequence)
        end
      end
      
      # 
      class ClinicalCondition
        include Google::Apis::Core::Hashable
      
        # The MedGen concept id associated with this gene.
        # Search for these IDs at http://www.ncbi.nlm.nih.gov/medgen/
        # Corresponds to the JSON property `conceptId`
        # @return [String]
        attr_accessor :concept_id
      
        # The set of external IDs for this condition.
        # Corresponds to the JSON property `externalIds`
        # @return [Array<Google::Apis::GenomicsV1::ExternalId>]
        attr_accessor :external_ids
      
        # A set of names for the condition.
        # Corresponds to the JSON property `names`
        # @return [Array<String>]
        attr_accessor :names
      
        # The OMIM id for this condition.
        # Search for these IDs at http://omim.org/
        # Corresponds to the JSON property `omimId`
        # @return [String]
        attr_accessor :omim_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @concept_id = args[:concept_id] if args.key?(:concept_id)
          @external_ids = args[:external_ids] if args.key?(:external_ids)
          @names = args[:names] if args.key?(:names)
          @omim_id = args[:omim_id] if args.key?(:omim_id)
        end
      end
      
      # 
      class CodingSequence
        include Google::Apis::Core::Hashable
      
        # The end of the coding sequence on this annotation's reference sequence,
        # 0-based exclusive. Note that this position is relative to the reference
        # start, and *not* the containing annotation start.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The start of the coding sequence on this annotation's reference sequence,
        # 0-based inclusive. Note that this position is relative to the reference
        # start, and *not* the containing annotation start.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @end = args[:end] if args.key?(:end)
          @start = args[:start] if args.key?(:start)
        end
      end
      
      # Describes a Compute Engine resource that is being managed by a running
      # pipeline.
      class ComputeEngine
        include Google::Apis::Core::Hashable
      
        # The names of the disks that were created for this pipeline.
        # Corresponds to the JSON property `diskNames`
        # @return [Array<String>]
        attr_accessor :disk_names
      
        # The instance on which the operation is running.
        # Corresponds to the JSON property `instanceName`
        # @return [String]
        attr_accessor :instance_name
      
        # The machine type of the instance.
        # Corresponds to the JSON property `machineType`
        # @return [String]
        attr_accessor :machine_type
      
        # The availability zone in which the instance resides.
        # Corresponds to the JSON property `zone`
        # @return [String]
        attr_accessor :zone
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @disk_names = args[:disk_names] if args.key?(:disk_names)
          @instance_name = args[:instance_name] if args.key?(:instance_name)
          @machine_type = args[:machine_type] if args.key?(:machine_type)
          @zone = args[:zone] if args.key?(:zone)
        end
      end
      
      # A bucket over which read coverage has been precomputed. A bucket corresponds
      # to a specific range of the reference sequence.
      class CoverageBucket
        include Google::Apis::Core::Hashable
      
        # The average number of reads which are aligned to each individual
        # reference base in this bucket.
        # Corresponds to the JSON property `meanCoverage`
        # @return [Float]
        attr_accessor :mean_coverage
      
        # A 0-based half-open genomic coordinate range for search requests.
        # Corresponds to the JSON property `range`
        # @return [Google::Apis::GenomicsV1::Range]
        attr_accessor :range
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @mean_coverage = args[:mean_coverage] if args.key?(:mean_coverage)
          @range = args[:range] if args.key?(:range)
        end
      end
      
      # A Dataset is a collection of genomic data.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      class Dataset
        include Google::Apis::Core::Hashable
      
        # The time this dataset was created, in seconds from the epoch.
        # Corresponds to the JSON property `createTime`
        # @return [String]
        attr_accessor :create_time
      
        # The server-generated dataset ID, unique across all datasets.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # The dataset name.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The Google Cloud project ID that this dataset belongs to.
        # Corresponds to the JSON property `projectId`
        # @return [String]
        attr_accessor :project_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @create_time = args[:create_time] if args.key?(:create_time)
          @id = args[:id] if args.key?(:id)
          @name = args[:name] if args.key?(:name)
          @project_id = args[:project_id] if args.key?(:project_id)
        end
      end
      
      # A generic empty message that you can re-use to avoid defining duplicated
      # empty messages in your APIs. A typical example is to use it as the request
      # or the response type of an API method. For instance:
      # service Foo `
      # rpc Bar(google.protobuf.Empty) returns (google.protobuf.Empty);
      # `
      # The JSON representation for `Empty` is empty JSON object ````.
      class Empty
        include Google::Apis::Core::Hashable
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
        end
      end
      
      # 
      class Entry
        include Google::Apis::Core::Hashable
      
        # An annotation describes a region of reference genome. The value of an
        # annotation may be one of several canonical types, supplemented by arbitrary
        # info tags. An annotation is not inherently associated with a specific
        # sample or individual (though a client could choose to use annotations in
        # this way). Example canonical annotation types are `GENE` and
        # `VARIANT`.
        # Corresponds to the JSON property `annotation`
        # @return [Google::Apis::GenomicsV1::Annotation]
        attr_accessor :annotation
      
        # The `Status` type defines a logical error model that is suitable for different
        # programming environments, including REST APIs and RPC APIs. It is used by
        # [gRPC](https://github.com/grpc). The error model is designed to be:
        # - Simple to use and understand for most users
        # - Flexible enough to meet unexpected needs
        # # Overview
        # The `Status` message contains three pieces of data: error code, error message,
        # and error details. The error code should be an enum value of
        # google.rpc.Code, but it may accept additional error codes if needed.  The
        # error message should be a developer-facing English message that helps
        # developers *understand* and *resolve* the error. If a localized user-facing
        # error message is needed, put the localized message in the error details or
        # localize it in the client. The optional error details may contain arbitrary
        # information about the error. There is a predefined set of error detail types
        # in the package `google.rpc` that can be used for common error conditions.
        # # Language mapping
        # The `Status` message is the logical representation of the error model, but it
        # is not necessarily the actual wire format. When the `Status` message is
        # exposed in different client libraries and different wire protocols, it can be
        # mapped differently. For example, it will likely be mapped to some exceptions
        # in Java, but more likely mapped to some error codes in C.
        # # Other uses
        # The error model and the `Status` message can be used in a variety of
        # environments, either with or without APIs, to provide a
        # consistent developer experience across different environments.
        # Example uses of this error model include:
        # - Partial errors. If a service needs to return partial errors to the client,
        # it may embed the `Status` in the normal response to indicate the partial
        # errors.
        # - Workflow errors. A typical workflow has multiple steps. Each step may
        # have a `Status` message for error reporting.
        # - Batch operations. If a client uses batch request and batch response, the
        # `Status` message should be used directly inside batch response, one for
        # each error sub-response.
        # - Asynchronous operations. If an API call embeds asynchronous operation
        # results in its response, the status of those operations should be
        # represented directly using the `Status` message.
        # - Logging. If some API errors are stored in logs, the message `Status` could
        # be used directly after any stripping needed for security/privacy reasons.
        # Corresponds to the JSON property `status`
        # @return [Google::Apis::GenomicsV1::Status]
        attr_accessor :status
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @annotation = args[:annotation] if args.key?(:annotation)
          @status = args[:status] if args.key?(:status)
        end
      end
      
      # 
      class Exon
        include Google::Apis::Core::Hashable
      
        # The end position of the exon on this annotation's reference sequence,
        # 0-based exclusive. Note that this is relative to the reference start, and
        # *not* the containing annotation start.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The frame of this exon. Contains a value of 0, 1, or 2, which indicates
        # the offset of the first coding base of the exon within the reading frame
        # of the coding DNA sequence, if any. This field is dependent on the
        # strandedness of this annotation (see
        # Annotation.reverse_strand).
        # For forward stranded annotations, this offset is relative to the
        # exon.start. For reverse
        # strand annotations, this offset is relative to the
        # exon.end `- 1`.
        # Unset if this exon does not intersect the coding sequence. Upon creation
        # of a transcript, the frame must be populated for all or none of the
        # coding exons.
        # Corresponds to the JSON property `frame`
        # @return [Fixnum]
        attr_accessor :frame
      
        # The start position of the exon on this annotation's reference sequence,
        # 0-based inclusive. Note that this is relative to the reference start, and
        # **not** the containing annotation start.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @end = args[:end] if args.key?(:end)
          @frame = args[:frame] if args.key?(:frame)
          @start = args[:start] if args.key?(:start)
        end
      end
      
      # 
      class Experiment
        include Google::Apis::Core::Hashable
      
        # The instrument model used as part of this experiment. This maps to
        # sequencing technology in the SAM spec.
        # Corresponds to the JSON property `instrumentModel`
        # @return [String]
        attr_accessor :instrument_model
      
        # A client-supplied library identifier; a library is a collection of DNA
        # fragments which have been prepared for sequencing from a sample. This
        # field is important for quality control as error or bias can be introduced
        # during sample preparation.
        # Corresponds to the JSON property `libraryId`
        # @return [String]
        attr_accessor :library_id
      
        # The platform unit used as part of this experiment, for example
        # flowcell-barcode.lane for Illumina or slide for SOLiD. Corresponds to the
        # @RG PU field in the SAM spec.
        # Corresponds to the JSON property `platformUnit`
        # @return [String]
        attr_accessor :platform_unit
      
        # The sequencing center used as part of this experiment.
        # Corresponds to the JSON property `sequencingCenter`
        # @return [String]
        attr_accessor :sequencing_center
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @instrument_model = args[:instrument_model] if args.key?(:instrument_model)
          @library_id = args[:library_id] if args.key?(:library_id)
          @platform_unit = args[:platform_unit] if args.key?(:platform_unit)
          @sequencing_center = args[:sequencing_center] if args.key?(:sequencing_center)
        end
      end
      
      # The read group set export request.
      class ExportReadGroupSetRequest
        include Google::Apis::Core::Hashable
      
        # Required. A Google Cloud Storage URI for the exported BAM file.
        # The currently authenticated user must have write access to the new file.
        # An error will be returned if the URI already contains data.
        # Corresponds to the JSON property `exportUri`
        # @return [String]
        attr_accessor :export_uri
      
        # Required. The Google Cloud project ID that owns this
        # export. The caller must have WRITE access to this project.
        # Corresponds to the JSON property `projectId`
        # @return [String]
        attr_accessor :project_id
      
        # The reference names to export. If this is not specified, all reference
        # sequences, including unmapped reads, are exported.
        # Use `*` to export only unmapped reads.
        # Corresponds to the JSON property `referenceNames`
        # @return [Array<String>]
        attr_accessor :reference_names
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @export_uri = args[:export_uri] if args.key?(:export_uri)
          @project_id = args[:project_id] if args.key?(:project_id)
          @reference_names = args[:reference_names] if args.key?(:reference_names)
        end
      end
      
