Class: Google::Apis::GenomicsV1beta2::GenomicsService

Inherits:
Core::BaseService show all
Defined in:
generated/google/apis/genomics_v1beta2/service.rb

Overview

Genomics API

Provides access to Genomics data.

Examples:

require 'google/apis/genomics_v1beta2'

Genomics = Google::Apis::GenomicsV1beta2 # Alias the module
service = Genomics::GenomicsService.new

See Also:

Instance Attribute Summary collapse

Attributes inherited from Core::BaseService

#authorization, #base_path, #batch_path, #client, #client_options, #request_options, #root_url, #upload_path

Instance Method Summary collapse

Methods inherited from Core::BaseService

#batch, #batch_upload, #fetch_all, #http

Methods included from Core::Logging

#logger

Constructor Details

#initialize ⇒ GenomicsService

Returns a new instance of GenomicsService



51
52
53
 
# File 'generated/google/apis/genomics_v1beta2/service.rb', line 51

def initialize
  super('https://www.googleapis.com/', 'genomics/v1beta2/')
end

Instance Attribute Details

#key ⇒ String

Returns 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.

Returns:

  • (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.



38
39
40
 
# File 'generated/google/apis/genomics_v1beta2/service.rb', line 38

def key
  @key
end

#quota_user ⇒ String

Returns 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.

Returns:

  • (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.



44
45
46
 
# File 'generated/google/apis/genomics_v1beta2/service.rb', line 44

def quota_user
  @quota_user
end

#user_ip ⇒ String

Returns IP address of the site where the request originates. Use this if you want to enforce per-user limits.

Returns:

  • (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.



49
50
51
 
# File 'generated/google/apis/genomics_v1beta2/service.rb', line 49

def user_ip
  @user_ip
end

Instance Method Details

#align_read_group_sets(align_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::AlignReadGroupSetsResponse

Aligns read data from existing read group sets or files from Google Cloud Storage. See the alignment and variant calling documentation for more details.

Parameters:

  • align_read_group_sets_request_object (Google::Apis::GenomicsV1beta2::AlignReadGroupSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1213
1214
1215
1216
1217
1218
1219
1220
1221
1222
1223
1224
 
# 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

#batch_create_annotations(batch_create_annotations_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::BatchAnnotationsResponse

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.

Parameters:

  • batch_create_annotations_request_object (Google::Apis::GenomicsV1beta2::BatchCreateAnnotationsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



315
316
317
318
319
320
321
322
323
324
325
326
 
# 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

#call_read_group_sets(call_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::CallReadGroupSetsResponse

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.

Parameters:

  • call_read_group_sets_request_object (Google::Apis::GenomicsV1beta2::CallReadGroupSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1251
1252
1253
1254
1255
1256
1257
1258
1259
1260
1261
1262
 
# 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

#cancel_job(job_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Cancels a job by ID. Note that it is possible for partial results to be generated and stored for cancelled jobs.

Parameters:

  • job_id (String) —

    Required. The ID of the job.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



1107
1108
1109
1110
1111
1112
1113
1114
1115
 
# 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

#create_annotation(annotation_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Annotation

Creates a new annotation. Caller must have WRITE permission for the associated annotation set.

Parameters:

  • annotation_object (Google::Apis::GenomicsV1beta2::Annotation) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



352
353
354
355
356
357
358
359
360
361
362
363
 
# 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

#create_annotation_set(annotation_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::AnnotationSet

Creates a new annotation set. Caller must have WRITE permission for the associated dataset.

Parameters:

  • annotation_set_object (Google::Apis::GenomicsV1beta2::AnnotationSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



79
80
81
82
83
84
85
86
87
88
89
90
 
# 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

#create_call_set(call_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::CallSet

Creates a new call set.

Parameters:

  • call_set_object (Google::Apis::GenomicsV1beta2::CallSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



581
582
583
584
585
586
587
588
589
590
591
592
 
# 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

#create_dataset(dataset_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Dataset

Creates a new dataset.

Parameters:

  • dataset_object (Google::Apis::GenomicsV1beta2::Dataset) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



802
803
804
805
806
807
808
809
810
811
812
813
 
# 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

#create_experimental_job(experimental_create_job_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ExperimentalCreateJobResponse

Creates and asynchronously runs an ad-hoc job. This is an experimental call and may be removed or changed at any time.

