class Google::Apis::GenomicsV1beta2::GenomicsService
Genomics API
Provides access to Genomics data.
@example
require 'google/apis/genomics_v1beta2' Genomics = Google::Apis::GenomicsV1beta2 # Alias the module service = Genomics::GenomicsService.new
Attributes
@return [String]
API key. Your API key identifies your project and provides you with API access, quota, and reports. Required unless you provide an OAuth 2.0 token.
@return [String]
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@return [String]
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
Public Class Methods
# File generated/google/apis/genomics_v1beta2/service.rb, line 51 def initialize super('https://www.googleapis.com/', 'genomics/v1beta2/') end
Public Instance Methods
Aligns read data from existing read group sets or files from Google Cloud Storage. See the alignment and variant calling documentation for more details. @param [Google::Apis::GenomicsV1beta2::AlignReadGroupSetsRequest] align_read_group_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::AlignReadGroupSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::AlignReadGroupSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1213 def align_read_group_sets(align_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/align' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::AlignReadGroupSetsRequest::Representation command.request_object = align_read_group_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::AlignReadGroupSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::AlignReadGroupSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates one or more new annotations atomically. All annotations must belong to the same annotation set. Caller must have WRITE permission for this annotation set. For optimal performance, batch positionally adjacent annotations together. If the request has a systemic issue, such as an attempt to write to an inaccessible annotation set, the entire RPC will fail accordingly. For lesser data issues, when possible an error will be isolated to the corresponding batch entry in the response; the remaining well formed annotations will be created normally. @param [Google::Apis::GenomicsV1beta2::BatchCreateAnnotationsRequest] batch_create_annotations_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::BatchAnnotationsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::BatchAnnotationsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 315 def batch_create_annotations(batch_create_annotations_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations:batchCreate' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::BatchCreateAnnotationsRequest::Representation command.request_object = batch_create_annotations_request_object command.response_representation = Google::Apis::GenomicsV1beta2::BatchAnnotationsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::BatchAnnotationsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Calls variants on read data from existing read group sets or files from Google Cloud Storage. See the alignment and variant calling documentation for more details. @param [Google::Apis::GenomicsV1beta2::CallReadGroupSetsRequest] call_read_group_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::CallReadGroupSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::CallReadGroupSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1251 def call_read_group_sets(call_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/call' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::CallReadGroupSetsRequest::Representation command.request_object = call_read_group_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::CallReadGroupSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::CallReadGroupSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Cancels a job by ID. Note that it is possible for partial results to be generated and stored for cancelled jobs. @param [String] job_id
Required. The ID of the job.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1107 def cancel_job(job_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'jobs/{jobId}/cancel' command = make_simple_command(:post, path, options) command.params['jobId'] = job_id unless job_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates a new annotation. Caller must have WRITE permission for the associated annotation set. @param [Google::Apis::GenomicsV1beta2::Annotation] annotation_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Annotation] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Annotation]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 352 def create_annotation(annotation_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.request_object = annotation_object command.response_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.response_class = Google::Apis::GenomicsV1beta2::Annotation command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates a new annotation set. Caller must have WRITE permission for the associated dataset. @param [Google::Apis::GenomicsV1beta2::AnnotationSet] annotation_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::AnnotationSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::AnnotationSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 79 def create_annotation_set(annotation_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotationSets' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.request_object = annotation_set_object command.response_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::AnnotationSet command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates a new call set. @param [Google::Apis::GenomicsV1beta2::CallSet] call_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::CallSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::CallSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 581 def create_call_set(call_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'callsets' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.request_object = call_set_object command.response_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::CallSet command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates a new dataset. @param [Google::Apis::GenomicsV1beta2::Dataset] dataset_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Dataset] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Dataset]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 802 def create_dataset(dataset_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.request_object = dataset_object command.response_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.response_class = Google::Apis::GenomicsV1beta2::Dataset