      # The variant data export request.
      class ExportVariantSetRequest
        include Google::Apis::Core::Hashable
      
        # Required. The BigQuery dataset to export data to. This dataset must already
        # exist. Note that this is distinct from the Genomics concept of "dataset".
        # Corresponds to the JSON property `bigqueryDataset`
        # @return [String]
        attr_accessor :bigquery_dataset
      
        # Required. The BigQuery table to export data to.
        # If the table doesn't exist, it will be created. If it already exists, it
        # will be overwritten.
        # Corresponds to the JSON property `bigqueryTable`
        # @return [String]
        attr_accessor :bigquery_table
      
        # If provided, only variant call information from the specified call sets
        # will be exported. By default all variant calls are exported.
        # Corresponds to the JSON property `callSetIds`
        # @return [Array<String>]
        attr_accessor :call_set_ids
      
        # The format for the exported data.
        # Corresponds to the JSON property `format`
        # @return [String]
        attr_accessor :format
      
        # Required. The Google Cloud project ID that owns the destination
        # BigQuery dataset. The caller must have WRITE access to this project.  This
        # project will also own the resulting export job.
        # Corresponds to the JSON property `projectId`
        # @return [String]
        attr_accessor :project_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @bigquery_dataset = args[:bigquery_dataset] if args.key?(:bigquery_dataset)
          @bigquery_table = args[:bigquery_table] if args.key?(:bigquery_table)
          @call_set_ids = args[:call_set_ids] if args.key?(:call_set_ids)
          @format = args[:format] if args.key?(:format)
          @project_id = args[:project_id] if args.key?(:project_id)
        end
      end
      
      # 
      class ExternalId
        include Google::Apis::Core::Hashable
      
        # The id used by the source of this data.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # The name of the source of this data.
        # Corresponds to the JSON property `sourceName`
        # @return [String]
        attr_accessor :source_name
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @id = args[:id] if args.key?(:id)
          @source_name = args[:source_name] if args.key?(:source_name)
        end
      end
      
      # Request message for `GetIamPolicy` method.
      class GetIamPolicyRequest
        include Google::Apis::Core::Hashable
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
        end
      end
      
      # The read group set import request.
      class ImportReadGroupSetsRequest
        include Google::Apis::Core::Hashable
      
        # Required. The ID of the dataset these read group sets will belong to. The
        # caller must have WRITE permissions to this dataset.
        # Corresponds to the JSON property `datasetId`
        # @return [String]
        attr_accessor :dataset_id
      
        # The partition strategy describes how read groups are partitioned into read
        # group sets.
        # Corresponds to the JSON property `partitionStrategy`
        # @return [String]
        attr_accessor :partition_strategy
      
        # The reference set to which the imported read group sets are aligned to, if
        # any. The reference names of this reference set must be a superset of those
        # found in the imported file headers. If no reference set id is provided, a
        # best effort is made to associate with a matching reference set.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        # A list of URIs pointing at [BAM
        # files](https://samtools.github.io/hts-specs/SAMv1.pdf)
        # in Google Cloud Storage.
        # Those URIs can include wildcards (*), but do not add or remove
        # matching files before import has completed.
        # Note that Google Cloud Storage object listing is only eventually
        # consistent: files added may be not be immediately visible to
        # everyone. Thus, if using a wildcard it is preferable not to start
        # the import immediately after the files are created.
        # Corresponds to the JSON property `sourceUris`
        # @return [Array<String>]
        attr_accessor :source_uris
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_id = args[:dataset_id] if args.key?(:dataset_id)
          @partition_strategy = args[:partition_strategy] if args.key?(:partition_strategy)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
          @source_uris = args[:source_uris] if args.key?(:source_uris)
        end
      end
      
      # The read group set import response.
      class ImportReadGroupSetsResponse
        include Google::Apis::Core::Hashable
      
        # IDs of the read group sets that were created.
        # Corresponds to the JSON property `readGroupSetIds`
        # @return [Array<String>]
        attr_accessor :read_group_set_ids
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @read_group_set_ids = args[:read_group_set_ids] if args.key?(:read_group_set_ids)
        end
      end
      
      # The variant data import request.
      class ImportVariantsRequest
        include Google::Apis::Core::Hashable
      
        # The format of the variant data being imported. If unspecified, defaults to
        # to `VCF`.
        # Corresponds to the JSON property `format`
        # @return [String]
        attr_accessor :format
      
        # A mapping between info field keys and the InfoMergeOperations to
        # be performed on them. This is plumbed down to the MergeVariantRequests
        # generated by the resulting import job.
        # Corresponds to the JSON property `infoMergeConfig`
        # @return [Hash<String,String>]
        attr_accessor :info_merge_config
      
        # Convert reference names to the canonical representation.
        # hg19 haploytypes (those reference names containing "_hap")
        # are not modified in any way.
        # All other reference names are modified according to the following rules:
        # The reference name is capitalized.
        # The "chr" prefix is dropped for all autosomes and sex chromsomes.
        # For example "chr17" becomes "17" and "chrX" becomes "X".
        # All mitochondrial chromosomes ("chrM", "chrMT", etc) become "MT".
        # Corresponds to the JSON property `normalizeReferenceNames`
        # @return [Boolean]
        attr_accessor :normalize_reference_names
        alias_method :normalize_reference_names?, :normalize_reference_names
      
        # A list of URIs referencing variant files in Google Cloud Storage. URIs can
        # include wildcards [as described
        # here](https://cloud.google.com/storage/docs/gsutil/addlhelp/WildcardNames).
        # Note that recursive wildcards ('**') are not supported.
        # Corresponds to the JSON property `sourceUris`
        # @return [Array<String>]
        attr_accessor :source_uris
      
        # Required. The variant set to which variant data should be imported.
        # Corresponds to the JSON property `variantSetId`
        # @return [String]
        attr_accessor :variant_set_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @format = args[:format] if args.key?(:format)
          @info_merge_config = args[:info_merge_config] if args.key?(:info_merge_config)
          @normalize_reference_names = args[:normalize_reference_names] if args.key?(:normalize_reference_names)
          @source_uris = args[:source_uris] if args.key?(:source_uris)
          @variant_set_id = args[:variant_set_id] if args.key?(:variant_set_id)
        end
      end
      
      # The variant data import response.
      class ImportVariantsResponse
        include Google::Apis::Core::Hashable
      
        # IDs of the call sets created during the import.
        # Corresponds to the JSON property `callSetIds`
        # @return [Array<String>]
        attr_accessor :call_set_ids
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @call_set_ids = args[:call_set_ids] if args.key?(:call_set_ids)
        end
      end
      
      # A linear alignment can be represented by one CIGAR string. Describes the
      # mapped position and local alignment of the read to the reference.
      class LinearAlignment
        include Google::Apis::Core::Hashable
      
        # Represents the local alignment of this sequence (alignment matches, indels,
        # etc) against the reference.
        # Corresponds to the JSON property `cigar`
        # @return [Array<Google::Apis::GenomicsV1::CigarUnit>]
        attr_accessor :cigar
      
        # The mapping quality of this alignment. Represents how likely
        # the read maps to this position as opposed to other locations.
        # Specifically, this is -10 log10 Pr(mapping position is wrong), rounded to
        # the nearest integer.
        # Corresponds to the JSON property `mappingQuality`
        # @return [Fixnum]
        attr_accessor :mapping_quality
      
        # An abstraction for referring to a genomic position, in relation to some
        # already known reference. For now, represents a genomic position as a
        # reference name, a base number on that reference (0-based), and a
        # determination of forward or reverse strand.
        # Corresponds to the JSON property `position`
        # @return [Google::Apis::GenomicsV1::Position]
        attr_accessor :position
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @cigar = args[:cigar] if args.key?(:cigar)
          @mapping_quality = args[:mapping_quality] if args.key?(:mapping_quality)
          @position = args[:position] if args.key?(:position)
        end
      end
      
      # 
      class ListBasesResponse
        include Google::Apis::Core::Hashable
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # The offset position (0-based) of the given `sequence` from the
        # start of this `Reference`. This value will differ for each page
        # in a paginated request.
        # Corresponds to the JSON property `offset`
        # @return [Fixnum]
        attr_accessor :offset
      
        # A substring of the bases that make up this reference.
        # Corresponds to the JSON property `sequence`
        # @return [String]
        attr_accessor :sequence
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @offset = args[:offset] if args.key?(:offset)
          @sequence = args[:sequence] if args.key?(:sequence)
        end
      end
      
      # 
      class ListCoverageBucketsResponse
        include Google::Apis::Core::Hashable
      
        # The length of each coverage bucket in base pairs. Note that buckets at the
        # end of a reference sequence may be shorter. This value is omitted if the
        # bucket width is infinity (the default behaviour, with no range or
        # `targetBucketWidth`).
        # Corresponds to the JSON property `bucketWidth`
        # @return [Fixnum]
        attr_accessor :bucket_width
      
        # The coverage buckets. The list of buckets is sparse; a bucket with 0
        # overlapping reads is not returned. A bucket never crosses more than one
        # reference sequence. Each bucket has width `bucketWidth`, unless
        # its end is the end of the reference sequence.
        # Corresponds to the JSON property `coverageBuckets`
        # @return [Array<Google::Apis::GenomicsV1::CoverageBucket>]
        attr_accessor :coverage_buckets
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @bucket_width = args[:bucket_width] if args.key?(:bucket_width)
          @coverage_buckets = args[:coverage_buckets] if args.key?(:coverage_buckets)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
        end
      end
      
      # The dataset list response.
      class ListDatasetsResponse
        include Google::Apis::Core::Hashable
      
        # The list of matching Datasets.
        # Corresponds to the JSON property `datasets`
        # @return [Array<Google::Apis::GenomicsV1::Dataset>]
        attr_accessor :datasets
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @datasets = args[:datasets] if args.key?(:datasets)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
        end
      end
      
      # The response message for Operations.ListOperations.
      class ListOperationsResponse
        include Google::Apis::Core::Hashable
      
        # The standard List next-page token.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # A list of operations that matches the specified filter in the request.
        # Corresponds to the JSON property `operations`
        # @return [Array<Google::Apis::GenomicsV1::Operation>]
        attr_accessor :operations
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @operations = args[:operations] if args.key?(:operations)
        end
      end
      
