blob: c27aecef34864afceba9d8f56069056ca90fbda0 [file] [log] [blame]
// Package genomics provides access to the Genomics API.
//
// Usage example:
//
// import "google.golang.org/api/genomics/v1"
// ...
// genomicsService, err := genomics.New(oauthHttpClient)
package genomics // import "google.golang.org/api/genomics/v1"
import (
"bytes"
"encoding/json"
"errors"
"fmt"
context "golang.org/x/net/context"
ctxhttp "golang.org/x/net/context/ctxhttp"
gensupport "google.golang.org/api/gensupport"
googleapi "google.golang.org/api/googleapi"
"io"
"net/http"
"net/url"
"strconv"
"strings"
)
// Always reference these packages, just in case the auto-generated code
// below doesn't.
var _ = bytes.NewBuffer
var _ = strconv.Itoa
var _ = fmt.Sprintf
var _ = json.NewDecoder
var _ = io.Copy
var _ = url.Parse
var _ = gensupport.MarshalJSON
var _ = googleapi.Version
var _ = errors.New
var _ = strings.Replace
var _ = context.Canceled
var _ = ctxhttp.Do
const apiId = "genomics:v1"
const apiName = "genomics"
const apiVersion = "v1"
const basePath = "https://genomics.googleapis.com/"
// OAuth2 scopes used by this API.
const (
// View and manage your data in Google BigQuery
BigqueryScope = "https://www.googleapis.com/auth/bigquery"
// View and manage your data across Google Cloud Platform services
CloudPlatformScope = "https://www.googleapis.com/auth/cloud-platform"
// Manage your data in Google Cloud Storage
DevstorageReadWriteScope = "https://www.googleapis.com/auth/devstorage.read_write"
// View and manage Genomics data
GenomicsScope = "https://www.googleapis.com/auth/genomics"
// View Genomics data
GenomicsReadonlyScope = "https://www.googleapis.com/auth/genomics.readonly"
)
func New(client *http.Client) (*Service, error) {
if client == nil {
return nil, errors.New("client is nil")
}
s := &Service{client: client, BasePath: basePath}
s.Callsets = NewCallsetsService(s)
s.Datasets = NewDatasetsService(s)
s.Operations = NewOperationsService(s)
s.Readgroupsets = NewReadgroupsetsService(s)
s.Reads = NewReadsService(s)
s.References = NewReferencesService(s)
s.Referencesets = NewReferencesetsService(s)
s.Variants = NewVariantsService(s)
s.Variantsets = NewVariantsetsService(s)
return s, nil
}
type Service struct {
client *http.Client
BasePath string // API endpoint base URL
UserAgent string // optional additional User-Agent fragment
Callsets *CallsetsService
Datasets *DatasetsService
Operations *OperationsService
Readgroupsets *ReadgroupsetsService
Reads *ReadsService
References *ReferencesService
Referencesets *ReferencesetsService
Variants *VariantsService
Variantsets *VariantsetsService
}
func (s *Service) userAgent() string {
if s.UserAgent == "" {
return googleapi.UserAgent
}
return googleapi.UserAgent + " " + s.UserAgent
}
func NewCallsetsService(s *Service) *CallsetsService {
rs := &CallsetsService{s: s}
return rs
}
type CallsetsService struct {
s *Service
}
func NewDatasetsService(s *Service) *DatasetsService {
rs := &DatasetsService{s: s}
return rs
}
type DatasetsService struct {
s *Service
}
func NewOperationsService(s *Service) *OperationsService {
rs := &OperationsService{s: s}
return rs
}
type OperationsService struct {
s *Service
}
func NewReadgroupsetsService(s *Service) *ReadgroupsetsService {
rs := &ReadgroupsetsService{s: s}
rs.Coveragebuckets = NewReadgroupsetsCoveragebucketsService(s)
return rs
}
type ReadgroupsetsService struct {
s *Service
Coveragebuckets *ReadgroupsetsCoveragebucketsService
}
func NewReadgroupsetsCoveragebucketsService(s *Service) *ReadgroupsetsCoveragebucketsService {
rs := &ReadgroupsetsCoveragebucketsService{s: s}
return rs
}
type ReadgroupsetsCoveragebucketsService struct {
s *Service
}
func NewReadsService(s *Service) *ReadsService {
rs := &ReadsService{s: s}
return rs
}
type ReadsService struct {
s *Service
}
func NewReferencesService(s *Service) *ReferencesService {
rs := &ReferencesService{s: s}
rs.Bases = NewReferencesBasesService(s)
return rs
}
type ReferencesService struct {
s *Service
Bases *ReferencesBasesService
}
func NewReferencesBasesService(s *Service) *ReferencesBasesService {
rs := &ReferencesBasesService{s: s}
return rs
}
type ReferencesBasesService struct {
s *Service
}
func NewReferencesetsService(s *Service) *ReferencesetsService {
rs := &ReferencesetsService{s: s}
return rs
}
type ReferencesetsService struct {
s *Service
}
func NewVariantsService(s *Service) *VariantsService {
rs := &VariantsService{s: s}
return rs
}
type VariantsService struct {
s *Service
}
func NewVariantsetsService(s *Service) *VariantsetsService {
rs := &VariantsetsService{s: s}
return rs
}
type VariantsetsService struct {
s *Service
}
// Binding: Associates `members` with a `role`.
type Binding struct {
// Members: Specifies the identities requesting access for a Cloud
// Platform resource. `members` can have the following values: *
// `allUsers`: A special identifier that represents anyone who is on the
// internet; with or without a Google account. *
// `allAuthenticatedUsers`: A special identifier that represents anyone
// who is authenticated with a Google account or a service account. *
// `user:{emailid}`: An email address that represents a specific Google
// account. For example, `alice@gmail.com` or `joe@example.com`. *
// `serviceAccount:{emailid}`: An email address that represents a
// service account. For example,
// `my-other-app@appspot.gserviceaccount.com`. * `group:{emailid}`: An
// email address that represents a Google group. For example,
// `admins@example.com`. * `domain:{domain}`: A Google Apps domain name
// that represents all the users of that domain. For example,
// `google.com` or `example.com`.
Members []string `json:"members,omitempty"`
// Role: Role that is assigned to `members`. For example,
// `roles/viewer`, `roles/editor`, or `roles/owner`. Required
Role string `json:"role,omitempty"`
// ForceSendFields is a list of field names (e.g. "Members") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Binding) MarshalJSON() ([]byte, error) {
type noMethod Binding
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// CallSet: A call set is a collection of variant calls, typically for
// one sample. It belongs to a variant set. For more genomics resource
// definitions, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
type CallSet struct {
// Created: The date this call set was created in milliseconds from the
// epoch.
Created int64 `json:"created,omitempty,string"`
// Id: The server-generated call set ID, unique across all call sets.
Id string `json:"id,omitempty"`
// Info: A map of additional call set information. This must be of the
// form map (string key mapping to a list of string values).