command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates and asynchronously runs an ad-hoc job. This is an experimental call and may be removed or changed at any time. @param [Google::Apis::GenomicsV1beta2::ExperimentalCreateJobRequest] experimental_create_job_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ExperimentalCreateJobResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ExperimentalCreateJobResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1069 def create_experimental_job(experimental_create_job_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'experimental/jobs/create' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ExperimentalCreateJobRequest::Representation command.request_object = experimental_create_job_request_object command.response_representation = Google::Apis::GenomicsV1beta2::ExperimentalCreateJobResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ExperimentalCreateJobResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates a new variant. @param [Google::Apis::GenomicsV1beta2::Variant] variant_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Variant] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Variant]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1871 def create_variant(variant_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variants' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Variant::Representation command.request_object = variant_object command.response_representation = Google::Apis::GenomicsV1beta2::Variant::Representation command.response_class = Google::Apis::GenomicsV1beta2::Variant command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates a new variant set (only necessary in v1). @param [Google::Apis::GenomicsV1beta2::VariantSet] variant_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::VariantSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::VariantSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2054 def create_variantset(variant_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.request_object = variant_set_object command.response_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::VariantSet command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes an annotation. Caller must have WRITE permission for the associated annotation set. @param [String] annotation_id
The ID of the annotation set to be deleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 390 def delete_annotation(annotation_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations/{annotationId}' command = make_simple_command(:delete, path, options) command.params['annotationId'] = annotation_id unless annotation_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes an annotation set. Caller must have WRITE permission for the associated annotation set. @param [String] annotation_set_id
The ID of the annotation set to be deleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 117 def delete_annotation_set(annotation_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotationSets/{annotationSetId}' command = make_simple_command(:delete, path, options) command.params['annotationSetId'] = annotation_set_id unless annotation_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes a call set. @param [String] call_set_id
The ID of the call set to be deleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 618 def delete_call_set(call_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'callsets/{callSetId}' command = make_simple_command(:delete, path, options) command.params['callSetId'] = call_set_id unless call_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes a dataset. @param [String] dataset_id
The ID of the dataset to be deleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 839 def delete_dataset(dataset_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets/{datasetId}' command = make_simple_command(:delete, path, options) command.params['datasetId'] = dataset_id unless dataset_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes a read group set. @param [String] read_group_set_id
The ID of the read group set to be deleted. The caller must have WRITE permissions to the dataset associated with this read group set.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1289 def delete_read_group_set(read_group_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/{readGroupSetId}' command = make_simple_command(:delete, path, options) command.params['readGroupSetId'] = read_group_set_id unless read_group_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes a variant. @param [String] variant_id
The ID of the variant to be deleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1908 def delete_variant(variant_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variants/{variantId}' command = make_simple_command(:delete, path, options) command.params['variantId'] = variant_id unless variant_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Deletes the contents of a variant set. The variant set object is not deleted. @param [String] variant_set_id
The ID of the variant set to be deleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2091 def delete_variantset(variant_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}' command = make_simple_command(:delete, path, options) command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Exports read group sets to a BAM file in Google Cloud Storage. Note that currently there may be some differences between exported BAM files and the original BAM file at the time of import. In particular, comments in the input file header will not be preserved, some custom tags will be converted to strings, and original reference sequence order is not necessarily preserved. @param [Google::Apis::GenomicsV1beta2::ExportReadGroupSetsRequest] export_read_group_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ExportReadGroupSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ExportReadGroupSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1327 def export_read_group_sets(export_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/export' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ExportReadGroupSetsRequest::Representation command.request_object = export_read_group_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::ExportReadGroupSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ExportReadGroupSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Exports variant set data to an external destination. @param [String] variant_set_id
Required. The ID of the variant set that contains variant data which should be exported. The caller must have READ access to this variant set.