      # 
      class MergeVariantsRequest
        include Google::Apis::Core::Hashable
      
        # A mapping between info field keys and the InfoMergeOperations to
        # be performed on them.
        # Corresponds to the JSON property `infoMergeConfig`
        # @return [Hash<String,String>]
        attr_accessor :info_merge_config
      
        # The destination variant set.
        # Corresponds to the JSON property `variantSetId`
        # @return [String]
        attr_accessor :variant_set_id
      
        # The variants to be merged with existing variants.
        # Corresponds to the JSON property `variants`
        # @return [Array<Google::Apis::GenomicsV1::Variant>]
        attr_accessor :variants
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @info_merge_config = args[:info_merge_config] if args.key?(:info_merge_config)
          @variant_set_id = args[:variant_set_id] if args.key?(:variant_set_id)
          @variants = args[:variants] if args.key?(:variants)
        end
      end
      
      # This resource represents a long-running operation that is the result of a
      # network API call.
      class Operation
        include Google::Apis::Core::Hashable
      
        # If the value is `false`, it means the operation is still in progress.
        # If `true`, the operation is completed, and either `error` or `response` is
        # available.
        # Corresponds to the JSON property `done`
        # @return [Boolean]
        attr_accessor :done
        alias_method :done?, :done
      
        # The `Status` type defines a logical error model that is suitable for different
        # programming environments, including REST APIs and RPC APIs. It is used by
        # [gRPC](https://github.com/grpc). The error model is designed to be:
        # - Simple to use and understand for most users
        # - Flexible enough to meet unexpected needs
        # # Overview
        # The `Status` message contains three pieces of data: error code, error message,
        # and error details. The error code should be an enum value of
        # google.rpc.Code, but it may accept additional error codes if needed.  The
        # error message should be a developer-facing English message that helps
        # developers *understand* and *resolve* the error. If a localized user-facing
        # error message is needed, put the localized message in the error details or
        # localize it in the client. The optional error details may contain arbitrary
        # information about the error. There is a predefined set of error detail types
        # in the package `google.rpc` that can be used for common error conditions.
        # # Language mapping
        # The `Status` message is the logical representation of the error model, but it
        # is not necessarily the actual wire format. When the `Status` message is
        # exposed in different client libraries and different wire protocols, it can be
        # mapped differently. For example, it will likely be mapped to some exceptions
        # in Java, but more likely mapped to some error codes in C.
        # # Other uses
        # The error model and the `Status` message can be used in a variety of
        # environments, either with or without APIs, to provide a
        # consistent developer experience across different environments.
        # Example uses of this error model include:
        # - Partial errors. If a service needs to return partial errors to the client,
        # it may embed the `Status` in the normal response to indicate the partial
        # errors.
        # - Workflow errors. A typical workflow has multiple steps. Each step may
        # have a `Status` message for error reporting.
        # - Batch operations. If a client uses batch request and batch response, the
        # `Status` message should be used directly inside batch response, one for
        # each error sub-response.
        # - Asynchronous operations. If an API call embeds asynchronous operation
        # results in its response, the status of those operations should be
        # represented directly using the `Status` message.
        # - Logging. If some API errors are stored in logs, the message `Status` could
        # be used directly after any stripping needed for security/privacy reasons.
        # Corresponds to the JSON property `error`
        # @return [Google::Apis::GenomicsV1::Status]
        attr_accessor :error
      
        # An OperationMetadata object. This will always be returned with the Operation.
        # Corresponds to the JSON property `metadata`
        # @return [Hash<String,Object>]
        attr_accessor :metadata
      
        # The server-assigned name, which is only unique within the same service that
        # originally returns it. For example&#58; `operations/CJHU7Oi_ChDrveSpBRjfuL-
        # qzoWAgEw`
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # If importing ReadGroupSets, an ImportReadGroupSetsResponse is returned. If
        # importing Variants, an ImportVariantsResponse is returned. For pipelines and
        # exports, an empty response is returned.
        # Corresponds to the JSON property `response`
        # @return [Hash<String,Object>]
        attr_accessor :response
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @done = args[:done] if args.key?(:done)
          @error = args[:error] if args.key?(:error)
          @metadata = args[:metadata] if args.key?(:metadata)
          @name = args[:name] if args.key?(:name)
          @response = args[:response] if args.key?(:response)
        end
      end
      
      # An event that occurred during an Operation.
      class OperationEvent
        include Google::Apis::Core::Hashable
      
        # Required description of event.
        # Corresponds to the JSON property `description`
        # @return [String]
        attr_accessor :description
      
        # Optional time of when event finished. An event can have a start time and no
        # finish time. If an event has a finish time, there must be a start time.
        # Corresponds to the JSON property `endTime`
        # @return [String]
        attr_accessor :end_time
      
        # Optional time of when event started.
        # Corresponds to the JSON property `startTime`
        # @return [String]
        attr_accessor :start_time
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @description = args[:description] if args.key?(:description)
          @end_time = args[:end_time] if args.key?(:end_time)
          @start_time = args[:start_time] if args.key?(:start_time)
        end
      end
      
      # Metadata describing an Operation.
      class OperationMetadata
        include Google::Apis::Core::Hashable
      
        # This field is deprecated. Use `labels` instead. Optionally provided by the
        # caller when submitting the request that creates the operation.
        # Corresponds to the JSON property `clientId`
        # @return [String]
        attr_accessor :client_id
      
        # The time at which the job was submitted to the Genomics service.
        # Corresponds to the JSON property `createTime`
        # @return [String]
        attr_accessor :create_time
      
        # The time at which the job stopped running.
        # Corresponds to the JSON property `endTime`
        # @return [String]
        attr_accessor :end_time
      
        # Optional event messages that were generated during the job's execution.
        # This also contains any warnings that were generated during import
        # or export.
        # Corresponds to the JSON property `events`
        # @return [Array<Google::Apis::GenomicsV1::OperationEvent>]
        attr_accessor :events
      
        # Optionally provided by the caller when submitting the request that creates
        # the operation.
        # Corresponds to the JSON property `labels`
        # @return [Hash<String,String>]
        attr_accessor :labels
      
        # The Google Cloud Project in which the job is scoped.
        # Corresponds to the JSON property `projectId`
        # @return [String]
        attr_accessor :project_id
      
        # The original request that started the operation. Note that this will be in
        # current version of the API. If the operation was started with v1beta2 API
        # and a GetOperation is performed on v1 API, a v1 request will be returned.
        # Corresponds to the JSON property `request`
        # @return [Hash<String,Object>]
        attr_accessor :request
      
        # Runtime metadata on this Operation.
        # Corresponds to the JSON property `runtimeMetadata`
        # @return [Hash<String,Object>]
        attr_accessor :runtime_metadata
      
        # The time at which the job began to run.
        # Corresponds to the JSON property `startTime`
        # @return [String]
        attr_accessor :start_time
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @client_id = args[:client_id] if args.key?(:client_id)
          @create_time = args[:create_time] if args.key?(:create_time)
          @end_time = args[:end_time] if args.key?(:end_time)
          @events = args[:events] if args.key?(:events)
          @labels = args[:labels] if args.key?(:labels)
          @project_id = args[:project_id] if args.key?(:project_id)
          @request = args[:request] if args.key?(:request)
          @runtime_metadata = args[:runtime_metadata] if args.key?(:runtime_metadata)
          @start_time = args[:start_time] if args.key?(:start_time)
        end
      end
      
      # Defines an Identity and Access Management (IAM) policy. It is used to
      # specify access control policies for Cloud Platform resources.
      # A `Policy` consists of a list of `bindings`. A `Binding` binds a list of
      # `members` to a `role`, where the members can be user accounts, Google groups,
      # Google domains, and service accounts. A `role` is a named list of permissions
      # defined by IAM.
      # **Example**
      # `
      # "bindings": [
      # `
      # "role": "roles/owner",
      # "members": [
      # "user:mike@example.com",
      # "group:admins@example.com",
      # "domain:google.com",
      # "serviceAccount:my-other-app@appspot.gserviceaccount.com",
      # ]
      # `,
      # `
      # "role": "roles/viewer",
      # "members": ["user:sean@example.com"]
      # `
      # ]
      # `
      # For a description of IAM and its features, see the
      # [IAM developer's guide](https://cloud.google.com/iam).
      class Policy
        include Google::Apis::Core::Hashable
      
        # Associates a list of `members` to a `role`.
        # `bindings` with no members will result in an error.
        # Corresponds to the JSON property `bindings`
        # @return [Array<Google::Apis::GenomicsV1::Binding>]
        attr_accessor :bindings
      
        # `etag` is used for optimistic concurrency control as a way to help
        # prevent simultaneous updates of a policy from overwriting each other.
        # It is strongly suggested that systems make use of the `etag` in the
        # read-modify-write cycle to perform policy updates in order to avoid race
        # conditions: An `etag` is returned in the response to `getIamPolicy`, and
        # systems are expected to put that etag in the request to `setIamPolicy` to
        # ensure that their change will be applied to the same version of the policy.
        # If no `etag` is provided in the call to `setIamPolicy`, then the existing
        # policy is overwritten blindly.
        # Corresponds to the JSON property `etag`
        # NOTE: Values are automatically base64 encoded/decoded in the client library.
        # @return [String]
        attr_accessor :etag
      
        # Version of the `Policy`. The default version is 0.
        # Corresponds to the JSON property `version`
        # @return [Fixnum]
        attr_accessor :version
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @bindings = args[:bindings] if args.key?(:bindings)
          @etag = args[:etag] if args.key?(:etag)
          @version = args[:version] if args.key?(:version)
        end
      end
      
      # An abstraction for referring to a genomic position, in relation to some
      # already known reference. For now, represents a genomic position as a
      # reference name, a base number on that reference (0-based), and a
      # determination of forward or reverse strand.
      class Position
        include Google::Apis::Core::Hashable
      
        # The 0-based offset from the start of the forward strand for that reference.
        # Corresponds to the JSON property `position`
        # @return [Fixnum]
        attr_accessor :position
      
        # The name of the reference in whatever reference set is being used.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # Whether this position is on the reverse strand, as opposed to the forward
        # strand.
        # Corresponds to the JSON property `reverseStrand`
        # @return [Boolean]
        attr_accessor :reverse_strand
        alias_method :reverse_strand?, :reverse_strand
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @position = args[:position] if args.key?(:position)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @reverse_strand = args[:reverse_strand] if args.key?(:reverse_strand)
        end
      end
      
      # 
      class Program
        include Google::Apis::Core::Hashable
      
        # The command line used to run this program.
        # Corresponds to the JSON property `commandLine`
        # @return [String]
        attr_accessor :command_line
      