Info *CallSetInfo `json:"info,omitempty"`
// Name: The call set name.
Name string `json:"name,omitempty"`
// SampleId: The sample ID this call set corresponds to.
SampleId string `json:"sampleId,omitempty"`
// VariantSetIds: The IDs of the variant sets this call set belongs to.
// This field must have exactly length one, as a call set belongs to a
// single variant set. This field is repeated for compatibility with the
// [GA4GH 0.5.1
// API](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/a
// vro/variants.avdl#L76).
VariantSetIds []string `json:"variantSetIds,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Created") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *CallSet) MarshalJSON() ([]byte, error) {
type noMethod CallSet
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// CallSetInfo: A map of additional call set information. This must be
// of the form map (string key mapping to a list of string values).
type CallSetInfo struct {
}
// CancelOperationRequest: The request message for
// Operations.CancelOperation.
type CancelOperationRequest struct {
}
// CigarUnit: A single CIGAR operation.
type CigarUnit struct {
// Possible values:
// "OPERATION_UNSPECIFIED"
// "ALIGNMENT_MATCH"
// "INSERT"
// "DELETE"
// "SKIP"
// "CLIP_SOFT"
// "CLIP_HARD"
// "PAD"
// "SEQUENCE_MATCH"
// "SEQUENCE_MISMATCH"
Operation string `json:"operation,omitempty"`
// OperationLength: The number of genomic bases that the operation runs
// for. Required.
OperationLength int64 `json:"operationLength,omitempty,string"`
// ReferenceSequence: `referenceSequence` is only used at mismatches
// (`SEQUENCE_MISMATCH`) and deletions (`DELETE`). Filling this field
// replaces SAM's MD tag. If the relevant information is not available,
// this field is unset.
ReferenceSequence string `json:"referenceSequence,omitempty"`
// ForceSendFields is a list of field names (e.g. "Operation") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *CigarUnit) MarshalJSON() ([]byte, error) {
type noMethod CigarUnit
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// CoverageBucket: A bucket over which read coverage has been
// precomputed. A bucket corresponds to a specific range of the
// reference sequence.
type CoverageBucket struct {
// MeanCoverage: The average number of reads which are aligned to each
// individual reference base in this bucket.
MeanCoverage float64 `json:"meanCoverage,omitempty"`
// Range: The genomic coordinate range spanned by this bucket.
Range *Range `json:"range,omitempty"`
// ForceSendFields is a list of field names (e.g. "MeanCoverage") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *CoverageBucket) MarshalJSON() ([]byte, error) {
type noMethod CoverageBucket
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Dataset: A Dataset is a collection of genomic data. For more genomics
// resource definitions, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
type Dataset struct {
// CreateTime: The time this dataset was created, in seconds from the
// epoch.
CreateTime string `json:"createTime,omitempty"`
// Id: The server-generated dataset ID, unique across all datasets.
Id string `json:"id,omitempty"`
// Name: The dataset name.
Name string `json:"name,omitempty"`
// ProjectId: The Google Developers Console project ID that this dataset
// belongs to.
ProjectId string `json:"projectId,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "CreateTime") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Dataset) MarshalJSON() ([]byte, error) {
type noMethod Dataset
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Empty: A generic empty message that you can re-use to avoid defining
// duplicated empty messages in your APIs. A typical example is to use
// it as the request or the response type of an API method. For
// instance: service Foo { rpc Bar(google.protobuf.Empty) returns
// (google.protobuf.Empty); } The JSON representation for `Empty` is
// empty JSON object `{}`.
type Empty struct {
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
}
type Experiment struct {
// InstrumentModel: The instrument model used as part of this
// experiment. This maps to sequencing technology in the SAM spec.
InstrumentModel string `json:"instrumentModel,omitempty"`
// LibraryId: A client-supplied library identifier; a library is a
// collection of DNA fragments which have been prepared for sequencing
// from a sample. This field is important for quality control as error
// or bias can be introduced during sample preparation.
LibraryId string `json:"libraryId,omitempty"`
// PlatformUnit: The platform unit used as part of this experiment, for
// example flowcell-barcode.lane for Illumina or slide for SOLiD.
// Corresponds to the @RG PU field in the SAM spec.
PlatformUnit string `json:"platformUnit,omitempty"`
// SequencingCenter: The sequencing center used as part of this
// experiment.
SequencingCenter string `json:"sequencingCenter,omitempty"`
// ForceSendFields is a list of field names (e.g. "InstrumentModel") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Experiment) MarshalJSON() ([]byte, error) {
type noMethod Experiment
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ExportReadGroupSetRequest: The read group set export request.
type ExportReadGroupSetRequest struct {
// ExportUri: Required. A Google Cloud Storage URI for the exported BAM
// file. The currently authenticated user must have write access to the
// new file. An error will be returned if the URI already contains data.
ExportUri string `json:"exportUri,omitempty"`
// ProjectId: Required. The Google Developers Console project ID that
// owns this export. The caller must have WRITE access to this project.
ProjectId string `json:"projectId,omitempty"`
// ReferenceNames: The reference names to export. If this is not
// specified, all reference sequences, including unmapped reads, are
// exported. Use `*` to export only unmapped reads.
ReferenceNames []string `json:"referenceNames,omitempty"`
// ForceSendFields is a list of field names (e.g. "ExportUri") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ExportReadGroupSetRequest) MarshalJSON() ([]byte, error) {
type noMethod ExportReadGroupSetRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ExportVariantSetRequest: The variant data export request.
type ExportVariantSetRequest struct {
// BigqueryDataset: Required. The BigQuery dataset to export data to.
// This dataset must already exist. Note that this is distinct from the
// Genomics concept of "dataset".
BigqueryDataset string `json:"bigqueryDataset,omitempty"`
// BigqueryTable: Required. The BigQuery table to export data to. If the
// table doesn't exist, it will be created. If it already exists, it
// will be overwritten.
BigqueryTable string `json:"bigqueryTable,omitempty"`
// CallSetIds: If provided, only variant call information from the
// specified call sets will be exported. By default all variant calls
// are exported.
CallSetIds []string `json:"callSetIds,omitempty"`
// Format: The format for the exported data.
//
// Possible values:
// "FORMAT_UNSPECIFIED"
// "FORMAT_BIGQUERY"
Format string `json:"format,omitempty"`
// ProjectId: Required. The Google Cloud project ID that owns the
// destination BigQuery dataset. The caller must have WRITE access to
// this project. This project will also own the resulting export job.
ProjectId string `json:"projectId,omitempty"`
// ForceSendFields is a list of field names (e.g. "BigqueryDataset") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ExportVariantSetRequest) MarshalJSON() ([]byte, error) {
type noMethod ExportVariantSetRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// GetIamPolicyRequest: Request message for `GetIamPolicy` method.
type GetIamPolicyRequest struct {
}
// ImportReadGroupSetsRequest: The read group set import request.
type ImportReadGroupSetsRequest struct {
// DatasetId: Required. The ID of the dataset these read group sets will
// belong to. The caller must have WRITE permissions to this dataset.