Parameters:

  • experimental_create_job_request_object (Google::Apis::GenomicsV1beta2::ExperimentalCreateJobRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1069
1070
1071
1072
1073
1074
1075
1076
1077
1078
1079
1080
 
# 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

#create_variant(variant_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Variant

Creates a new variant.

Parameters:

  • variant_object (Google::Apis::GenomicsV1beta2::Variant) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1871
1872
1873
1874
1875
1876
1877
1878
1879
1880
1881
1882
 
# 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

#create_variantset(variant_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::VariantSet

Creates a new variant set (only necessary in v1).

Parameters:

  • variant_set_object (Google::Apis::GenomicsV1beta2::VariantSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2054
2055
2056
2057
2058
2059
2060
2061
2062
2063
2064
2065
 
# 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

#delete_annotation(annotation_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes an annotation. Caller must have WRITE permission for the associated annotation set.

Parameters:

  • annotation_id (String) —

    The ID of the annotation set to be deleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



390
391
392
393
394
395
396
397
398
 
# 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

#delete_annotation_set(annotation_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes an annotation set. Caller must have WRITE permission for the associated annotation set.

Parameters:

  • annotation_set_id (String) —

    The ID of the annotation set to be deleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



117
118
119
120
121
122
123
124
125
 
# 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

#delete_call_set(call_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes a call set.

Parameters:

  • call_set_id (String) —

    The ID of the call set to be deleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



618
619
620
621
622
623
624
625
626
 
# 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

#delete_dataset(dataset_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes a dataset.

Parameters:

  • dataset_id (String) —

    The ID of the dataset to be deleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



839
840
841
842
843
844
845
846
847
 
# 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

#delete_read_group_set(read_group_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes a read group set.

Parameters:

  • read_group_set_id (String) —

    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.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



1289
1290
1291
1292
1293
1294
1295
1296
1297
 
# 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

#delete_variant(variant_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes a variant.

Parameters:

  • variant_id (String) —

    The ID of the variant to be deleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



1908
1909
1910
1911
1912
1913
1914
1915
1916
 
# 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

#delete_variantset(variant_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

Deletes the contents of a variant set. The variant set object is not deleted.

Parameters:

  • variant_set_id (String) —

    The ID of the variant set to be deleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



2091
2092
2093
2094
2095
2096
2097
2098
2099
 
# 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

#export_read_group_sets(export_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ExportReadGroupSetsResponse

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.

Parameters:

  • export_read_group_sets_request_object (Google::Apis::GenomicsV1beta2::ExportReadGroupSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1327
1328
1329
1330
1331
1332
1333
1334
1335
1336
1337
1338
 
# 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

#export_variant_set(variant_set_id, export_variant_set_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ExportVariantSetResponse

Exports variant set data to an external destination.

Parameters:

  • variant_set_id (String) —

    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.

  • export_variant_set_request_object (Google::Apis::GenomicsV1beta2::ExportVariantSetRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2127
2128
2129
2130
2131
2132
2133
2134
2135
2136
2137
2138
2139
 
# 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

#get_annotation(annotation_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Annotation

Gets an annotation. Caller must have READ permission for the associated annotation set.

Parameters:

  • annotation_id (String) —

    The ID of the annotation set to be retrieved.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



425
426
427
428
429
430
431
432
433
434
435
 
# 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

#get_annotation_set(annotation_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::AnnotationSet

Gets an annotation set. Caller must have READ permission for the associated dataset.

Parameters:

  • annotation_set_id (String) —

    The ID of the annotation set to be retrieved.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



152
153
154
155
156
157
158
159
160
161
162
 
# 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

#get_call_set(call_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::CallSet

Gets a call set by ID.

Parameters:

  • call_set_id (String) —

    The ID of the call set.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



652
653
654
655
656
657
658
659
660
661
662
 
# 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

#get_dataset(dataset_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Dataset

Gets a dataset by ID.

Parameters:

  • dataset_id (String) —

    The ID of the dataset.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



873
874
875
876
877
878
879
880
881
882
883
 
# 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

#get_job(job_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Job

Gets a job by ID.

Parameters:

  • job_id (String) —

    Required. The ID of the job.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1141
1142
1143
1144
1145
1146
1147
1148
1149
1150
1151
 
# 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

#get_read_group_set(read_group_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ReadGroupSet

Gets a read group set by ID.