        # The user specified locally unique ID of the program. Used along with
        # `prevProgramId` to define an ordering between programs.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # The display name of the program. This is typically the colloquial name of
        # the tool used, for example 'bwa' or 'picard'.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The ID of the program run before this one.
        # Corresponds to the JSON property `prevProgramId`
        # @return [String]
        attr_accessor :prev_program_id
      
        # The version of the program run.
        # Corresponds to the JSON property `version`
        # @return [String]
        attr_accessor :version
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @command_line = args[:command_line] if args.key?(:command_line)
          @id = args[:id] if args.key?(:id)
          @name = args[:name] if args.key?(:name)
          @prev_program_id = args[:prev_program_id] if args.key?(:prev_program_id)
          @version = args[:version] if args.key?(:version)
        end
      end
      
      # A 0-based half-open genomic coordinate range for search requests.
      class Range
        include Google::Apis::Core::Hashable
      
        # The end position of the range on the reference, 0-based exclusive.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The reference sequence name, for example `chr1`,
        # `1`, or `chrX`.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # The start position of the range on the reference, 0-based inclusive.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @end = args[:end] if args.key?(:end)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @start = args[:start] if args.key?(:start)
        end
      end
      
      # A read alignment describes a linear alignment of a string of DNA to a
      # reference sequence, in addition to metadata
      # about the fragment (the molecule of DNA sequenced) and the read (the bases
      # which were read by the sequencer). A read is equivalent to a line in a SAM
      # file. A read belongs to exactly one read group and exactly one
      # read group set.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      # ### Reverse-stranded reads
      # Mapped reads (reads having a non-null `alignment`) can be aligned to either
      # the forward or the reverse strand of their associated reference. Strandedness
      # of a mapped read is encoded by `alignment.position.reverseStrand`.
      # If we consider the reference to be a forward-stranded coordinate space of
      # `[0, reference.length)` with `0` as the left-most position and
      # `reference.length` as the right-most position, reads are always aligned left
      # to right. That is, `alignment.position.position` always refers to the
      # left-most reference coordinate and `alignment.cigar` describes the alignment
      # of this read to the reference from left to right. All per-base fields such as
      # `alignedSequence` and `alignedQuality` share this same left-to-right
      # orientation; this is true of reads which are aligned to either strand. For
      # reverse-stranded reads, this means that `alignedSequence` is the reverse
      # complement of the bases that were originally reported by the sequencing
      # machine.
      # ### Generating a reference-aligned sequence string
      # When interacting with mapped reads, it's often useful to produce a string
      # representing the local alignment of the read to reference. The following
      # pseudocode demonstrates one way of doing this:
      # out = ""
      # offset = 0
      # for c in read.alignment.cigar `
      # switch c.operation `
      # case "ALIGNMENT_MATCH", "SEQUENCE_MATCH", "SEQUENCE_MISMATCH":
      # out += read.alignedSequence[offset:offset+c.operationLength]
      # offset += c.operationLength
      # break
      # case "CLIP_SOFT", "INSERT":
      # offset += c.operationLength
      # break
      # case "PAD":
      # out += repeat("*", c.operationLength)
      # break
      # case "DELETE":
      # out += repeat("-", c.operationLength)
      # break
      # case "SKIP":
      # out += repeat(" ", c.operationLength)
      # break
      # case "CLIP_HARD":
      # break
      # `
      # `
      # return out
      # ### Converting to SAM's CIGAR string
      # The following pseudocode generates a SAM CIGAR string from the
      # `cigar` field. Note that this is a lossy conversion
      # (`cigar.referenceSequence` is lost).
      # cigarMap = `
      # "ALIGNMENT_MATCH": "M",
      # "INSERT": "I",
      # "DELETE": "D",
      # "SKIP": "N",
      # "CLIP_SOFT": "S",
      # "CLIP_HARD": "H",
      # "PAD": "P",
      # "SEQUENCE_MATCH": "=",
      # "SEQUENCE_MISMATCH": "X",
      # `
      # cigarStr = ""
      # for c in read.alignment.cigar `
      # cigarStr += c.operationLength + cigarMap[c.operation]
      # `
      # return cigarStr
      class Read
        include Google::Apis::Core::Hashable
      
        # The quality of the read sequence contained in this alignment record
        # (equivalent to QUAL in SAM).
        # `alignedSequence` and `alignedQuality` may be shorter than the full read
        # sequence and quality. This will occur if the alignment is part of a
        # chimeric alignment, or if the read was trimmed. When this occurs, the CIGAR
        # for this read will begin/end with a hard clip operator that will indicate
        # the length of the excised sequence.
        # Corresponds to the JSON property `alignedQuality`
        # @return [Array<Fixnum>]
        attr_accessor :aligned_quality
      
        # The bases of the read sequence contained in this alignment record,
        # **without CIGAR operations applied** (equivalent to SEQ in SAM).
        # `alignedSequence` and `alignedQuality` may be
        # shorter than the full read sequence and quality. This will occur if the
        # alignment is part of a chimeric alignment, or if the read was trimmed. When
        # this occurs, the CIGAR for this read will begin/end with a hard clip
        # operator that will indicate the length of the excised sequence.
        # Corresponds to the JSON property `alignedSequence`
        # @return [String]
        attr_accessor :aligned_sequence
      
        # A linear alignment can be represented by one CIGAR string. Describes the
        # mapped position and local alignment of the read to the reference.
        # Corresponds to the JSON property `alignment`
        # @return [Google::Apis::GenomicsV1::LinearAlignment]
        attr_accessor :alignment
      
        # The fragment is a PCR or optical duplicate (SAM flag 0x400).
        # Corresponds to the JSON property `duplicateFragment`
        # @return [Boolean]
        attr_accessor :duplicate_fragment
        alias_method :duplicate_fragment?, :duplicate_fragment
      
        # Whether this read did not pass filters, such as platform or vendor quality
        # controls (SAM flag 0x200).
        # Corresponds to the JSON property `failedVendorQualityChecks`
        # @return [Boolean]
        attr_accessor :failed_vendor_quality_checks
        alias_method :failed_vendor_quality_checks?, :failed_vendor_quality_checks
      
        # The observed length of the fragment, equivalent to TLEN in SAM.
        # Corresponds to the JSON property `fragmentLength`
        # @return [Fixnum]
        attr_accessor :fragment_length
      
        # The fragment name. Equivalent to QNAME (query template name) in SAM.
        # Corresponds to the JSON property `fragmentName`
        # @return [String]
        attr_accessor :fragment_name
      
        # The server-generated read ID, unique across all reads. This is different
        # from the `fragmentName`.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional read alignment information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # An abstraction for referring to a genomic position, in relation to some
        # already known reference. For now, represents a genomic position as a
        # reference name, a base number on that reference (0-based), and a
        # determination of forward or reverse strand.
        # Corresponds to the JSON property `nextMatePosition`
        # @return [Google::Apis::GenomicsV1::Position]
        attr_accessor :next_mate_position
      
        # The number of reads in the fragment (extension to SAM flag 0x1).
        # Corresponds to the JSON property `numberReads`
        # @return [Fixnum]
        attr_accessor :number_reads
      
        # The orientation and the distance between reads from the fragment are
        # consistent with the sequencing protocol (SAM flag 0x2).
        # Corresponds to the JSON property `properPlacement`
        # @return [Boolean]
        attr_accessor :proper_placement
        alias_method :proper_placement?, :proper_placement
      
        # The ID of the read group this read belongs to. A read belongs to exactly
        # one read group. This is a server-generated ID which is distinct from SAM's
        # RG tag (for that value, see
        # ReadGroup.name).
        # Corresponds to the JSON property `readGroupId`
        # @return [String]
        attr_accessor :read_group_id
      
        # The ID of the read group set this read belongs to. A read belongs to
        # exactly one read group set.
        # Corresponds to the JSON property `readGroupSetId`
        # @return [String]
        attr_accessor :read_group_set_id
      
        # The read number in sequencing. 0-based and less than numberReads. This
        # field replaces SAM flag 0x40 and 0x80.
        # Corresponds to the JSON property `readNumber`
        # @return [Fixnum]
        attr_accessor :read_number
      
        # Whether this alignment is secondary. Equivalent to SAM flag 0x100.
        # A secondary alignment represents an alternative to the primary alignment
        # for this read. Aligners may return secondary alignments if a read can map
        # ambiguously to multiple coordinates in the genome. By convention, each read
        # has one and only one alignment where both `secondaryAlignment`
        # and `supplementaryAlignment` are false.
        # Corresponds to the JSON property `secondaryAlignment`
        # @return [Boolean]
        attr_accessor :secondary_alignment
        alias_method :secondary_alignment?, :secondary_alignment
      
        # Whether this alignment is supplementary. Equivalent to SAM flag 0x800.
        # Supplementary alignments are used in the representation of a chimeric
        # alignment. In a chimeric alignment, a read is split into multiple
        # linear alignments that map to different reference contigs. The first
        # linear alignment in the read will be designated as the representative
        # alignment; the remaining linear alignments will be designated as
        # supplementary alignments. These alignments may have different mapping
        # quality scores. In each linear alignment in a chimeric alignment, the read
        # will be hard clipped. The `alignedSequence` and
        # `alignedQuality` fields in the alignment record will only
        # represent the bases for its respective linear alignment.
        # Corresponds to the JSON property `supplementaryAlignment`
        # @return [Boolean]
        attr_accessor :supplementary_alignment
        alias_method :supplementary_alignment?, :supplementary_alignment
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @aligned_quality = args[:aligned_quality] if args.key?(:aligned_quality)
          @aligned_sequence = args[:aligned_sequence] if args.key?(:aligned_sequence)
          @alignment = args[:alignment] if args.key?(:alignment)
          @duplicate_fragment = args[:duplicate_fragment] if args.key?(:duplicate_fragment)
          @failed_vendor_quality_checks = args[:failed_vendor_quality_checks] if args.key?(:failed_vendor_quality_checks)
          @fragment_length = args[:fragment_length] if args.key?(:fragment_length)
          @fragment_name = args[:fragment_name] if args.key?(:fragment_name)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @next_mate_position = args[:next_mate_position] if args.key?(:next_mate_position)
          @number_reads = args[:number_reads] if args.key?(:number_reads)
          @proper_placement = args[:proper_placement] if args.key?(:proper_placement)
          @read_group_id = args[:read_group_id] if args.key?(:read_group_id)
          @read_group_set_id = args[:read_group_set_id] if args.key?(:read_group_set_id)
          @read_number = args[:read_number] if args.key?(:read_number)
          @secondary_alignment = args[:secondary_alignment] if args.key?(:secondary_alignment)
          @supplementary_alignment = args[:supplementary_alignment] if args.key?(:supplementary_alignment)
        end
      end
      