@param [Google::Apis::GenomicsV1beta2::ExportVariantSetRequest] export_variant_set_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ExportVariantSetResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ExportVariantSetResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2127 def export_variant_set(variant_set_id, export_variant_set_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}/export' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ExportVariantSetRequest::Representation command.request_object = export_variant_set_request_object command.response_representation = Google::Apis::GenomicsV1beta2::ExportVariantSetResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ExportVariantSetResponse command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets an annotation. Caller must have READ permission for the associated annotation set. @param [String] annotation_id
The ID of the annotation set to be retrieved.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Annotation] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Annotation]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 425 def get_annotation(annotation_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations/{annotationId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.response_class = Google::Apis::GenomicsV1beta2::Annotation command.params['annotationId'] = annotation_id unless annotation_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets an annotation set. Caller must have READ permission for the associated dataset. @param [String] annotation_set_id
The ID of the annotation set to be retrieved.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::AnnotationSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::AnnotationSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 152 def get_annotation_set(annotation_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotationSets/{annotationSetId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::AnnotationSet command.params['annotationSetId'] = annotation_set_id unless annotation_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a call set by ID. @param [String] call_set_id
The ID of the call set.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::CallSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::CallSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 652 def get_call_set(call_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'callsets/{callSetId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::CallSet command.params['callSetId'] = call_set_id unless call_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a dataset by ID. @param [String] dataset_id
The ID of the dataset.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Dataset] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Dataset]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 873 def get_dataset(dataset_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets/{datasetId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.response_class = Google::Apis::GenomicsV1beta2::Dataset command.params['datasetId'] = dataset_id unless dataset_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a job by ID. @param [String] job_id
Required. The ID of the job.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Job] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Job]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1141 def get_job(job_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'jobs/{jobId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::Job::Representation command.response_class = Google::Apis::GenomicsV1beta2::Job command.params['jobId'] = job_id unless job_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a read group set by ID. @param [String] read_group_set_id
The ID of the read group set.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ReadGroupSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ReadGroupSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1364 def get_read_group_set(read_group_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/{readGroupSetId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::ReadGroupSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::ReadGroupSet command.params['readGroupSetId'] = read_group_set_id unless read_group_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a reference. Implements GlobalAllianceApi.getReference. @param [String] reference_id
The ID of the reference.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Reference] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Reference]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1673 def get_reference(reference_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'references/{referenceId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::Reference::Representation command.response_class = Google::Apis::GenomicsV1beta2::Reference command.params['referenceId'] = reference_id unless reference_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a reference set. Implements GlobalAllianceApi.getReferenceSet. @param [String] reference_set_id
The ID of the reference set.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ReferenceSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ReferenceSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1799 def get_reference_set(reference_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'referencesets/{referenceSetId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::ReferenceSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::ReferenceSet command.params['referenceSetId'] = reference_set_id unless reference_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a variant by ID. @param [String] variant_id
The ID of the variant.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Variant] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Variant]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1942 def get_variant(variant_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variants/{variantId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::Variant::Representation command.response_class = Google::Apis::GenomicsV1beta2::Variant command.params['variantId'] = variant_id unless variant_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a variant set by ID. @param [String] variant_set_id
Required. The ID of the variant set.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::VariantSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::VariantSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2165 def get_variantset(variant_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::VariantSet command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates read group sets by asynchronously importing the provided information. Note that currently comments in the input file header are not imported and some custom tags will be converted to strings, rather than preserving tag types. The caller must have WRITE permissions to the dataset. @param [Google::Apis::GenomicsV1beta2::ImportReadGroupSetsRequest] import_read_group_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ImportReadGroupSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ImportReadGroupSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1402 def import_read_group_sets(import_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/import' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ImportReadGroupSetsRequest::Representation command.request_object = import_read_group_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::ImportReadGroupSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ImportReadGroupSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Creates variant data by asynchronously importing the provided information. The variants for import will be merged with any existing data and each other according to the behavior of mergeVariants. In particular, this means for merged VCF variants that have conflicting INFO fields, some data will be arbitrarily discarded. As a special case, for single-sample VCF files, QUAL and FILTER fields will be moved to the call level; these are sometimes interpreted in a call-specific context. Imported VCF headers are appended to the metadata already in a variant set. @param [String] variant_set_id
Required. The variant set to which variant data should be imported.
@param [Google::Apis::GenomicsV1beta2::ImportVariantsRequest] import_variants_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ImportVariantsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ImportVariantsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2209 def import_variants(variant_set_id, import_variants_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}/importVariants' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ImportVariantsRequest::Representation command.request_object = import_variants_request_object command.response_representation = Google::Apis::GenomicsV1beta2::ImportVariantsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ImportVariantsResponse command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Lists fixed width coverage buckets for a read group set, each of which correspond to a range of a reference sequence. Each bucket summarizes coverage information across its corresponding genomic range. Coverage is defined as the number of reads which are aligned to a given base in the reference sequence. Coverage buckets are available at several precomputed bucket widths, enabling retrieval of various coverage 'zoom levels' . The caller must have READ permissions for the target read group set. @param [String] read_group_set_id
Required. The ID of the read group set over which coverage is requested.
@param [Fixnum] page_size
The maximum number of results to return in a single page. If unspecified, defaults to 1024. The maximum value is 2048.