DatasetId string `json:"datasetId,omitempty"`
// PartitionStrategy: The partition strategy describes how read groups
// are partitioned into read group sets.
//
// Possible values:
// "PARTITION_STRATEGY_UNSPECIFIED"
// "PER_FILE_PER_SAMPLE"
// "MERGE_ALL"
PartitionStrategy string `json:"partitionStrategy,omitempty"`
// ReferenceSetId: The reference set to which the imported read group
// sets are aligned to, if any. The reference names of this reference
// set must be a superset of those found in the imported file headers.
// If no reference set id is provided, a best effort is made to
// associate with a matching reference set.
ReferenceSetId string `json:"referenceSetId,omitempty"`
// SourceUris: A list of URIs pointing at [BAM
// files](https://samtools.github.io/hts-specs/SAMv1.pdf) in Google
// Cloud Storage.
SourceUris []string `json:"sourceUris,omitempty"`
// ForceSendFields is a list of field names (e.g. "DatasetId") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ImportReadGroupSetsRequest) MarshalJSON() ([]byte, error) {
type noMethod ImportReadGroupSetsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ImportReadGroupSetsResponse: The read group set import response.
type ImportReadGroupSetsResponse struct {
// ReadGroupSetIds: IDs of the read group sets that were created.
ReadGroupSetIds []string `json:"readGroupSetIds,omitempty"`
// ForceSendFields is a list of field names (e.g. "ReadGroupSetIds") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ImportReadGroupSetsResponse) MarshalJSON() ([]byte, error) {
type noMethod ImportReadGroupSetsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ImportVariantsRequest: The variant data import request.
type ImportVariantsRequest struct {
// Format: The format of the variant data being imported. If
// unspecified, defaults to to `VCF`.
//
// Possible values:
// "FORMAT_UNSPECIFIED"
// "FORMAT_VCF"
// "FORMAT_COMPLETE_GENOMICS"
Format string `json:"format,omitempty"`
// NormalizeReferenceNames: Convert reference names to the canonical
// representation. hg19 haploytypes (those reference names containing
// "_hap") are not modified in any way. All other reference names are
// modified according to the following rules: The reference name is
// capitalized. The "chr" prefix is dropped for all autosomes and sex
// chromsomes. For example "chr17" becomes "17" and "chrX" becomes "X".
// All mitochondrial chromosomes ("chrM", "chrMT", etc) become "MT".
NormalizeReferenceNames bool `json:"normalizeReferenceNames,omitempty"`
// SourceUris: A list of URIs referencing variant files in Google Cloud
// Storage. URIs can include wildcards [as described
// here](https://cloud.google.com/storage/docs/gsutil/addlhelp/WildcardNa
// mes). Note that recursive wildcards ('**') are not supported.
SourceUris []string `json:"sourceUris,omitempty"`
// VariantSetId: Required. The variant set to which variant data should
// be imported.
VariantSetId string `json:"variantSetId,omitempty"`
// ForceSendFields is a list of field names (e.g. "Format") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ImportVariantsRequest) MarshalJSON() ([]byte, error) {
type noMethod ImportVariantsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ImportVariantsResponse: The variant data import response.
type ImportVariantsResponse struct {
// CallSetIds: IDs of the call sets created during the import.
CallSetIds []string `json:"callSetIds,omitempty"`
// ForceSendFields is a list of field names (e.g. "CallSetIds") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ImportVariantsResponse) MarshalJSON() ([]byte, error) {
type noMethod ImportVariantsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// LinearAlignment: A linear alignment can be represented by one CIGAR
// string. Describes the mapped position and local alignment of the read
// to the reference.
type LinearAlignment struct {
// Cigar: Represents the local alignment of this sequence (alignment
// matches, indels, etc) against the reference.
Cigar []*CigarUnit `json:"cigar,omitempty"`
// MappingQuality: The mapping quality of this alignment. Represents how
// likely the read maps to this position as opposed to other locations.
// Specifically, this is -10 log10 Pr(mapping position is wrong),
// rounded to the nearest integer.
MappingQuality int64 `json:"mappingQuality,omitempty"`
// Position: The position of this alignment.
Position *Position `json:"position,omitempty"`
// ForceSendFields is a list of field names (e.g. "Cigar") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *LinearAlignment) MarshalJSON() ([]byte, error) {
type noMethod LinearAlignment
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type ListBasesResponse struct {
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// Offset: The offset position (0-based) of the given `sequence` from
// the start of this `Reference`. This value will differ for each page
// in a paginated request.
Offset int64 `json:"offset,omitempty,string"`
// Sequence: A substring of the bases that make up this reference.
Sequence string `json:"sequence,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ListBasesResponse) MarshalJSON() ([]byte, error) {
type noMethod ListBasesResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type ListCoverageBucketsResponse struct {
// BucketWidth: The length of each coverage bucket in base pairs. Note
// that buckets at the end of a reference sequence may be shorter. This
// value is omitted if the bucket width is infinity (the default
// behaviour, with no range or `targetBucketWidth`).
BucketWidth int64 `json:"bucketWidth,omitempty,string"`
// CoverageBuckets: The coverage buckets. The list of buckets is sparse;
// a bucket with 0 overlapping reads is not returned. A bucket never
// crosses more than one reference sequence. Each bucket has width
// `bucketWidth`, unless its end is the end of the reference sequence.
CoverageBuckets []*CoverageBucket `json:"coverageBuckets,omitempty"`
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "BucketWidth") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ListCoverageBucketsResponse) MarshalJSON() ([]byte, error) {
type noMethod ListCoverageBucketsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ListDatasetsResponse: The dataset list response.
type ListDatasetsResponse struct {
// Datasets: The list of matching Datasets.
Datasets []*Dataset `json:"datasets,omitempty"`
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Datasets") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ListDatasetsResponse) MarshalJSON() ([]byte, error) {
type noMethod ListDatasetsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ListOperationsResponse: The response message for
// Operations.ListOperations.
type ListOperationsResponse struct {
// NextPageToken: The standard List next-page token.
NextPageToken string `json:"nextPageToken,omitempty"`
// Operations: A list of operations that matches the specified filter in
// the request.
Operations []*Operation `json:"operations,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ListOperationsResponse) MarshalJSON() ([]byte, error) {
type noMethod ListOperationsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Operation: This resource represents a long-running operation that is
// the result of a network API call.
type Operation struct {
// Done: If the value is `false`, it means the operation is still in
// progress. If true, the operation is completed, and either `error` or
// `response` is available.
Done bool `json:"done,omitempty"`
// Error: The error result of the operation in case of failure.
Error *Status `json:"error,omitempty"`
// Metadata: An OperationMetadata object. This will always be returned
// with the Operation.