      # A read group is all the data that's processed the same way by the sequencer.
      class ReadGroup
        include Google::Apis::Core::Hashable
      
        # The dataset to which this read group belongs.
        # Corresponds to the JSON property `datasetId`
        # @return [String]
        attr_accessor :dataset_id
      
        # A free-form text description of this read group.
        # Corresponds to the JSON property `description`
        # @return [String]
        attr_accessor :description
      
        # The experiment used to generate this read group.
        # Corresponds to the JSON property `experiment`
        # @return [Google::Apis::GenomicsV1::Experiment]
        attr_accessor :experiment
      
        # The server-generated read group ID, unique for all read groups.
        # Note: This is different than the @RG ID field in the SAM spec. For that
        # value, see name.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional read group information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # The read group name. This corresponds to the @RG ID field in the SAM spec.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The predicted insert size of this read group. The insert size is the length
        # the sequenced DNA fragment from end-to-end, not including the adapters.
        # Corresponds to the JSON property `predictedInsertSize`
        # @return [Fixnum]
        attr_accessor :predicted_insert_size
      
        # The programs used to generate this read group. Programs are always
        # identical for all read groups within a read group set. For this reason,
        # only the first read group in a returned set will have this field
        # populated.
        # Corresponds to the JSON property `programs`
        # @return [Array<Google::Apis::GenomicsV1::Program>]
        attr_accessor :programs
      
        # The reference set the reads in this read group are aligned to.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        # A client-supplied sample identifier for the reads in this read group.
        # Corresponds to the JSON property `sampleId`
        # @return [String]
        attr_accessor :sample_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_id = args[:dataset_id] if args.key?(:dataset_id)
          @description = args[:description] if args.key?(:description)
          @experiment = args[:experiment] if args.key?(:experiment)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @name = args[:name] if args.key?(:name)
          @predicted_insert_size = args[:predicted_insert_size] if args.key?(:predicted_insert_size)
          @programs = args[:programs] if args.key?(:programs)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
          @sample_id = args[:sample_id] if args.key?(:sample_id)
        end
      end
      
      # A read group set is a logical collection of read groups, which are
      # collections of reads produced by a sequencer. A read group set typically
      # models reads corresponding to one sample, sequenced one way, and aligned one
      # way.
      # * A read group set belongs to one dataset.
      # * A read group belongs to one read group set.
      # * A read belongs to one read group.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      class ReadGroupSet
        include Google::Apis::Core::Hashable
      
        # The dataset to which this read group set belongs.
        # Corresponds to the JSON property `datasetId`
        # @return [String]
        attr_accessor :dataset_id
      
        # The filename of the original source file for this read group set, if any.
        # Corresponds to the JSON property `filename`
        # @return [String]
        attr_accessor :filename
      
        # The server-generated read group set ID, unique for all read group sets.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional read group set information.
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # The read group set name. By default this will be initialized to the sample
        # name of the sequenced data contained in this set.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The read groups in this set. There are typically 1-10 read groups in a read
        # group set.
        # Corresponds to the JSON property `readGroups`
        # @return [Array<Google::Apis::GenomicsV1::ReadGroup>]
        attr_accessor :read_groups
      
        # The reference set to which the reads in this read group set are aligned.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_id = args[:dataset_id] if args.key?(:dataset_id)
          @filename = args[:filename] if args.key?(:filename)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @name = args[:name] if args.key?(:name)
          @read_groups = args[:read_groups] if args.key?(:read_groups)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
        end
      end
      
      # A reference is a canonical assembled DNA sequence, intended to act as a
      # reference coordinate space for other genomic annotations. A single reference
      # might represent the human chromosome 1 or mitochandrial DNA, for instance. A
      # reference belongs to one or more reference sets.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      class Reference
        include Google::Apis::Core::Hashable
      
        # The server-generated reference ID, unique across all references.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # The length of this reference's sequence.
        # Corresponds to the JSON property `length`
        # @return [Fixnum]
        attr_accessor :length
      
        # MD5 of the upper-case sequence excluding all whitespace characters (this
        # is equivalent to SQ:M5 in SAM). This value is represented in lower case
        # hexadecimal format.
        # Corresponds to the JSON property `md5checksum`
        # @return [String]
        attr_accessor :md5checksum
      
        # The name of this reference, for example `22`.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # ID from http://www.ncbi.nlm.nih.gov/taxonomy. For example, 9606 for human.
        # Corresponds to the JSON property `ncbiTaxonId`
        # @return [Fixnum]
        attr_accessor :ncbi_taxon_id
      
        # All known corresponding accession IDs in INSDC (GenBank/ENA/DDBJ) ideally
        # with a version number, for example `GCF_000001405.26`.
        # Corresponds to the JSON property `sourceAccessions`
        # @return [Array<String>]
        attr_accessor :source_accessions
      
        # The URI from which the sequence was obtained. Typically specifies a FASTA
        # format file.
        # Corresponds to the JSON property `sourceUri`
        # @return [String]
        attr_accessor :source_uri
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @id = args[:id] if args.key?(:id)
          @length = args[:length] if args.key?(:length)
          @md5checksum = args[:md5checksum] if args.key?(:md5checksum)
          @name = args[:name] if args.key?(:name)
          @ncbi_taxon_id = args[:ncbi_taxon_id] if args.key?(:ncbi_taxon_id)
          @source_accessions = args[:source_accessions] if args.key?(:source_accessions)
          @source_uri = args[:source_uri] if args.key?(:source_uri)
        end
      end
      
      # ReferenceBound records an upper bound for the starting coordinate of
      # variants in a particular reference.
      class ReferenceBound
        include Google::Apis::Core::Hashable
      
        # The name of the reference associated with this reference bound.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # An upper bound (inclusive) on the starting coordinate of any
        # variant in the reference sequence.
        # Corresponds to the JSON property `upperBound`
        # @return [Fixnum]
        attr_accessor :upper_bound
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @upper_bound = args[:upper_bound] if args.key?(:upper_bound)
        end
      end
      
      # A reference set is a set of references which typically comprise a reference
      # assembly for a species, such as `GRCh38` which is representative
      # of the human genome. A reference set defines a common coordinate space for
      # comparing reference-aligned experimental data. A reference set contains 1 or
      # more references.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      class ReferenceSet
        include Google::Apis::Core::Hashable
      
        # Public id of this reference set, such as `GRCh37`.
        # Corresponds to the JSON property `assemblyId`
        # @return [String]
        attr_accessor :assembly_id
      
        # Free text description of this reference set.
        # Corresponds to the JSON property `description`
        # @return [String]
        attr_accessor :description
      
        # The server-generated reference set ID, unique across all reference sets.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # Order-independent MD5 checksum which identifies this reference set. The
        # checksum is computed by sorting all lower case hexidecimal string
        # `reference.md5checksum` (for all reference in this set) in
        # ascending lexicographic order, concatenating, and taking the MD5 of that
        # value. The resulting value is represented in lower case hexadecimal format.
        # Corresponds to the JSON property `md5checksum`
        # @return [String]
        attr_accessor :md5checksum
      
        # ID from http://www.ncbi.nlm.nih.gov/taxonomy (for example, 9606 for human)
        # indicating the species which this reference set is intended to model. Note
        # that contained references may specify a different `ncbiTaxonId`, as
        # assemblies may contain reference sequences which do not belong to the
        # modeled species, for example EBV in a human reference genome.
        # Corresponds to the JSON property `ncbiTaxonId`
        # @return [Fixnum]
        attr_accessor :ncbi_taxon_id
      
        # The IDs of the reference objects that are part of this set.
        # `Reference.md5checksum` must be unique within this set.
        # Corresponds to the JSON property `referenceIds`
        # @return [Array<String>]
        attr_accessor :reference_ids
      
        # All known corresponding accession IDs in INSDC (GenBank/ENA/DDBJ) ideally
        # with a version number, for example `NC_000001.11`.
        # Corresponds to the JSON property `sourceAccessions`
        # @return [Array<String>]
        attr_accessor :source_accessions
      
        # The URI from which the references were obtained.
        # Corresponds to the JSON property `sourceUri`
        # @return [String]
        attr_accessor :source_uri
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @assembly_id = args[:assembly_id] if args.key?(:assembly_id)
          @description = args[:description] if args.key?(:description)
          @id = args[:id] if args.key?(:id)
          @md5checksum = args[:md5checksum] if args.key?(:md5checksum)
          @ncbi_taxon_id = args[:ncbi_taxon_id] if args.key?(:ncbi_taxon_id)
          @reference_ids = args[:reference_ids] if args.key?(:reference_ids)
          @source_accessions = args[:source_accessions] if args.key?(:source_accessions)
          @source_uri = args[:source_uri] if args.key?(:source_uri)
        end
      end
      
      # Runtime metadata that will be populated in the
      # runtimeMetadata
      # field of the Operation associated with a RunPipeline execution.
      class RuntimeMetadata
        include Google::Apis::Core::Hashable
      
        # Describes a Compute Engine resource that is being managed by a running
        # pipeline.
        # Corresponds to the JSON property `computeEngine`
        # @return [Google::Apis::GenomicsV1::ComputeEngine]
        attr_accessor :compute_engine
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @compute_engine = args[:compute_engine] if args.key?(:compute_engine)
        end
      end
      
      # 
      class SearchAnnotationSetsRequest
        include Google::Apis::Core::Hashable
      
        # Required. The dataset IDs to search within. Caller must have `READ` access
        # to these datasets.
        # Corresponds to the JSON property `datasetIds`
        # @return [Array<String>]
        attr_accessor :dataset_ids
      
        # Only return annotations sets for which a substring of the name matches this
        # string (case insensitive).
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 128. The maximum value is 1024.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        # If specified, only annotation sets associated with the given reference set
        # are returned.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        # If specified, only annotation sets that have any of these types are
        # returned.
        # Corresponds to the JSON property `types`
        # @return [Array<String>]
        attr_accessor :types
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_ids = args[:dataset_ids] if args.key?(:dataset_ids)
          @name = args[:name] if args.key?(:name)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
          @types = args[:types] if args.key?(:types)
        end
      end
      
      # 
      class SearchAnnotationSetsResponse
        include Google::Apis::Core::Hashable
      
        # The matching annotation sets.
        # Corresponds to the JSON property `annotationSets`
        # @return [Array<Google::Apis::GenomicsV1::AnnotationSet>]
        attr_accessor :annotation_sets
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @annotation_sets = args[:annotation_sets] if args.key?(:annotation_sets)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
        end
      end
      