@param [String] page_token
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.
@param [String] range_end
The end position of the range on the reference, 0-based exclusive. If specified, referenceName must also be specified.
@param [String] range_reference_name
The reference sequence name, for example chr1, 1, or chrX.
@param [String] range_start
The start position of the range on the reference, 0-based inclusive. If specified, referenceName must also be specified.
@param [String] target_bucket_width
The desired width of each reported coverage bucket in base pairs. This will be rounded down to the nearest precomputed bucket width; the value of which is returned as bucketWidth in the response. Defaults to infinity (each bucket spans an entire reference sequence) or the length of the target range, if specified. The smallest precomputed bucketWidth is currently 2048 base pairs; this is subject to change.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ListCoverageBucketsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ListCoverageBucketsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1584 def list_coverage_buckets(read_group_set_id, page_size: nil, page_token: nil, range_end: nil, range_reference_name: nil, range_start: nil, target_bucket_width: nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/{readGroupSetId}/coveragebuckets' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::ListCoverageBucketsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ListCoverageBucketsResponse command.params['readGroupSetId'] = read_group_set_id unless read_group_set_id.nil? command.query['pageSize'] = page_size unless page_size.nil? command.query['pageToken'] = page_token unless page_token.nil? command.query['range.end'] = range_end unless range_end.nil? command.query['range.referenceName'] = range_reference_name unless range_reference_name.nil? command.query['range.start'] = range_start unless range_start.nil? command.query['targetBucketWidth'] = target_bucket_width unless target_bucket_width.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Lists datasets within a project. @param [Fixnum] page_size
The maximum number of results returned by this request. If unspecified, defaults to 50.
@param [String] page_token
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.
@param [String] project_number
Required. The project to list datasets for.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ListDatasetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ListDatasetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 916 def list_datasets(page_size: nil, page_token: nil, project_number: nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::ListDatasetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ListDatasetsResponse command.query['pageSize'] = page_size unless page_size.nil? command.query['pageToken'] = page_token unless page_token.nil? command.query['projectNumber'] = project_number unless project_number.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Lists the bases in a reference, optionally restricted to a range. Implements GlobalAllianceApi.getReferenceBases. @param [String] reference_id
The ID of the reference.
@param [String] end_position
The end position (0-based, exclusive) of this query. Defaults to the length of this reference.
@param [Fixnum] page_size
Specifies the maximum number of bases to return in a single page.
@param [String] page_token
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.
@param [String] start_position
The start position (0-based) of this query. Defaults to 0.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ListBasesResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ListBasesResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1758 def list_reference_bases(reference_id, end_position: nil, page_size: nil, page_token: nil, start_position: nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'references/{referenceId}/bases' command = make_simple_command(:get, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::ListBasesResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::ListBasesResponse command.params['referenceId'] = reference_id unless reference_id.nil? command.query['end'] = end_position unless end_position.nil? command.query['pageSize'] = page_size unless page_size.nil? command.query['pageToken'] = page_token unless page_token.nil? command.query['start'] = start_position unless start_position.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Merges the given variants with existing variants. Each variant will be merged with an existing variant that matches its reference sequence, start, end, reference bases, and alternative bases. If no such variant exists, a new one will be created. When variants are merged, the call information from the new variant is added to the existing variant, and other fields (such as key/value pairs) are discarded. @param [String] variant_set_id
The destination variant set.
@param [Google::Apis::GenomicsV1beta2::MergeVariantsRequest] merge_variants_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [NilClass] No result returned for this method @yieldparam err [StandardError] error object if request failed
@return [void]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2254 def merge_variants(variant_set_id, merge_variants_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}/mergeVariants' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::MergeVariantsRequest::Representation command.request_object = merge_variants_request_object command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates an annotation. The update must respect all mutability restrictions and other invariants described on the annotation resource. Caller must have WRITE permission for the associated dataset. This method supports patch semantics. @param [String] annotation_id
The ID of the annotation set to be updated.
@param [Google::Apis::GenomicsV1beta2::Annotation] annotation_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Annotation] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Annotation]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 464 def patch_annotation(annotation_id, annotation_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations/{annotationId}' command = make_simple_command(:patch, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.request_object = annotation_object command.response_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.response_class = Google::Apis::GenomicsV1beta2::Annotation command.params['annotationId'] = annotation_id unless annotation_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates an annotation set. The update must respect all mutability restrictions and other invariants described on the annotation set resource. Caller must have WRITE permission for the associated dataset. This method supports patch semantics. @param [String] annotation_set_id
The ID of the annotation set to be updated.