Metadata OperationMetadata `json:"metadata,omitempty"`
// Name: The server-assigned name, which is only unique within the same
// service that originally returns it. For example:
// `operations/CJHU7Oi_ChDrveSpBRjfuL-qzoWAgEw`
Name string `json:"name,omitempty"`
// Response: If importing ReadGroupSets, an ImportReadGroupSetsResponse
// is returned. If importing Variants, an ImportVariantsResponse is
// returned. For exports, an empty response is returned.
Response OperationResponse `json:"response,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Done") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Operation) MarshalJSON() ([]byte, error) {
type noMethod Operation
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type OperationMetadata interface{}
type OperationResponse interface{}
// OperationEvent: An event that occurred during an Operation.
type OperationEvent struct {
// Description: Required description of event.
Description string `json:"description,omitempty"`
// ForceSendFields is a list of field names (e.g. "Description") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *OperationEvent) MarshalJSON() ([]byte, error) {
type noMethod OperationEvent
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// OperationMetadata1: Metadata describing an Operation.
type OperationMetadata1 struct {
// CreateTime: The time at which the job was submitted to the Genomics
// service.
CreateTime string `json:"createTime,omitempty"`
// Events: Optional event messages that were generated during the job's
// execution. This also contains any warnings that were generated during
// import or export.
Events []*OperationEvent `json:"events,omitempty"`
// ProjectId: The Google Cloud Project in which the job is scoped.
ProjectId string `json:"projectId,omitempty"`
// Request: The original request that started the operation. Note that
// this will be in current version of the API. If the operation was
// started with v1beta2 API and a GetOperation is performed on v1 API, a
// v1 request will be returned.
Request OperationMetadataRequest `json:"request,omitempty"`
// ForceSendFields is a list of field names (e.g. "CreateTime") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *OperationMetadata1) MarshalJSON() ([]byte, error) {
type noMethod OperationMetadata1
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type OperationMetadataRequest interface{}
// Policy: Defines an Identity and Access Management (IAM) policy. It is
// used to specify access control policies for Cloud Platform resources.
// A `Policy` consists of a list of `bindings`. A `Binding` binds a list
// of `members` to a `role`, where the members can be user accounts,
// Google groups, Google domains, and service accounts. A `role` is a
// named list of permissions defined by IAM. **Example** { "bindings": [
// { "role": "roles/owner", "members": [ "user:mike@example.com",
// "group:admins@example.com", "domain:google.com",
// "serviceAccount:my-other-app@appspot.gserviceaccount.com"] }, {
// "role": "roles/viewer", "members": ["user:sean@example.com"] } ] }
// For a description of IAM and its features, see the [IAM developer's
// guide](https://cloud.google.com/iam).
type Policy struct {
// Bindings: Associates a list of `members` to a `role`. Multiple
// `bindings` must not be specified for the same `role`. `bindings` with
// no members will result in an error.
Bindings []*Binding `json:"bindings,omitempty"`
// Etag: `etag` is used for optimistic concurrency control as a way to
// help prevent simultaneous updates of a policy from overwriting each
// other. It is strongly suggested that systems make use of the `etag`
// in the read-modify-write cycle to perform policy updates in order to
// avoid race conditions: An `etag` is returned in the response to
// `getIamPolicy`, and systems are expected to put that etag in the
// request to `setIamPolicy` to ensure that their change will be applied
// to the same version of the policy. If no `etag` is provided in the
// call to `setIamPolicy`, then the existing policy is overwritten
// blindly.
Etag string `json:"etag,omitempty"`
// Version: Version of the `Policy`. The default version is 0.
Version int64 `json:"version,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Bindings") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Policy) MarshalJSON() ([]byte, error) {
type noMethod Policy
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Position: An abstraction for referring to a genomic position, in
// relation to some already known reference. For now, represents a
// genomic position as a reference name, a base number on that reference
// (0-based), and a determination of forward or reverse strand.
type Position struct {
// Position: The 0-based offset from the start of the forward strand for
// that reference.
Position int64 `json:"position,omitempty,string"`
// ReferenceName: The name of the reference in whatever reference set is
// being used.
ReferenceName string `json:"referenceName,omitempty"`
// ReverseStrand: Whether this position is on the reverse strand, as
// opposed to the forward strand.
ReverseStrand bool `json:"reverseStrand,omitempty"`
// ForceSendFields is a list of field names (e.g. "Position") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Position) MarshalJSON() ([]byte, error) {
type noMethod Position
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type Program struct {
// CommandLine: The command line used to run this program.
CommandLine string `json:"commandLine,omitempty"`
// Id: The user specified locally unique ID of the program. Used along
// with `prevProgramId` to define an ordering between programs.
Id string `json:"id,omitempty"`
// Name: The display name of the program. This is typically the
// colloquial name of the tool used, for example 'bwa' or 'picard'.
Name string `json:"name,omitempty"`
// PrevProgramId: The ID of the program run before this one.
PrevProgramId string `json:"prevProgramId,omitempty"`
// Version: The version of the program run.
Version string `json:"version,omitempty"`
// ForceSendFields is a list of field names (e.g. "CommandLine") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Program) MarshalJSON() ([]byte, error) {
type noMethod Program
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Range: A 0-based half-open genomic coordinate range for search
// requests.
type Range struct {
// End: The end position of the range on the reference, 0-based
// exclusive.
End int64 `json:"end,omitempty,string"`
// ReferenceName: The reference sequence name, for example `chr1`, `1`,
// or `chrX`.
ReferenceName string `json:"referenceName,omitempty"`
// Start: The start position of the range on the reference, 0-based
// inclusive.