      # 
      class SearchAnnotationsRequest
        include Google::Apis::Core::Hashable
      
        # Required. The annotation sets to search within. The caller must have
        # `READ` access to these annotation sets.
        # All queried annotation sets must have the same type.
        # Corresponds to the JSON property `annotationSetIds`
        # @return [Array<String>]
        attr_accessor :annotation_set_ids
      
        # The end position of the range on the reference, 0-based exclusive. If
        # referenceId or
        # referenceName
        # must be specified, Defaults to the length of the reference.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 256. The maximum value is 2048.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        # The ID of the reference to query.
        # Corresponds to the JSON property `referenceId`
        # @return [String]
        attr_accessor :reference_id
      
        # The name of the reference to query, within the reference set associated
        # with this query.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # The start position of the range on the reference, 0-based inclusive. If
        # specified,
        # referenceId or
        # referenceName
        # must be specified. Defaults to 0.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @annotation_set_ids = args[:annotation_set_ids] if args.key?(:annotation_set_ids)
          @end = args[:end] if args.key?(:end)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
          @reference_id = args[:reference_id] if args.key?(:reference_id)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @start = args[:start] if args.key?(:start)
        end
      end
      
      # 
      class SearchAnnotationsResponse
        include Google::Apis::Core::Hashable
      
        # The matching annotations.
        # Corresponds to the JSON property `annotations`
        # @return [Array<Google::Apis::GenomicsV1::Annotation>]
        attr_accessor :annotations
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @annotations = args[:annotations] if args.key?(:annotations)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
        end
      end
      
      # The call set search request.
      class SearchCallSetsRequest
        include Google::Apis::Core::Hashable
      
        # Only return call sets for which a substring of the name matches this
        # string.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 1024.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        # Restrict the query to call sets within the given variant sets. At least one
        # ID must be provided.
        # Corresponds to the JSON property `variantSetIds`
        # @return [Array<String>]
        attr_accessor :variant_set_ids
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @name = args[:name] if args.key?(:name)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
          @variant_set_ids = args[:variant_set_ids] if args.key?(:variant_set_ids)
        end
      end
      
      # The call set search response.
      class SearchCallSetsResponse
        include Google::Apis::Core::Hashable
      
        # The list of matching call sets.
        # Corresponds to the JSON property `callSets`
        # @return [Array<Google::Apis::GenomicsV1::CallSet>]
        attr_accessor :call_sets
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @call_sets = args[:call_sets] if args.key?(:call_sets)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
        end
      end
      
      # The read group set search request.
      class SearchReadGroupSetsRequest
        include Google::Apis::Core::Hashable
      
        # Restricts this query to read group sets within the given datasets. At least
        # one ID must be provided.
        # Corresponds to the JSON property `datasetIds`
        # @return [Array<String>]
        attr_accessor :dataset_ids
      
        # Only return read group sets for which a substring of the name matches this
        # string.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 256. The maximum value is 1024.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_ids = args[:dataset_ids] if args.key?(:dataset_ids)
          @name = args[:name] if args.key?(:name)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
        end
      end
      
      # The read group set search response.
      class SearchReadGroupSetsResponse
        include Google::Apis::Core::Hashable
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # The list of matching read group sets.
        # Corresponds to the JSON property `readGroupSets`
        # @return [Array<Google::Apis::GenomicsV1::ReadGroupSet>]
        attr_accessor :read_group_sets
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @read_group_sets = args[:read_group_sets] if args.key?(:read_group_sets)
        end
      end
      
      # The read search request.
      class SearchReadsRequest
        include Google::Apis::Core::Hashable
      
        # The end position of the range on the reference, 0-based exclusive. If
        # specified, `referenceName` must also be specified.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 256. The maximum value is 2048.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        # The IDs of the read groups within which to search for reads. All specified
        # read groups must belong to the same read group sets. Must specify one of
        # `readGroupSetIds` or `readGroupIds`.
        # Corresponds to the JSON property `readGroupIds`
        # @return [Array<String>]
        attr_accessor :read_group_ids
      
        # The IDs of the read groups sets within which to search for reads. All
        # specified read group sets must be aligned against a common set of reference
        # sequences; this defines the genomic coordinates for the query. Must specify
        # one of `readGroupSetIds` or `readGroupIds`.
        # Corresponds to the JSON property `readGroupSetIds`
        # @return [Array<String>]
        attr_accessor :read_group_set_ids
      
        # The reference sequence name, for example `chr1`, `1`, or `chrX`. If set to
        # `*`, only unmapped reads are returned. If unspecified, all reads (mapped
        # and unmapped) are returned.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # The start position of the range on the reference, 0-based inclusive. If
        # specified, `referenceName` must also be specified.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @end = args[:end] if args.key?(:end)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
          @read_group_ids = args[:read_group_ids] if args.key?(:read_group_ids)
          @read_group_set_ids = args[:read_group_set_ids] if args.key?(:read_group_set_ids)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @start = args[:start] if args.key?(:start)
        end
      end
      
      # The read search response.
      class SearchReadsResponse
        include Google::Apis::Core::Hashable
      
        # The list of matching alignments sorted by mapped genomic coordinate,
        # if any, ascending in position within the same reference. Unmapped reads,
        # which have no position, are returned contiguously and are sorted in
        # ascending lexicographic order by fragment name.
        # Corresponds to the JSON property `alignments`
        # @return [Array<Google::Apis::GenomicsV1::Read>]
        attr_accessor :alignments
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @alignments = args[:alignments] if args.key?(:alignments)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
        end
      end
      
      # 
      class SearchReferenceSetsRequest
        include Google::Apis::Core::Hashable
      
        # If present, return reference sets for which a prefix of any of
        # sourceAccessions
        # match any of these strings. Accession numbers typically have a main number
        # and a version, for example `NC_000001.11`.
        # Corresponds to the JSON property `accessions`
        # @return [Array<String>]
        attr_accessor :accessions
      
        # If present, return reference sets for which a substring of their
        # `assemblyId` matches this string (case insensitive).
        # Corresponds to the JSON property `assemblyId`
        # @return [String]
        attr_accessor :assembly_id
      
        # If present, return reference sets for which the
        # md5checksum matches exactly.
        # Corresponds to the JSON property `md5checksums`
        # @return [Array<String>]
        attr_accessor :md5checksums
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 1024. The maximum value is 4096.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @accessions = args[:accessions] if args.key?(:accessions)
          @assembly_id = args[:assembly_id] if args.key?(:assembly_id)
          @md5checksums = args[:md5checksums] if args.key?(:md5checksums)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
        end
      end
      
      # 
      class SearchReferenceSetsResponse
        include Google::Apis::Core::Hashable
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # The matching references sets.
        # Corresponds to the JSON property `referenceSets`
        # @return [Array<Google::Apis::GenomicsV1::ReferenceSet>]
        attr_accessor :reference_sets
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @reference_sets = args[:reference_sets] if args.key?(:reference_sets)
        end
      end
      
      # 
      class SearchReferencesRequest
        include Google::Apis::Core::Hashable
      
        # If present, return references for which a prefix of any of
        # sourceAccessions match
        # any of these strings. Accession numbers typically have a main number and a
        # version, for example `GCF_000001405.26`.
        # Corresponds to the JSON property `accessions`
        # @return [Array<String>]
        attr_accessor :accessions
      
        # If present, return references for which the
        # md5checksum matches exactly.
        # Corresponds to the JSON property `md5checksums`
        # @return [Array<String>]
        attr_accessor :md5checksums
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 1024. The maximum value is 4096.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        # If present, return only references which belong to this reference set.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @accessions = args[:accessions] if args.key?(:accessions)
          @md5checksums = args[:md5checksums] if args.key?(:md5checksums)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
        end
      end
      
      # 
      class SearchReferencesResponse
        include Google::Apis::Core::Hashable
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # The matching references.
        # Corresponds to the JSON property `references`
        # @return [Array<Google::Apis::GenomicsV1::Reference>]
        attr_accessor :references
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @references = args[:references] if args.key?(:references)
        end
      end
      
      # The search variant sets request.
      class SearchVariantSetsRequest
        include Google::Apis::Core::Hashable
      
        # Exactly one dataset ID must be provided here. Only variant sets which
        # belong to this dataset will be returned.
        # Corresponds to the JSON property `datasetIds`
        # @return [Array<String>]
        attr_accessor :dataset_ids
      
        # The maximum number of results to return in a single page. If unspecified,
        # defaults to 1024.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_ids = args[:dataset_ids] if args.key?(:dataset_ids)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
        end
      end
      
      # The search variant sets response.
      class SearchVariantSetsResponse
        include Google::Apis::Core::Hashable
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # The variant sets belonging to the requested dataset.
        # Corresponds to the JSON property `variantSets`
        # @return [Array<Google::Apis::GenomicsV1::VariantSet>]
        attr_accessor :variant_sets
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @variant_sets = args[:variant_sets] if args.key?(:variant_sets)
        end
      end
      
      # The variant search request.
      class SearchVariantsRequest
        include Google::Apis::Core::Hashable
      
        # Only return variant calls which belong to call sets with these ids.
        # Leaving this blank returns all variant calls. If a variant has no
        # calls belonging to any of these call sets, it won't be returned at all.
        # Corresponds to the JSON property `callSetIds`
        # @return [Array<String>]
        attr_accessor :call_set_ids
      
        # The end of the window, 0-based exclusive. If unspecified or 0, defaults to
        # the length of the reference.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # The maximum number of calls to return in a single page. Note that this
        # limit may be exceeded in the event that a matching variant contains more
        # calls than the requested maximum. If unspecified, defaults to 5000. The
        # maximum value is 10000.
        # Corresponds to the JSON property `maxCalls`
        # @return [Fixnum]
        attr_accessor :max_calls
      
        # The maximum number of variants to return in a single page. If unspecified,
        # defaults to 5000. The maximum value is 10000.
        # Corresponds to the JSON property `pageSize`
        # @return [Fixnum]
        attr_accessor :page_size
      
        # The continuation token, which is used to page through large result sets.
        # To get the next page of results, set this parameter to the value of
        # `nextPageToken` from the previous response.
        # Corresponds to the JSON property `pageToken`
        # @return [String]
        attr_accessor :page_token
      
        # Required. Only return variants in this reference sequence.
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # The beginning of the window (0-based, inclusive) for which
        # overlapping variants should be returned. If unspecified, defaults to 0.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        # Only return variants which have exactly this name.
        # Corresponds to the JSON property `variantName`
        # @return [String]
        attr_accessor :variant_name
      