@param [Google::Apis::GenomicsV1beta2::AnnotationSet] annotation_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::AnnotationSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::AnnotationSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 192 def patch_annotation_set(annotation_set_id, annotation_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotationSets/{annotationSetId}' command = make_simple_command(:patch, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.request_object = annotation_set_object command.response_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::AnnotationSet command.params['annotationSetId'] = annotation_set_id unless annotation_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a call set. This method supports patch semantics. @param [String] call_set_id
The ID of the call set to be updated.
@param [Google::Apis::GenomicsV1beta2::CallSet] call_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::CallSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::CallSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 689 def patch_call_set(call_set_id, call_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'callsets/{callSetId}' command = make_simple_command(:patch, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.request_object = call_set_object command.response_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::CallSet command.params['callSetId'] = call_set_id unless call_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a dataset. This method supports patch semantics. @param [String] dataset_id
The ID of the dataset to be updated.
@param [Google::Apis::GenomicsV1beta2::Dataset] dataset_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Dataset] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Dataset]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 955 def patch_dataset(dataset_id, dataset_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets/{datasetId}' command = make_simple_command(:patch, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.request_object = dataset_object command.response_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.response_class = Google::Apis::GenomicsV1beta2::Dataset command.params['datasetId'] = dataset_id unless dataset_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a read group set. This method supports patch semantics. @param [String] read_group_set_id
The ID of the read group set to be updated. The caller must have WRITE permissions to the dataset associated with this read group set.
@param [Google::Apis::GenomicsV1beta2::ReadGroupSet] read_group_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ReadGroupSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ReadGroupSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1441 def patch_read_group_set(read_group_set_id, read_group_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/{readGroupSetId}' command = make_simple_command(:patch, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ReadGroupSet::Representation command.request_object = read_group_set_object command.response_representation = Google::Apis::GenomicsV1beta2::ReadGroupSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::ReadGroupSet command.params['readGroupSetId'] = read_group_set_id unless read_group_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a variant set's metadata. All other modifications are silently ignored. This method supports patch semantics. @param [String] variant_set_id
The ID of the variant to be updated (must already exist).
@param [Google::Apis::GenomicsV1beta2::VariantSet] variant_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::VariantSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::VariantSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2292 def patch_variantset(variant_set_id, variant_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}' command = make_simple_command(:patch, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.request_object = variant_set_object command.response_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::VariantSet command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Searches for annotation sets that match the given criteria. Results are returned in a deterministic order. Caller must have READ permission for the queried datasets. @param [Google::Apis::GenomicsV1beta2::SearchAnnotationSetsRequest] search_annotation_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchAnnotationSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchAnnotationSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 231 def search_annotation_sets(search_annotation_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotationSets/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchAnnotationSetsRequest::Representation command.request_object = search_annotation_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchAnnotationSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchAnnotationSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Searches for annotations that match the given criteria. Results are returned ordered by start position. Annotations that have matching start positions are ordered deterministically. Caller must have READ permission for the queried annotation sets. @param [Google::Apis::GenomicsV1beta2::SearchAnnotationsRequest] search_annotations_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchAnnotationsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchAnnotationsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 504 def search_annotations(search_annotations_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchAnnotationsRequest::Representation command.request_object = search_annotations_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchAnnotationsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchAnnotationsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a list of call sets matching the criteria. Implements GlobalAllianceApi.searchCallSets. @param [Google::Apis::GenomicsV1beta2::SearchCallSetsRequest] search_call_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchCallSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchCallSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 727 def search_call_sets(search_call_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'callsets/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchCallSetsRequest::Representation command.request_object = search_call_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchCallSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchCallSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a list of jobs matching the criteria. @param [Google::Apis::GenomicsV1beta2::SearchJobsRequest] search_jobs_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchJobsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchJobsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1176 def search_jobs(search_jobs_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'jobs/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchJobsRequest::Representation command.request_object = search_jobs_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchJobsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchJobsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Searches for read group sets matching the criteria. Implements