Start int64 `json:"start,omitempty,string"`
// ForceSendFields is a list of field names (e.g. "End") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Range) MarshalJSON() ([]byte, error) {
type noMethod Range
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Read: A read alignment describes a linear alignment of a string of
// DNA to a reference sequence, in addition to metadata about the
// fragment (the molecule of DNA sequenced) and the read (the bases
// which were read by the sequencer). A read is equivalent to a line in
// a SAM file. A read belongs to exactly one read group and exactly one
// read group set. For more genomics resource definitions, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) ### Reverse-stranded reads Mapped reads (reads having a
// non-null `alignment`) can be aligned to either the forward or the
// reverse strand of their associated reference. Strandedness of a
// mapped read is encoded by `alignment.position.reverseStrand`. If we
// consider the reference to be a forward-stranded coordinate space of
// `[0, reference.length)` with `0` as the left-most position and
// `reference.length` as the right-most position, reads are always
// aligned left to right. That is, `alignment.position.position` always
// refers to the left-most reference coordinate and `alignment.cigar`
// describes the alignment of this read to the reference from left to
// right. All per-base fields such as `alignedSequence` and
// `alignedQuality` share this same left-to-right orientation; this is
// true of reads which are aligned to either strand. For
// reverse-stranded reads, this means that `alignedSequence` is the
// reverse complement of the bases that were originally reported by the
// sequencing machine. ### Generating a reference-aligned sequence
// string When interacting with mapped reads, it's often useful to
// produce a string representing the local alignment of the read to
// reference. The following pseudocode demonstrates one way of doing
// this: out = "" offset = 0 for c in read.alignment.cigar { switch
// c.operation { case "ALIGNMENT_MATCH", "SEQUENCE_MATCH",
// "SEQUENCE_MISMATCH": out +=
// read.alignedSequence[offset:offset+c.operationLength] offset +=
// c.operationLength break case "CLIP_SOFT", "INSERT": offset +=
// c.operationLength break case "PAD": out += repeat("*",
// c.operationLength) break case "DELETE": out += repeat("-",
// c.operationLength) break case "SKIP": out += repeat(" ",
// c.operationLength) break case "CLIP_HARD": break } } return out ###
// Converting to SAM's CIGAR string The following pseudocode generates a
// SAM CIGAR string from the `cigar` field. Note that this is a lossy
// conversion (`cigar.referenceSequence` is lost). cigarMap = {
// "ALIGNMENT_MATCH": "M", "INSERT": "I", "DELETE": "D", "SKIP": "N",
// "CLIP_SOFT": "S", "CLIP_HARD": "H", "PAD": "P", "SEQUENCE_MATCH":
// "=", "SEQUENCE_MISMATCH": "X", } cigarStr = "" for c in
// read.alignment.cigar { cigarStr += c.operationLength +
// cigarMap[c.operation] } return cigarStr
type Read struct {
// AlignedQuality: The quality of the read sequence contained in this
// alignment record (equivalent to QUAL in SAM). `alignedSequence` and
// `alignedQuality` may be shorter than the full read sequence and
// quality. This will occur if the alignment is part of a chimeric
// alignment, or if the read was trimmed. When this occurs, the CIGAR
// for this read will begin/end with a hard clip operator that will
// indicate the length of the excised sequence.
AlignedQuality []int64 `json:"alignedQuality,omitempty"`
// AlignedSequence: The bases of the read sequence contained in this
// alignment record, **without CIGAR operations applied** (equivalent to
// SEQ in SAM). `alignedSequence` and `alignedQuality` may be shorter
// than the full read sequence and quality. This will occur if the
// alignment is part of a chimeric alignment, or if the read was
// trimmed. When this occurs, the CIGAR for this read will begin/end
// with a hard clip operator that will indicate the length of the
// excised sequence.
AlignedSequence string `json:"alignedSequence,omitempty"`
// Alignment: The linear alignment for this alignment record. This field
// is null for unmapped reads.
Alignment *LinearAlignment `json:"alignment,omitempty"`
// DuplicateFragment: The fragment is a PCR or optical duplicate (SAM
// flag 0x400).
DuplicateFragment bool `json:"duplicateFragment,omitempty"`
// FailedVendorQualityChecks: Whether this read did not pass filters,
// such as platform or vendor quality controls (SAM flag 0x200).
FailedVendorQualityChecks bool `json:"failedVendorQualityChecks,omitempty"`
// FragmentLength: The observed length of the fragment, equivalent to
// TLEN in SAM.
FragmentLength int64 `json:"fragmentLength,omitempty"`
// FragmentName: The fragment name. Equivalent to QNAME (query template
// name) in SAM.
FragmentName string `json:"fragmentName,omitempty"`
// Id: The server-generated read ID, unique across all reads. This is
// different from the `fragmentName`.
Id string `json:"id,omitempty"`
// Info: A map of additional read alignment information. This must be of
// the form map (string key mapping to a list of string values).
Info *ReadInfo `json:"info,omitempty"`
// NextMatePosition: The mapping of the primary alignment of the
// `(readNumber+1)%numberReads` read in the fragment. It replaces mate
// position and mate strand in SAM.
NextMatePosition *Position `json:"nextMatePosition,omitempty"`
// NumberReads: The number of reads in the fragment (extension to SAM
// flag 0x1).
NumberReads int64 `json:"numberReads,omitempty"`
// ProperPlacement: The orientation and the distance between reads from
// the fragment are consistent with the sequencing protocol (SAM flag
// 0x2).
ProperPlacement bool `json:"properPlacement,omitempty"`
// ReadGroupId: The ID of the read group this read belongs to. A read
// belongs to exactly one read group. This is a server-generated ID
// which is distinct from SAM's RG tag (for that value, see
// ReadGroup.name).
ReadGroupId string `json:"readGroupId,omitempty"`
// ReadGroupSetId: The ID of the read group set this read belongs to. A
// read belongs to exactly one read group set.
ReadGroupSetId string `json:"readGroupSetId,omitempty"`
// ReadNumber: The read number in sequencing. 0-based and less than
// numberReads. This field replaces SAM flag 0x40 and 0x80.
ReadNumber int64 `json:"readNumber,omitempty"`
// SecondaryAlignment: Whether this alignment is secondary. Equivalent
// to SAM flag 0x100. A secondary alignment represents an alternative to
// the primary alignment for this read. Aligners may return secondary
// alignments if a read can map ambiguously to multiple coordinates in
// the genome. By convention, each read has one and only one alignment
// where both `secondaryAlignment` and `supplementaryAlignment` are
// false.
SecondaryAlignment bool `json:"secondaryAlignment,omitempty"`
// SupplementaryAlignment: Whether this alignment is supplementary.
// Equivalent to SAM flag 0x800. Supplementary alignments are used in
// the representation of a chimeric alignment. In a chimeric alignment,
// a read is split into multiple linear alignments that map to different
// reference contigs. The first linear alignment in the read will be
// designated as the representative alignment; the remaining linear
// alignments will be designated as supplementary alignments. These
// alignments may have different mapping quality scores. In each linear
// alignment in a chimeric alignment, the read will be hard clipped. The
// `alignedSequence` and `alignedQuality` fields in the alignment record
// will only represent the bases for its respective linear alignment.
SupplementaryAlignment bool `json:"supplementaryAlignment,omitempty"`
// ForceSendFields is a list of field names (e.g. "AlignedQuality") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Read) MarshalJSON() ([]byte, error) {
type noMethod Read
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ReadInfo: A map of additional read alignment information. This must
// be of the form map (string key mapping to a list of string values).
type ReadInfo struct {
}
// ReadGroup: A read group is all the data that's processed the same way
// by the sequencer.
type ReadGroup struct {
// DatasetId: The dataset to which this read group belongs.
DatasetId string `json:"datasetId,omitempty"`
// Description: A free-form text description of this read group.
Description string `json:"description,omitempty"`
// Experiment: The experiment used to generate this read group.
Experiment *Experiment `json:"experiment,omitempty"`
// Id: The server-generated read group ID, unique for all read groups.
// Note: This is different than the @RG ID field in the SAM spec. For
// that value, see name.
Id string `json:"id,omitempty"`
// Info: A map of additional read group information. This must be of the
// form map (string key mapping to a list of string values).
Info *ReadGroupInfo `json:"info,omitempty"`
// Name: The read group name. This corresponds to the @RG ID field in
// the SAM spec.