        # At most one variant set ID must be provided. Only variants from this
        # variant set will be returned. If omitted, a call set id must be included in
        # the request.
        # Corresponds to the JSON property `variantSetIds`
        # @return [Array<String>]
        attr_accessor :variant_set_ids
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @call_set_ids = args[:call_set_ids] if args.key?(:call_set_ids)
          @end = args[:end] if args.key?(:end)
          @max_calls = args[:max_calls] if args.key?(:max_calls)
          @page_size = args[:page_size] if args.key?(:page_size)
          @page_token = args[:page_token] if args.key?(:page_token)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @start = args[:start] if args.key?(:start)
          @variant_name = args[:variant_name] if args.key?(:variant_name)
          @variant_set_ids = args[:variant_set_ids] if args.key?(:variant_set_ids)
        end
      end
      
      # The variant search response.
      class SearchVariantsResponse
        include Google::Apis::Core::Hashable
      
        # The continuation token, which is used to page through large result sets.
        # Provide this value in a subsequent request to return the next page of
        # results. This field will be empty if there aren't any additional results.
        # Corresponds to the JSON property `nextPageToken`
        # @return [String]
        attr_accessor :next_page_token
      
        # The list of matching Variants.
        # Corresponds to the JSON property `variants`
        # @return [Array<Google::Apis::GenomicsV1::Variant>]
        attr_accessor :variants
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @next_page_token = args[:next_page_token] if args.key?(:next_page_token)
          @variants = args[:variants] if args.key?(:variants)
        end
      end
      
      # Request message for `SetIamPolicy` method.
      class SetIamPolicyRequest
        include Google::Apis::Core::Hashable
      
        # Defines an Identity and Access Management (IAM) policy. It is used to
        # specify access control policies for Cloud Platform resources.
        # A `Policy` consists of a list of `bindings`. A `Binding` binds a list of
        # `members` to a `role`, where the members can be user accounts, Google groups,
        # Google domains, and service accounts. A `role` is a named list of permissions
        # defined by IAM.
        # **Example**
        # `
        # "bindings": [
        # `
        # "role": "roles/owner",
        # "members": [
        # "user:mike@example.com",
        # "group:admins@example.com",
        # "domain:google.com",
        # "serviceAccount:my-other-app@appspot.gserviceaccount.com",
        # ]
        # `,
        # `
        # "role": "roles/viewer",
        # "members": ["user:sean@example.com"]
        # `
        # ]
        # `
        # For a description of IAM and its features, see the
        # [IAM developer's guide](https://cloud.google.com/iam).
        # Corresponds to the JSON property `policy`
        # @return [Google::Apis::GenomicsV1::Policy]
        attr_accessor :policy
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @policy = args[:policy] if args.key?(:policy)
        end
      end
      
      # The `Status` type defines a logical error model that is suitable for different
      # programming environments, including REST APIs and RPC APIs. It is used by
      # [gRPC](https://github.com/grpc). The error model is designed to be:
      # - Simple to use and understand for most users
      # - Flexible enough to meet unexpected needs
      # # Overview
      # The `Status` message contains three pieces of data: error code, error message,
      # and error details. The error code should be an enum value of
      # google.rpc.Code, but it may accept additional error codes if needed.  The
      # error message should be a developer-facing English message that helps
      # developers *understand* and *resolve* the error. If a localized user-facing
      # error message is needed, put the localized message in the error details or
      # localize it in the client. The optional error details may contain arbitrary
      # information about the error. There is a predefined set of error detail types
      # in the package `google.rpc` that can be used for common error conditions.
      # # Language mapping
      # The `Status` message is the logical representation of the error model, but it
      # is not necessarily the actual wire format. When the `Status` message is
      # exposed in different client libraries and different wire protocols, it can be
      # mapped differently. For example, it will likely be mapped to some exceptions
      # in Java, but more likely mapped to some error codes in C.
      # # Other uses
      # The error model and the `Status` message can be used in a variety of
      # environments, either with or without APIs, to provide a
      # consistent developer experience across different environments.
      # Example uses of this error model include:
      # - Partial errors. If a service needs to return partial errors to the client,
      # it may embed the `Status` in the normal response to indicate the partial
      # errors.
      # - Workflow errors. A typical workflow has multiple steps. Each step may
      # have a `Status` message for error reporting.
      # - Batch operations. If a client uses batch request and batch response, the
      # `Status` message should be used directly inside batch response, one for
      # each error sub-response.
      # - Asynchronous operations. If an API call embeds asynchronous operation
      # results in its response, the status of those operations should be
      # represented directly using the `Status` message.
      # - Logging. If some API errors are stored in logs, the message `Status` could
      # be used directly after any stripping needed for security/privacy reasons.
      class Status
        include Google::Apis::Core::Hashable
      
        # The status code, which should be an enum value of google.rpc.Code.
        # Corresponds to the JSON property `code`
        # @return [Fixnum]
        attr_accessor :code
      
        # A list of messages that carry the error details.  There is a common set of
        # message types for APIs to use.
        # Corresponds to the JSON property `details`
        # @return [Array<Hash<String,Object>>]
        attr_accessor :details
      
        # A developer-facing error message, which should be in English. Any
        # user-facing error message should be localized and sent in the
        # google.rpc.Status.details field, or localized by the client.
        # Corresponds to the JSON property `message`
        # @return [String]
        attr_accessor :message
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @code = args[:code] if args.key?(:code)
          @details = args[:details] if args.key?(:details)
          @message = args[:message] if args.key?(:message)
        end
      end
      
      # Request message for `TestIamPermissions` method.
      class TestIamPermissionsRequest
        include Google::Apis::Core::Hashable
      
        # REQUIRED: The set of permissions to check for the 'resource'.
        # Permissions with wildcards (such as '*' or 'storage.*') are not allowed.
        # Allowed permissions are&#58;
        # * `genomics.datasets.create`
        # * `genomics.datasets.delete`
        # * `genomics.datasets.get`
        # * `genomics.datasets.list`
        # * `genomics.datasets.update`
        # * `genomics.datasets.getIamPolicy`
        # * `genomics.datasets.setIamPolicy`
        # Corresponds to the JSON property `permissions`
        # @return [Array<String>]
        attr_accessor :permissions
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @permissions = args[:permissions] if args.key?(:permissions)
        end
      end
      
      # Response message for `TestIamPermissions` method.
      class TestIamPermissionsResponse
        include Google::Apis::Core::Hashable
      
        # A subset of `TestPermissionsRequest.permissions` that the caller is
        # allowed.
        # Corresponds to the JSON property `permissions`
        # @return [Array<String>]
        attr_accessor :permissions
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @permissions = args[:permissions] if args.key?(:permissions)
        end
      end
      
      # A transcript represents the assertion that a particular region of the
      # reference genome may be transcribed as RNA.
      class Transcript
        include Google::Apis::Core::Hashable
      
        # The range of the coding sequence for this transcript, if any. To determine
        # the exact ranges of coding sequence, intersect this range with those of the
        # exons, if any. If there are any
        # exons, the
        # codingSequence must start
        # and end within them.
        # Note that in some cases, the reference genome will not exactly match the
        # observed mRNA transcript e.g. due to variance in the source genome from
        # reference. In these cases,
        # exon.frame will not necessarily
        # match the expected reference reading frame and coding exon reference bases
        # cannot necessarily be concatenated to produce the original transcript mRNA.
        # Corresponds to the JSON property `codingSequence`
        # @return [Google::Apis::GenomicsV1::CodingSequence]
        attr_accessor :coding_sequence
      
        # The <a href="http://en.wikipedia.org/wiki/Exon">exons</a> that compose
        # this transcript. This field should be unset for genomes where transcript
        # splicing does not occur, for example prokaryotes.
        # Introns are regions of the transcript that are not included in the
        # spliced RNA product. Though not explicitly modeled here, intron ranges can
        # be deduced; all regions of this transcript that are not exons are introns.
        # Exonic sequences do not necessarily code for a translational product
        # (amino acids). Only the regions of exons bounded by the
        # codingSequence correspond
        # to coding DNA sequence.
        # Exons are ordered by start position and may not overlap.
        # Corresponds to the JSON property `exons`
        # @return [Array<Google::Apis::GenomicsV1::Exon>]
        attr_accessor :exons
      
        # The annotation ID of the gene from which this transcript is transcribed.
        # Corresponds to the JSON property `geneId`
        # @return [String]
        attr_accessor :gene_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @coding_sequence = args[:coding_sequence] if args.key?(:coding_sequence)
          @exons = args[:exons] if args.key?(:exons)
          @gene_id = args[:gene_id] if args.key?(:gene_id)
        end
      end
      
      # 
      class UndeleteDatasetRequest
        include Google::Apis::Core::Hashable
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
        end
      end
      
      # A variant represents a change in DNA sequence relative to a reference
      # sequence. For example, a variant could represent a SNP or an insertion.
      # Variants belong to a variant set.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      # Each of the calls on a variant represent a determination of genotype with
      # respect to that variant. For example, a call might assign probability of 0.32
      # to the occurrence of a SNP named rs1234 in a sample named NA12345. A call
      # belongs to a call set, which contains related calls typically from one
      # sample.
      class Variant
        include Google::Apis::Core::Hashable
      
        # The bases that appear instead of the reference bases.
        # Corresponds to the JSON property `alternateBases`
        # @return [Array<String>]
        attr_accessor :alternate_bases
      
        # The variant calls for this particular variant. Each one represents the
        # determination of genotype with respect to this variant.
        # Corresponds to the JSON property `calls`
        # @return [Array<Google::Apis::GenomicsV1::VariantCall>]
        attr_accessor :calls
      
        # The date this variant was created, in milliseconds from the epoch.
        # Corresponds to the JSON property `created`
        # @return [Fixnum]
        attr_accessor :created
      
        # The end position (0-based) of this variant. This corresponds to the first
        # base after the last base in the reference allele. So, the length of
        # the reference allele is (end - start). This is useful for variants
        # that don't explicitly give alternate bases, for example large deletions.
        # Corresponds to the JSON property `end`
        # @return [Fixnum]
        attr_accessor :end
      
        # A list of filters (normally quality filters) this variant has failed.
        # `PASS` indicates this variant has passed all filters.
        # Corresponds to the JSON property `filter`
        # @return [Array<String>]
        attr_accessor :filter
      
        # The server-generated variant ID, unique across all variants.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # A map of additional variant information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # Names for the variant, for example a RefSNP ID.
        # Corresponds to the JSON property `names`
        # @return [Array<String>]
        attr_accessor :names
      