GlobalAllianceApi.searchReadGroupSets. @param [Google::Apis::GenomicsV1beta2::SearchReadGroupSetsRequest] search_read_group_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchReadGroupSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchReadGroupSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1479 def search_read_group_sets(search_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchReadGroupSetsRequest::Representation command.request_object = search_read_group_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchReadGroupSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchReadGroupSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a list of reads for one or more read group sets. Reads search operates over a genomic coordinate space of reference sequence & position defined over the reference sequences to which the requested read group sets are aligned. If a target positional range is specified, search returns all reads whose alignment to the reference genome overlap the range. A query which specifies only read group set IDs yields all reads in those read group sets, including unmapped reads. All reads returned (including reads on subsequent pages) are ordered by genomic coordinate (reference sequence & position). Reads with equivalent genomic coordinates are returned in a deterministic order. Implements GlobalAllianceApi.searchReads. @param [Google::Apis::GenomicsV1beta2::SearchReadsRequest] search_reads_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchReadsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchReadsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1635 def search_reads(search_reads_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'reads/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchReadsRequest::Representation command.request_object = search_reads_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchReadsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchReadsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Searches for reference sets which match the given criteria. Implements GlobalAllianceApi.searchReferenceSets. @param [Google::Apis::GenomicsV1beta2::SearchReferenceSetsRequest] search_reference_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchReferenceSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchReferenceSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1835 def search_reference_sets(search_reference_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'referencesets/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchReferenceSetsRequest::Representation command.request_object = search_reference_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchReferenceSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchReferenceSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Searches for references which match the given criteria. Implements GlobalAllianceApi.searchReferences. @param [Google::Apis::GenomicsV1beta2::SearchReferencesRequest] search_references_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchReferencesResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchReferencesResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1709 def search_references(search_references_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'references/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchReferencesRequest::Representation command.request_object = search_references_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchReferencesResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchReferencesResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Returns a list of all variant sets matching search criteria. Implements GlobalAllianceApi.searchVariantSets. @param [Google::Apis::GenomicsV1beta2::SearchVariantSetsRequest] search_variant_sets_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchVariantSetsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchVariantSetsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2330 def search_variant_sets(search_variant_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchVariantSetsRequest::Representation command.request_object = search_variant_sets_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchVariantSetsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchVariantSetsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Gets a list of variants matching the criteria. Implements GlobalAllianceApi.searchVariants. @param [Google::Apis::GenomicsV1beta2::SearchVariantsRequest] search_variants_request_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::SearchVariantsResponse] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::SearchVariantsResponse]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1978 def search_variants(search_variants_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variants/search' command = make_simple_command(:post, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::SearchVariantsRequest::Representation command.request_object = search_variants_request_object command.response_representation = Google::Apis::GenomicsV1beta2::SearchVariantsResponse::Representation command.response_class = Google::Apis::GenomicsV1beta2::SearchVariantsResponse command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Undeletes a dataset by restoring a dataset which was deleted via this API. This operation is only possible for a week after the deletion occurred. @param [String] dataset_id
The ID of the dataset to be undeleted.
@param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Dataset] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Dataset]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 994 def undelete_dataset(dataset_id, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets/{datasetId}/undelete' command = make_simple_command(:post, path, options) command.response_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.response_class = Google::Apis::GenomicsV1beta2::Dataset command.params['datasetId'] = dataset_id unless dataset_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates an annotation. The update must respect all mutability restrictions and other invariants described on the annotation resource. Caller must have WRITE permission for the associated dataset. @param [String] annotation_id
The ID of the annotation set to be updated.
@param [Google::Apis::GenomicsV1beta2::Annotation] annotation_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Annotation] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Annotation]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 544 def update_annotation(annotation_id, annotation_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotations/{annotationId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.request_object = annotation_object command.response_representation = Google::Apis::GenomicsV1beta2::Annotation::Representation command.response_class = Google::Apis::GenomicsV1beta2::Annotation command.params['annotationId'] = annotation_id unless annotation_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates an annotation set. The update must respect all mutability restrictions and other invariants described on the annotation set resource. Caller must have WRITE permission for the associated dataset. @param [String] annotation_set_id
The ID of the annotation set to be updated.