Name string `json:"name,omitempty"`
// PredictedInsertSize: The predicted insert size of this read group.
// The insert size is the length the sequenced DNA fragment from
// end-to-end, not including the adapters.
PredictedInsertSize int64 `json:"predictedInsertSize,omitempty"`
// Programs: The programs used to generate this read group. Programs are
// always identical for all read groups within a read group set. For
// this reason, only the first read group in a returned set will have
// this field populated.
Programs []*Program `json:"programs,omitempty"`
// ReferenceSetId: The reference set the reads in this read group are
// aligned to.
ReferenceSetId string `json:"referenceSetId,omitempty"`
// SampleId: A client-supplied sample identifier for the reads in this
// read group.
SampleId string `json:"sampleId,omitempty"`
// ForceSendFields is a list of field names (e.g. "DatasetId") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ReadGroup) MarshalJSON() ([]byte, error) {
type noMethod ReadGroup
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ReadGroupInfo: A map of additional read group information. This must
// be of the form map (string key mapping to a list of string values).
type ReadGroupInfo struct {
}
// ReadGroupSet: A read group set is a logical collection of read
// groups, which are collections of reads produced by a sequencer. A
// read group set typically models reads corresponding to one sample,
// sequenced one way, and aligned one way. * A read group set belongs to
// one dataset. * A read group belongs to one read group set. * A read
// belongs to one read group. For more genomics resource definitions,
// see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
type ReadGroupSet struct {
// DatasetId: The dataset to which this read group set belongs.
DatasetId string `json:"datasetId,omitempty"`
// Filename: The filename of the original source file for this read
// group set, if any.
Filename string `json:"filename,omitempty"`
// Id: The server-generated read group set ID, unique for all read group
// sets.
Id string `json:"id,omitempty"`
// Info: A map of additional read group set information.
Info *ReadGroupSetInfo `json:"info,omitempty"`
// Name: The read group set name. By default this will be initialized to
// the sample name of the sequenced data contained in this set.
Name string `json:"name,omitempty"`
// ReadGroups: The read groups in this set. There are typically 1-10
// read groups in a read group set.
ReadGroups []*ReadGroup `json:"readGroups,omitempty"`
// ReferenceSetId: The reference set to which the reads in this read
// group set are aligned.
ReferenceSetId string `json:"referenceSetId,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "DatasetId") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ReadGroupSet) MarshalJSON() ([]byte, error) {
type noMethod ReadGroupSet
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ReadGroupSetInfo: A map of additional read group set information.
type ReadGroupSetInfo struct {
}
// Reference: A reference is a canonical assembled DNA sequence,
// intended to act as a reference coordinate space for other genomic
// annotations. A single reference might represent the human chromosome
// 1 or mitochandrial DNA, for instance. A reference belongs to one or
// more reference sets. For more genomics resource definitions, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
type Reference struct {
// Id: The server-generated reference ID, unique across all references.
Id string `json:"id,omitempty"`
// Length: The length of this reference's sequence.
Length int64 `json:"length,omitempty,string"`
// Md5checksum: MD5 of the upper-case sequence excluding all whitespace
// characters (this is equivalent to SQ:M5 in SAM). This value is
// represented in lower case hexadecimal format.
Md5checksum string `json:"md5checksum,omitempty"`
// Name: The name of this reference, for example `22`.
Name string `json:"name,omitempty"`
// NcbiTaxonId: ID from http://www.ncbi.nlm.nih.gov/taxonomy. For
// example, 9606 for human.
NcbiTaxonId int64 `json:"ncbiTaxonId,omitempty"`
// SourceAccessions: All known corresponding accession IDs in INSDC
// (GenBank/ENA/DDBJ) ideally with a version number, for example
// `GCF_000001405.26`.
SourceAccessions []string `json:"sourceAccessions,omitempty"`
// SourceUri: The URI from which the sequence was obtained. Typically
// specifies a FASTA format file.
SourceUri string `json:"sourceUri,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Id") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Reference) MarshalJSON() ([]byte, error) {
type noMethod Reference
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ReferenceBound: ReferenceBound records an upper bound for the
// starting coordinate of variants in a particular reference.
type ReferenceBound struct {
// ReferenceName: The name of the reference associated with this
// ReferenceBound.
ReferenceName string `json:"referenceName,omitempty"`
// UpperBound: An upper bound (inclusive) on the starting coordinate of
// any variant in the reference sequence.
UpperBound int64 `json:"upperBound,omitempty,string"`
// ForceSendFields is a list of field names (e.g. "ReferenceName") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ReferenceBound) MarshalJSON() ([]byte, error) {
type noMethod ReferenceBound
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// ReferenceSet: A reference set is a set of references which typically
// comprise a reference assembly for a species, such as `GRCh38` which
// is representative of the human genome. A reference set defines a
// common coordinate space for comparing reference-aligned experimental
// data. A reference set contains 1 or more references. For more
// genomics resource definitions, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
type ReferenceSet struct {
// AssemblyId: Public id of this reference set, such as `GRCh37`.
AssemblyId string `json:"assemblyId,omitempty"`
// Description: Free text description of this reference set.
Description string `json:"description,omitempty"`
// Id: The server-generated reference set ID, unique across all
// reference sets.
Id string `json:"id,omitempty"`
// Md5checksum: Order-independent MD5 checksum which identifies this
// reference set. The checksum is computed by sorting all lower case
// hexidecimal string `reference.md5checksum` (for all reference in this
// set) in ascending lexicographic order, concatenating, and taking the
// MD5 of that value. The resulting value is represented in lower case
// hexadecimal format.
Md5checksum string `json:"md5checksum,omitempty"`
// NcbiTaxonId: ID from http://www.ncbi.nlm.nih.gov/taxonomy (for
// example, 9606 for human) indicating the species which this reference
// set is intended to model. Note that contained references may specify
// a different `ncbiTaxonId`, as assemblies may contain reference
// sequences which do not belong to the modeled species, for example EBV
// in a human reference genome.
NcbiTaxonId int64 `json:"ncbiTaxonId,omitempty"`
// ReferenceIds: The IDs of the reference objects that are part of this
// set. `Reference.md5checksum` must be unique within this set.
ReferenceIds []string `json:"referenceIds,omitempty"`
// SourceAccessions: All known corresponding accession IDs in INSDC
// (GenBank/ENA/DDBJ) ideally with a version number, for example
// `NC_000001.11`.
SourceAccessions []string `json:"sourceAccessions,omitempty"`
// SourceUri: The URI from which the references were obtained.
SourceUri string `json:"sourceUri,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "AssemblyId") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *ReferenceSet) MarshalJSON() ([]byte, error) {
type noMethod ReferenceSet
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchCallSetsRequest: The call set search request.
type SearchCallSetsRequest struct {
// Name: Only return call sets for which a substring of the name matches
// this string.
Name string `json:"name,omitempty"`
// PageSize: The maximum number of results to return in a single page.