Parameters:

  • read_group_set_id (String) —

    The ID of the read group set.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1364
1365
1366
1367
1368
1369
1370
1371
1372
1373
1374
 
# 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

#get_reference(reference_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Reference

Gets a reference. Implements GlobalAllianceApi.getReference.

Parameters:

  • reference_id (String) —

    The ID of the reference.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1673
1674
1675
1676
1677
1678
1679
1680
1681
1682
1683
 
# 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

#get_reference_set(reference_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ReferenceSet

Gets a reference set. Implements GlobalAllianceApi.getReferenceSet.

Parameters:

  • reference_set_id (String) —

    The ID of the reference set.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1799
1800
1801
1802
1803
1804
1805
1806
1807
1808
1809
 
# 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

#get_variant(variant_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Variant

Gets a variant by ID.

Parameters:

  • variant_id (String) —

    The ID of the variant.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1942
1943
1944
1945
1946
1947
1948
1949
1950
1951
1952
 
# 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

#get_variantset(variant_set_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::VariantSet

Gets a variant set by ID.

Parameters:

  • variant_set_id (String) —

    Required. The ID of the variant set.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2165
2166
2167
2168
2169
2170
2171
2172
2173
2174
2175
 
# 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

#import_read_group_sets(import_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ImportReadGroupSetsResponse

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.

Parameters:

  • import_read_group_sets_request_object (Google::Apis::GenomicsV1beta2::ImportReadGroupSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1402
1403
1404
1405
1406
1407
1408
1409
1410
1411
1412
1413
 
# 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

#import_variants(variant_set_id, import_variants_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ImportVariantsResponse

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.

Parameters:

  • variant_set_id (String) —

    Required. The variant set to which variant data should be imported.

  • import_variants_request_object (Google::Apis::GenomicsV1beta2::ImportVariantsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2209
2210
2211
2212
2213
2214
2215
2216
2217
2218
2219
2220
2221
 
# 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

#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) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ListCoverageBucketsResponse

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.

Parameters:

  • read_group_set_id (String) —

    Required. The ID of the read group set over which coverage is requested.

  • page_size (Fixnum) —

    The maximum number of results to return in a single page. If unspecified, defaults to 1024. The maximum value is 2048.

  • page_token (String) —

    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.

  • range_end (String) —

    The end position of the range on the reference, 0-based exclusive. If specified, referenceName must also be specified.

  • range_reference_name (String) —

    The reference sequence name, for example chr1, 1, or chrX.

  • range_start (String) —

    The start position of the range on the reference, 0-based inclusive. If specified, referenceName must also be specified.

  • target_bucket_width (String) —

    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.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1584
1585
1586
1587
1588
1589
1590
1591
1592
1593
1594
1595
1596
1597
1598
1599
1600
 
# 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

#list_datasets(page_size: nil, page_token: nil, project_number: nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ListDatasetsResponse

Lists datasets within a project.

Parameters:

  • page_size (Fixnum) —

    The maximum number of results returned by this request. If unspecified, defaults to 50.

  • page_token (String) —

    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.

  • project_number (String) —

    Required. The project to list datasets for.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



916
917
918
919
920
921
922
923
924
925
926
927
928
 
# 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

#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) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ListBasesResponse

Lists the bases in a reference, optionally restricted to a range. Implements GlobalAllianceApi.getReferenceBases.

Parameters:

  • reference_id (String) —

    The ID of the reference.

  • end_position (String) —

    The end position (0-based, exclusive) of this query. Defaults to the length of this reference.

  • page_size (Fixnum) —

    Specifies the maximum number of bases to return in a single page.

  • page_token (String) —

    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.

  • start_position (String) —

    The start position (0-based) of this query. Defaults to 0.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1758
1759
1760
1761
1762
1763
1764
1765
1766
1767
1768
1769
1770
1771
1772
 
# 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

#merge_variants(variant_set_id, merge_variants_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... }

This method returns an undefined value.

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.

Parameters:

  • variant_set_id (String) —

    The destination variant set.

  • merge_variants_request_object (Google::Apis::GenomicsV1beta2::MergeVariantsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

  • result (NilClass) —

    No result returned for this method

  • err (StandardError) —

    error object if request failed

Raises:



2254
2255
2256
2257
2258
2259
2260
2261
2262
2263
2264
 
# 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

#patch_annotation(annotation_id, annotation_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Annotation

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.

Parameters:

  • annotation_id (String) —

    The ID of the annotation set to be updated.