        # A measure of how likely this variant is to be real.
        # A higher value is better.
        # Corresponds to the JSON property `quality`
        # @return [Float]
        attr_accessor :quality
      
        # The reference bases for this variant. They start at the given
        # position.
        # Corresponds to the JSON property `referenceBases`
        # @return [String]
        attr_accessor :reference_bases
      
        # The reference on which this variant occurs.
        # (such as `chr20` or `X`)
        # Corresponds to the JSON property `referenceName`
        # @return [String]
        attr_accessor :reference_name
      
        # The position at which this variant occurs (0-based).
        # This corresponds to the first base of the string of reference bases.
        # Corresponds to the JSON property `start`
        # @return [Fixnum]
        attr_accessor :start
      
        # The ID of the variant set this variant belongs to.
        # Corresponds to the JSON property `variantSetId`
        # @return [String]
        attr_accessor :variant_set_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @alternate_bases = args[:alternate_bases] if args.key?(:alternate_bases)
          @calls = args[:calls] if args.key?(:calls)
          @created = args[:created] if args.key?(:created)
          @end = args[:end] if args.key?(:end)
          @filter = args[:filter] if args.key?(:filter)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @names = args[:names] if args.key?(:names)
          @quality = args[:quality] if args.key?(:quality)
          @reference_bases = args[:reference_bases] if args.key?(:reference_bases)
          @reference_name = args[:reference_name] if args.key?(:reference_name)
          @start = args[:start] if args.key?(:start)
          @variant_set_id = args[:variant_set_id] if args.key?(:variant_set_id)
        end
      end
      
      # 
      class VariantAnnotation
        include Google::Apis::Core::Hashable
      
        # The alternate allele for this variant. If multiple alternate alleles
        # exist at this location, create a separate variant for each one, as they
        # may represent distinct conditions.
        # Corresponds to the JSON property `alternateBases`
        # @return [String]
        attr_accessor :alternate_bases
      
        # Describes the clinical significance of a variant.
        # It is adapted from the ClinVar controlled vocabulary for clinical
        # significance described at:
        # http://www.ncbi.nlm.nih.gov/clinvar/docs/clinsig/
        # Corresponds to the JSON property `clinicalSignificance`
        # @return [String]
        attr_accessor :clinical_significance
      
        # The set of conditions associated with this variant.
        # A condition describes the way a variant influences human health.
        # Corresponds to the JSON property `conditions`
        # @return [Array<Google::Apis::GenomicsV1::ClinicalCondition>]
        attr_accessor :conditions
      
        # Effect of the variant on the coding sequence.
        # Corresponds to the JSON property `effect`
        # @return [String]
        attr_accessor :effect
      
        # Google annotation ID of the gene affected by this variant. This should
        # be provided when the variant is created.
        # Corresponds to the JSON property `geneId`
        # @return [String]
        attr_accessor :gene_id
      
        # Google annotation IDs of the transcripts affected by this variant. These
        # should be provided when the variant is created.
        # Corresponds to the JSON property `transcriptIds`
        # @return [Array<String>]
        attr_accessor :transcript_ids
      
        # Type has been adapted from ClinVar's list of variant types.
        # Corresponds to the JSON property `type`
        # @return [String]
        attr_accessor :type
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @alternate_bases = args[:alternate_bases] if args.key?(:alternate_bases)
          @clinical_significance = args[:clinical_significance] if args.key?(:clinical_significance)
          @conditions = args[:conditions] if args.key?(:conditions)
          @effect = args[:effect] if args.key?(:effect)
          @gene_id = args[:gene_id] if args.key?(:gene_id)
          @transcript_ids = args[:transcript_ids] if args.key?(:transcript_ids)
          @type = args[:type] if args.key?(:type)
        end
      end
      
      # A call represents the determination of genotype with respect to a particular
      # variant. It may include associated information such as quality and phasing.
      # For example, a call might assign a probability of 0.32 to the occurrence of
      # a SNP named rs1234 in a call set with the name NA12345.
      class VariantCall
        include Google::Apis::Core::Hashable
      
        # The ID of the call set this variant call belongs to.
        # Corresponds to the JSON property `callSetId`
        # @return [String]
        attr_accessor :call_set_id
      
        # The name of the call set this variant call belongs to.
        # Corresponds to the JSON property `callSetName`
        # @return [String]
        attr_accessor :call_set_name
      
        # The genotype of this variant call. Each value represents either the value
        # of the `referenceBases` field or a 1-based index into
        # `alternateBases`. If a variant had a `referenceBases`
        # value of `T` and an `alternateBases`
        # value of `["A", "C"]`, and the `genotype` was
        # `[2, 1]`, that would mean the call
        # represented the heterozygous value `CA` for this variant.
        # If the `genotype` was instead `[0, 1]`, the
        # represented value would be `TA`. Ordering of the
        # genotype values is important if the `phaseset` is present.
        # If a genotype is not called (that is, a `.` is present in the
        # GT string) -1 is returned.
        # Corresponds to the JSON property `genotype`
        # @return [Array<Fixnum>]
        attr_accessor :genotype
      
        # The genotype likelihoods for this variant call. Each array entry
        # represents how likely a specific genotype is for this call. The value
        # ordering is defined by the GL tag in the VCF spec.
        # If Phred-scaled genotype likelihood scores (PL) are available and
        # log10(P) genotype likelihood scores (GL) are not, PL scores are converted
        # to GL scores.  If both are available, PL scores are stored in `info`.
        # Corresponds to the JSON property `genotypeLikelihood`
        # @return [Array<Float>]
        attr_accessor :genotype_likelihood
      
        # A map of additional variant call information. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # If this field is present, this variant call's genotype ordering implies
        # the phase of the bases and is consistent with any other variant calls in
        # the same reference sequence which have the same phaseset value.
        # When importing data from VCF, if the genotype data was phased but no
        # phase set was specified this field will be set to `*`.
        # Corresponds to the JSON property `phaseset`
        # @return [String]
        attr_accessor :phaseset
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @call_set_id = args[:call_set_id] if args.key?(:call_set_id)
          @call_set_name = args[:call_set_name] if args.key?(:call_set_name)
          @genotype = args[:genotype] if args.key?(:genotype)
          @genotype_likelihood = args[:genotype_likelihood] if args.key?(:genotype_likelihood)
          @info = args[:info] if args.key?(:info)
          @phaseset = args[:phaseset] if args.key?(:phaseset)
        end
      end
      
      # A variant set is a collection of call sets and variants. It contains summary
      # statistics of those contents. A variant set belongs to a dataset.
      # For more genomics resource definitions, see [Fundamentals of Google
      # Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
      class VariantSet
        include Google::Apis::Core::Hashable
      
        # The dataset to which this variant set belongs.
        # Corresponds to the JSON property `datasetId`
        # @return [String]
        attr_accessor :dataset_id
      
        # A textual description of this variant set.
        # Corresponds to the JSON property `description`
        # @return [String]
        attr_accessor :description
      
        # The server-generated variant set ID, unique across all variant sets.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # The metadata associated with this variant set.
        # Corresponds to the JSON property `metadata`
        # @return [Array<Google::Apis::GenomicsV1::VariantSetMetadata>]
        attr_accessor :metadata
      
        # User-specified, mutable name.
        # Corresponds to the JSON property `name`
        # @return [String]
        attr_accessor :name
      
        # A list of all references used by the variants in a variant set
        # with associated coordinate upper bounds for each one.
        # Corresponds to the JSON property `referenceBounds`
        # @return [Array<Google::Apis::GenomicsV1::ReferenceBound>]
        attr_accessor :reference_bounds
      
        # The reference set to which the variant set is mapped. The reference set
        # describes the alignment provenance of the variant set, while the
        # `referenceBounds` describe the shape of the actual variant data. The
        # reference set's reference names are a superset of those found in the
        # `referenceBounds`.
        # For example, given a variant set that is mapped to the GRCh38 reference set
        # and contains a single variant on reference 'X', `referenceBounds` would
        # contain only an entry for 'X', while the associated reference set
        # enumerates all possible references: '1', '2', 'X', 'Y', 'MT', etc.
        # Corresponds to the JSON property `referenceSetId`
        # @return [String]
        attr_accessor :reference_set_id
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @dataset_id = args[:dataset_id] if args.key?(:dataset_id)
          @description = args[:description] if args.key?(:description)
          @id = args[:id] if args.key?(:id)
          @metadata = args[:metadata] if args.key?(:metadata)
          @name = args[:name] if args.key?(:name)
          @reference_bounds = args[:reference_bounds] if args.key?(:reference_bounds)
          @reference_set_id = args[:reference_set_id] if args.key?(:reference_set_id)
        end
      end
      
      # Metadata describes a single piece of variant call metadata.
      # These data include a top level key and either a single value string (value)
      # or a list of key-value pairs (info.)
      # Value and info are mutually exclusive.
      class VariantSetMetadata
        include Google::Apis::Core::Hashable
      
        # A textual description of this metadata.
        # Corresponds to the JSON property `description`
        # @return [String]
        attr_accessor :description
      
        # User-provided ID field, not enforced by this API.
        # Two or more pieces of structured metadata with identical
        # id and key fields are considered equivalent.
        # Corresponds to the JSON property `id`
        # @return [String]
        attr_accessor :id
      
        # Remaining structured metadata key-value pairs. This must be of the form
        # map<string, string[]> (string key mapping to a list of string values).
        # Corresponds to the JSON property `info`
        # @return [Hash<String,Array<Object>>]
        attr_accessor :info
      
        # The top-level key.
        # Corresponds to the JSON property `key`
        # @return [String]
        attr_accessor :key
      
        # The number of values that can be included in a field described by this
        # metadata.
        # Corresponds to the JSON property `number`
        # @return [String]
        attr_accessor :number
      
        # The type of data. Possible types include: Integer, Float,
        # Flag, Character, and String.
        # Corresponds to the JSON property `type`
        # @return [String]
        attr_accessor :type
      
        # The value field for simple metadata
        # Corresponds to the JSON property `value`
        # @return [String]
        attr_accessor :value
      
        def initialize(**args)
           update!(**args)
        end
      
        # Update properties of this object
        def update!(**args)
          @description = args[:description] if args.key?(:description)
          @id = args[:id] if args.key?(:id)
          @info = args[:info] if args.key?(:info)
          @key = args[:key] if args.key?(:key)
          @number = args[:number] if args.key?(:number)
          @type = args[:type] if args.key?(:type)
          @value = args[:value] if args.key?(:value)
        end
      end
    end
  end
end