// If unspecified, defaults to 1024.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// VariantSetIds: Restrict the query to call sets within the given
// variant sets. At least one ID must be provided.
VariantSetIds []string `json:"variantSetIds,omitempty"`
// ForceSendFields is a list of field names (e.g. "Name") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchCallSetsRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchCallSetsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchCallSetsResponse: The call set search response.
type SearchCallSetsResponse struct {
// CallSets: The list of matching call sets.
CallSets []*CallSet `json:"callSets,omitempty"`
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "CallSets") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchCallSetsResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchCallSetsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchReadGroupSetsRequest: The read group set search request.
type SearchReadGroupSetsRequest struct {
// DatasetIds: Restricts this query to read group sets within the given
// datasets. At least one ID must be provided.
DatasetIds []string `json:"datasetIds,omitempty"`
// Name: Only return read group sets for which a substring of the name
// matches this string.
Name string `json:"name,omitempty"`
// PageSize: The maximum number of results to return in a single page.
// If unspecified, defaults to 256. The maximum value is 1024.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// ForceSendFields is a list of field names (e.g. "DatasetIds") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReadGroupSetsRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchReadGroupSetsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchReadGroupSetsResponse: The read group set search response.
type SearchReadGroupSetsResponse struct {
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// ReadGroupSets: The list of matching read group sets.
ReadGroupSets []*ReadGroupSet `json:"readGroupSets,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReadGroupSetsResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchReadGroupSetsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchReadsRequest: The read search request.
type SearchReadsRequest struct {
// End: The end position of the range on the reference, 0-based
// exclusive. If specified, `referenceName` must also be specified.
End int64 `json:"end,omitempty,string"`
// PageSize: The maximum number of results to return in a single page.
// If unspecified, defaults to 256. The maximum value is 2048.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// ReadGroupIds: The IDs of the read groups within which to search for
// reads. All specified read groups must belong to the same read group
// sets. Must specify one of `readGroupSetIds` or `readGroupIds`.
ReadGroupIds []string `json:"readGroupIds,omitempty"`
// ReadGroupSetIds: The IDs of the read groups sets within which to
// search for reads. All specified read group sets must be aligned
// against a common set of reference sequences; this defines the genomic
// coordinates for the query. Must specify one of `readGroupSetIds` or
// `readGroupIds`.
ReadGroupSetIds []string `json:"readGroupSetIds,omitempty"`
// ReferenceName: The reference sequence name, for example `chr1`, `1`,
// or `chrX`. If set to `*`, only unmapped reads are returned. If
// unspecified, all reads (mapped and unmapped) are returned.
ReferenceName string `json:"referenceName,omitempty"`
// Start: The start position of the range on the reference, 0-based
// inclusive. If specified, `referenceName` must also be specified.
Start int64 `json:"start,omitempty,string"`
// ForceSendFields is a list of field names (e.g. "End") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReadsRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchReadsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchReadsResponse: The read search response.
type SearchReadsResponse struct {
// Alignments: The list of matching alignments sorted by mapped genomic
// coordinate, if any, ascending in position within the same reference.
// Unmapped reads, which have no position, are returned contiguously and
// are sorted in ascending lexicographic order by fragment name.
Alignments []*Read `json:"alignments,omitempty"`
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Alignments") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReadsResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchReadsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type SearchReferenceSetsRequest struct {
// Accessions: If present, return reference sets for which a prefix of
// any of sourceAccessions match any of these strings. Accession numbers
// typically have a main number and a version, for example
// `NC_000001.11`.
Accessions []string `json:"accessions,omitempty"`
// AssemblyId: If present, return reference sets for which a substring
// of their `assemblyId` matches this string (case insensitive).
AssemblyId string `json:"assemblyId,omitempty"`
// Md5checksums: If present, return reference sets for which the
// md5checksum matches exactly.
Md5checksums []string `json:"md5checksums,omitempty"`
// PageSize: The maximum number of results to return in a single page.
// If unspecified, defaults to 1024. The maximum value is 4096.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// ForceSendFields is a list of field names (e.g. "Accessions") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReferenceSetsRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchReferenceSetsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type SearchReferenceSetsResponse struct {
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// ReferenceSets: The matching references sets.
ReferenceSets []*ReferenceSet `json:"referenceSets,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReferenceSetsResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchReferenceSetsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type SearchReferencesRequest struct {
// Accessions: If present, return references for which a prefix of any
// of sourceAccessions match any of these strings. Accession numbers
// typically have a main number and a version, for example
// `GCF_000001405.26`.
Accessions []string `json:"accessions,omitempty"`
// Md5checksums: If present, return references for which the md5checksum
// matches exactly.
Md5checksums []string `json:"md5checksums,omitempty"`
// PageSize: The maximum number of results to return in a single page.
// If unspecified, defaults to 1024. The maximum value is 4096.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// ReferenceSetId: If present, return only references which belong to
// this reference set.
ReferenceSetId string `json:"referenceSetId,omitempty"`
// ForceSendFields is a list of field names (e.g. "Accessions") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReferencesRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchReferencesRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type SearchReferencesResponse struct {
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// References: The matching references.
References []*Reference `json:"references,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchReferencesResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchReferencesResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchVariantSetsRequest: The search variant sets request.
type SearchVariantSetsRequest struct {
// DatasetIds: Exactly one dataset ID must be provided here. Only
// variant sets which belong to this dataset will be returned.
DatasetIds []string `json:"datasetIds,omitempty"`
// PageSize: The maximum number of results to return in a single page.
// If unspecified, defaults to 1024.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// ForceSendFields is a list of field names (e.g. "DatasetIds") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchVariantSetsRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchVariantSetsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchVariantSetsResponse: The search variant sets response.
type SearchVariantSetsResponse struct {
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// VariantSets: The variant sets belonging to the requested dataset.
VariantSets []*VariantSet `json:"variantSets,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchVariantSetsResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchVariantSetsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchVariantsRequest: The variant search request.
type SearchVariantsRequest struct {
// CallSetIds: Only return variant calls which belong to call sets with
// these ids. Leaving this blank returns all variant calls. If a variant
// has no calls belonging to any of these call sets, it won't be
// returned at all. Currently, variants with no calls from any call set
// will never be returned.
CallSetIds []string `json:"callSetIds,omitempty"`
// End: The end of the window, 0-based exclusive. If unspecified or 0,
// defaults to the length of the reference.
End int64 `json:"end,omitempty,string"`
// MaxCalls: The maximum number of calls to return in a single page.
// Note that this limit may be exceeded; at least one variant is always
// returned per page, even if it has more calls than this limit. If
// unspecified, defaults to 5000. The maximum value is 10000.
MaxCalls int64 `json:"maxCalls,omitempty"`
// PageSize: The maximum number of variants to return in a single page.
// If unspecified, defaults to 5000. The maximum value is 10000.
PageSize int64 `json:"pageSize,omitempty"`
// PageToken: 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.