  • annotation_object (Google::Apis::GenomicsV1beta2::Annotation) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



464
465
466
467
468
469
470
471
472
473
474
475
476
 
# 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

#patch_annotation_set(annotation_set_id, annotation_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::AnnotationSet

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.

Parameters:

  • annotation_set_id (String) —

    The ID of the annotation set to be updated.

  • annotation_set_object (Google::Apis::GenomicsV1beta2::AnnotationSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



192
193
194
195
196
197
198
199
200
201
202
203
204
 
# 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

#patch_call_set(call_set_id, call_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::CallSet

Updates a call set. This method supports patch semantics.

Parameters:

  • call_set_id (String) —

    The ID of the call set to be updated.

  • call_set_object (Google::Apis::GenomicsV1beta2::CallSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



689
690
691
692
693
694
695
696
697
698
699
700
701
 
# 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

#patch_dataset(dataset_id, dataset_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Dataset

Updates a dataset. This method supports patch semantics.

Parameters:

  • dataset_id (String) —

    The ID of the dataset to be updated.

  • dataset_object (Google::Apis::GenomicsV1beta2::Dataset) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



955
956
957
958
959
960
961
962
963
964
965
966
967
 
# 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

#patch_read_group_set(read_group_set_id, read_group_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ReadGroupSet

Updates a read group set. This method supports patch semantics.

Parameters:

  • read_group_set_id (String) —

    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.

  • read_group_set_object (Google::Apis::GenomicsV1beta2::ReadGroupSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1441
1442
1443
1444
1445
1446
1447
1448
1449
1450
1451
1452
1453
 
# 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

#patch_variantset(variant_set_id, variant_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::VariantSet

Updates a variant set's metadata. All other modifications are silently ignored. This method supports patch semantics.

Parameters:

  • variant_set_id (String) —

    The ID of the variant to be updated (must already exist).

  • variant_set_object (Google::Apis::GenomicsV1beta2::VariantSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2292
2293
2294
2295
2296
2297
2298
2299
2300
2301
2302
2303
2304
 
# 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

#search_annotation_sets(search_annotation_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchAnnotationSetsResponse

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.

Parameters:

  • search_annotation_sets_request_object (Google::Apis::GenomicsV1beta2::SearchAnnotationSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



231
232
233
234
235
236
237
238
239
240
241
242
 
# 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

#search_annotations(search_annotations_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchAnnotationsResponse

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.

Parameters:

  • search_annotations_request_object (Google::Apis::GenomicsV1beta2::SearchAnnotationsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



504
505
506
507
508
509
510
511
512
513
514
515
 
# 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

#search_call_sets(search_call_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchCallSetsResponse

Gets a list of call sets matching the criteria. Implements GlobalAllianceApi.searchCallSets.

Parameters:

  • search_call_sets_request_object (Google::Apis::GenomicsV1beta2::SearchCallSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



727
728
729
730
731
732
733
734
735
736
737
738
 
# 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

#search_jobs(search_jobs_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchJobsResponse

Gets a list of jobs matching the criteria.

Parameters:

  • search_jobs_request_object (Google::Apis::GenomicsV1beta2::SearchJobsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1176
1177
1178
1179
1180
1181
1182
1183
1184
1185
1186
1187
 
# 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

#search_read_group_sets(search_read_group_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchReadGroupSetsResponse

Searches for read group sets matching the criteria. Implements GlobalAllianceApi.searchReadGroupSets.

Parameters:

  • search_read_group_sets_request_object (Google::Apis::GenomicsV1beta2::SearchReadGroupSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1479
1480
1481
1482
1483
1484
1485
1486
1487
1488
1489
1490
 
# 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

#search_reads(search_reads_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchReadsResponse

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.

Parameters:

  • search_reads_request_object (Google::Apis::GenomicsV1beta2::SearchReadsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1635
1636
1637
1638
1639
1640
1641
1642
1643
1644
1645
1646
 
# 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

#search_reference_sets(search_reference_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchReferenceSetsResponse

Searches for reference sets which match the given criteria. Implements GlobalAllianceApi.searchReferenceSets.

Parameters:

  • search_reference_sets_request_object (Google::Apis::GenomicsV1beta2::SearchReferenceSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1835
1836
1837
1838
1839
1840
1841
1842
1843
1844
1845
1846
 
# 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

#search_references(search_references_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchReferencesResponse

Searches for references which match the given criteria. Implements GlobalAllianceApi.searchReferences.