@param [Google::Apis::GenomicsV1beta2::AnnotationSet] annotation_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::AnnotationSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::AnnotationSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 271 def update_annotation_set(annotation_set_id, annotation_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'annotationSets/{annotationSetId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.request_object = annotation_set_object command.response_representation = Google::Apis::GenomicsV1beta2::AnnotationSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::AnnotationSet command.params['annotationSetId'] = annotation_set_id unless annotation_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a call set. @param [String] call_set_id
The ID of the call set to be updated.
@param [Google::Apis::GenomicsV1beta2::CallSet] call_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::CallSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::CallSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 765 def update_call_set(call_set_id, call_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'callsets/{callSetId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.request_object = call_set_object command.response_representation = Google::Apis::GenomicsV1beta2::CallSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::CallSet command.params['callSetId'] = call_set_id unless call_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a dataset. @param [String] dataset_id
The ID of the dataset to be updated.
@param [Google::Apis::GenomicsV1beta2::Dataset] dataset_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Dataset] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Dataset]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1031 def update_dataset(dataset_id, dataset_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'datasets/{datasetId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.request_object = dataset_object command.response_representation = Google::Apis::GenomicsV1beta2::Dataset::Representation command.response_class = Google::Apis::GenomicsV1beta2::Dataset command.params['datasetId'] = dataset_id unless dataset_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a read group set. @param [String] read_group_set_id
The ID of the read group set to be updated. The caller must have WRITE permissions to the dataset associated with this read group set.
@param [Google::Apis::GenomicsV1beta2::ReadGroupSet] read_group_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::ReadGroupSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::ReadGroupSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 1518 def update_read_group_set(read_group_set_id, read_group_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'readgroupsets/{readGroupSetId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::ReadGroupSet::Representation command.request_object = read_group_set_object command.response_representation = Google::Apis::GenomicsV1beta2::ReadGroupSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::ReadGroupSet command.params['readGroupSetId'] = read_group_set_id unless read_group_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a variant's names and info fields. All other modifications are silently ignored. Returns the modified variant without its calls. @param [String] variant_id
The ID of the variant to be updated.
@param [Google::Apis::GenomicsV1beta2::Variant] variant_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::Variant] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::Variant]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2017 def update_variant(variant_id, variant_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variants/{variantId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::Variant::Representation command.request_object = variant_object command.response_representation = Google::Apis::GenomicsV1beta2::Variant::Representation command.response_class = Google::Apis::GenomicsV1beta2::Variant command.params['variantId'] = variant_id unless variant_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Updates a variant set's metadata. All other modifications are silently ignored. @param [String] variant_set_id
The ID of the variant to be updated (must already exist).
@param [Google::Apis::GenomicsV1beta2::VariantSet] variant_set_object @param [String] fields
Selector specifying which fields to include in a partial response.
@param [String] #quota_user
Available to use for quota purposes for server-side applications. Can be any arbitrary string assigned to a user, but should not exceed 40 characters. Overrides userIp if both are provided.
@param [String] #user_ip
IP address of the site where the request originates. Use this if you want to enforce per-user limits.
@param [Google::Apis::RequestOptions] options
Request-specific options
@yield [result, err] Result & error if block supplied @yieldparam result [Google::Apis::GenomicsV1beta2::VariantSet] parsed result object @yieldparam err [StandardError] error object if request failed
@return [Google::Apis::GenomicsV1beta2::VariantSet]
@raise [Google::Apis::ServerError] An error occurred on the server and the request can be retried @raise [Google::Apis::ClientError] The request is invalid and should not be retried without modification @raise [Google::Apis::AuthorizationError] Authorization is required
# File generated/google/apis/genomics_v1beta2/service.rb, line 2368 def update_variantset(variant_set_id, variant_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil, &block) path = 'variantsets/{variantSetId}' command = make_simple_command(:put, path, options) command.request_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.request_object = variant_set_object command.response_representation = Google::Apis::GenomicsV1beta2::VariantSet::Representation command.response_class = Google::Apis::GenomicsV1beta2::VariantSet command.params['variantSetId'] = variant_set_id unless variant_set_id.nil? command.query['fields'] = fields unless fields.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? execute_or_queue_command(command, &block) end
Protected Instance Methods
# File generated/google/apis/genomics_v1beta2/service.rb, line 2384 def apply_command_defaults(command) command.query['key'] = key unless key.nil? command.query['quotaUser'] = quota_user unless quota_user.nil? command.query['userIp'] = user_ip unless user_ip.nil? end