Parameters:

  • search_references_request_object (Google::Apis::GenomicsV1beta2::SearchReferencesRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1709
1710
1711
1712
1713
1714
1715
1716
1717
1718
1719
1720
 
# 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

#search_variant_sets(search_variant_sets_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchVariantSetsResponse

Returns a list of all variant sets matching search criteria. Implements GlobalAllianceApi.searchVariantSets.

Parameters:

  • search_variant_sets_request_object (Google::Apis::GenomicsV1beta2::SearchVariantSetsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2330
2331
2332
2333
2334
2335
2336
2337
2338
2339
2340
2341
 
# 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

#search_variants(search_variants_request_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::SearchVariantsResponse

Gets a list of variants matching the criteria. Implements GlobalAllianceApi.searchVariants.

Parameters:

  • search_variants_request_object (Google::Apis::GenomicsV1beta2::SearchVariantsRequest) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1978
1979
1980
1981
1982
1983
1984
1985
1986
1987
1988
1989
 
# 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

#undelete_dataset(dataset_id, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Dataset

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.

Parameters:

  • dataset_id (String) —

    The ID of the dataset to be undeleted.

  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



994
995
996
997
998
999
1000
1001
1002
1003
1004
 
# 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

#update_annotation(annotation_id, annotation_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Annotation

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.

Parameters:

  • annotation_id (String) —

    The ID of the annotation set to be updated.

  • annotation_object (Google::Apis::GenomicsV1beta2::Annotation) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



544
545
546
547
548
549
550
551
552
553
554
555
556
 
# 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

#update_annotation_set(annotation_set_id, annotation_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::AnnotationSet

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.

Parameters:

  • annotation_set_id (String) —

    The ID of the annotation set to be updated.

  • annotation_set_object (Google::Apis::GenomicsV1beta2::AnnotationSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



271
272
273
274
275
276
277
278
279
280
281
282
283
 
# 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

#update_call_set(call_set_id, call_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::CallSet

Updates a call set.

Parameters:

  • call_set_id (String) —

    The ID of the call set to be updated.

  • call_set_object (Google::Apis::GenomicsV1beta2::CallSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



765
766
767
768
769
770
771
772
773
774
775
776
777
 
# 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

#update_dataset(dataset_id, dataset_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Dataset

Updates a dataset.

Parameters:

  • dataset_id (String) —

    The ID of the dataset to be updated.

  • dataset_object (Google::Apis::GenomicsV1beta2::Dataset) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1031
1032
1033
1034
1035
1036
1037
1038
1039
1040
1041
1042
1043
 
# 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

#update_read_group_set(read_group_set_id, read_group_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::ReadGroupSet

Updates a read group set.

Parameters:

  • read_group_set_id (String) —

    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.

  • read_group_set_object (Google::Apis::GenomicsV1beta2::ReadGroupSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



1518
1519
1520
1521
1522
1523
1524
1525
1526
1527
1528
1529
1530
 
# 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

#update_variant(variant_id, variant_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::Variant

Updates a variant's names and info fields. All other modifications are silently ignored. Returns the modified variant without its calls.

Parameters:

  • variant_id (String) —

    The ID of the variant to be updated.

  • variant_object (Google::Apis::GenomicsV1beta2::Variant) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2017
2018
2019
2020
2021
2022
2023
2024
2025
2026
2027
2028
2029
 
# 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

#update_variantset(variant_set_id, variant_set_object = nil, fields: nil, quota_user: nil, user_ip: nil, options: nil) {|result, err| ... } ⇒ Google::Apis::GenomicsV1beta2::VariantSet

Updates a variant set's metadata. All other modifications are silently ignored.

Parameters:

  • variant_set_id (String) —

    The ID of the variant to be updated (must already exist).

  • variant_set_object (Google::Apis::GenomicsV1beta2::VariantSet) (defaults to: nil)
  • fields (String) —

    Selector specifying which fields to include in a partial response.

  • quota_user (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.

  • user_ip (String) —

    IP address of the site where the request originates. Use this if you want to enforce per-user limits.

  • options (Google::Apis::RequestOptions) —

    Request-specific options

Yields:

  • (result, err) —

    Result & error if block supplied

Yield Parameters:

Returns:

Raises:



2368
2369
2370
2371
2372
2373
2374
2375
2376
2377
2378
2379
2380
 
# 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