PageToken string `json:"pageToken,omitempty"`
// ReferenceName: Required. Only return variants in this reference
// sequence.
ReferenceName string `json:"referenceName,omitempty"`
// Start: The beginning of the window (0-based, inclusive) for which
// overlapping variants should be returned. If unspecified, defaults to
// 0.
Start int64 `json:"start,omitempty,string"`
// VariantName: Only return variants which have exactly this name.
VariantName string `json:"variantName,omitempty"`
// VariantSetIds: At most one variant set ID must be provided. Only
// variants from this variant set will be returned. If omitted, a call
// set id must be included in the request.
VariantSetIds []string `json:"variantSetIds,omitempty"`
// ForceSendFields is a list of field names (e.g. "CallSetIds") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchVariantsRequest) MarshalJSON() ([]byte, error) {
type noMethod SearchVariantsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SearchVariantsResponse: The variant search response.
type SearchVariantsResponse struct {
// NextPageToken: The continuation token, which is used to page through
// large result sets. Provide this value in a subsequent request to
// return the next page of results. This field will be empty if there
// aren't any additional results.
NextPageToken string `json:"nextPageToken,omitempty"`
// Variants: The list of matching Variants.
Variants []*Variant `json:"variants,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "NextPageToken") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SearchVariantsResponse) MarshalJSON() ([]byte, error) {
type noMethod SearchVariantsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// SetIamPolicyRequest: Request message for `SetIamPolicy` method.
type SetIamPolicyRequest struct {
// Policy: REQUIRED: The complete policy to be applied to the
// `resource`. The size of the policy is limited to a few 10s of KB. An
// empty policy is a valid policy but certain Cloud Platform services
// (such as Projects) might reject them.
Policy *Policy `json:"policy,omitempty"`
// ForceSendFields is a list of field names (e.g. "Policy") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *SetIamPolicyRequest) MarshalJSON() ([]byte, error) {
type noMethod SetIamPolicyRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// Status: The `Status` type defines a logical error model that is
// suitable for different programming environments, including REST APIs
// and RPC APIs. It is used by [gRPC](https://github.com/grpc). The
// error model is designed to be: - Simple to use and understand for
// most users - Flexible enough to meet unexpected needs # Overview The
// `Status` message contains three pieces of data: error code, error
// message, and error details. The error code should be an enum value of
// google.rpc.Code, but it may accept additional error codes if needed.
// The error message should be a developer-facing English message that
// helps developers *understand* and *resolve* the error. If a localized
// user-facing error message is needed, put the localized message in the
// error details or localize it in the client. The optional error
// details may contain arbitrary information about the error. There is a
// predefined set of error detail types in the package `google.rpc`
// which can be used for common error conditions. # Language mapping The
// `Status` message is the logical representation of the error model,
// but it is not necessarily the actual wire format. When the `Status`
// message is exposed in different client libraries and different wire
// protocols, it can be mapped differently. For example, it will likely
// be mapped to some exceptions in Java, but more likely mapped to some
// error codes in C. # Other uses The error model and the `Status`
// message can be used in a variety of environments, either with or
// without APIs, to provide a consistent developer experience across
// different environments. Example uses of this error model include: -
// Partial errors. If a service needs to return partial errors to the
// client, it may embed the `Status` in the normal response to indicate
// the partial errors. - Workflow errors. A typical workflow has
// multiple steps. Each step may have a `Status` message for error
// reporting purpose. - Batch operations. If a client uses batch request
// and batch response, the `Status` message should be used directly
// inside batch response, one for each error sub-response. -
// Asynchronous operations. If an API call embeds asynchronous operation
// results in its response, the status of those operations should be
// represented directly using the `Status` message. - Logging. If some
// API errors are stored in logs, the message `Status` could be used
// directly after any stripping needed for security/privacy reasons.
type Status struct {
// Code: The status code, which should be an enum value of
// google.rpc.Code.
Code int64 `json:"code,omitempty"`
// Details: A list of messages that carry the error details. There will
// be a common set of message types for APIs to use.
Details []StatusDetails `json:"details,omitempty"`
// Message: A developer-facing error message, which should be in
// English. Any user-facing error message should be localized and sent
// in the google.rpc.Status.details field, or localized by the client.
Message string `json:"message,omitempty"`
// ForceSendFields is a list of field names (e.g. "Code") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Status) MarshalJSON() ([]byte, error) {
type noMethod Status
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type StatusDetails interface{}
// StreamReadsRequest: The stream reads request.
type StreamReadsRequest struct {
// End: The end position of the range on the reference, 0-based
// exclusive. If specified, `referenceName` must also be specified.
End int64 `json:"end,omitempty,string"`
// ProjectId: The Google Developers Console project ID or number which
// will be billed for this access. The caller must have WRITE access to
// this project. Required.
ProjectId string `json:"projectId,omitempty"`
// ReadGroupSetId: The ID of the read group set from which to stream
// reads.
ReadGroupSetId string `json:"readGroupSetId,omitempty"`
// ReferenceName: The reference sequence name, for example `chr1`, `1`,
// or `chrX`. If set to *, only unmapped reads are returned.
ReferenceName string `json:"referenceName,omitempty"`
// Start: The start position of the range on the reference, 0-based
// inclusive. If specified, `referenceName` must also be specified.
Start int64 `json:"start,omitempty,string"`
// ForceSendFields is a list of field names (e.g. "End") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *StreamReadsRequest) MarshalJSON() ([]byte, error) {
type noMethod StreamReadsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type StreamReadsResponse struct {
Alignments []*Read `json:"alignments,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Alignments") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *StreamReadsResponse) MarshalJSON() ([]byte, error) {
type noMethod StreamReadsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// StreamVariantsRequest: The stream variants request.
type StreamVariantsRequest struct {
// CallSetIds: Only return variant calls which belong to call sets with
// these IDs. Leaving this blank returns all variant calls.
CallSetIds []string `json:"callSetIds,omitempty"`
// End: The end of the window (0-based, exclusive) for which overlapping
// variants should be returned.
End int64 `json:"end,omitempty,string"`
// ProjectId: The Google Developers Console project ID or number which
// will be billed for this access. The caller must have WRITE access to
// this project. Required.
ProjectId string `json:"projectId,omitempty"`
// ReferenceName: Required. Only return variants in this reference
// sequence.
ReferenceName string `json:"referenceName,omitempty"`
// Start: The beginning of the window (0-based, inclusive) for which
// overlapping variants should be returned.
Start int64 `json:"start,omitempty,string"`
// VariantSetId: The variant set ID from which to stream variants.
VariantSetId string `json:"variantSetId,omitempty"`
// ForceSendFields is a list of field names (e.g. "CallSetIds") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *StreamVariantsRequest) MarshalJSON() ([]byte, error) {
type noMethod StreamVariantsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type StreamVariantsResponse struct {
Variants []*Variant `json:"variants,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Variants") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *StreamVariantsResponse) MarshalJSON() ([]byte, error) {
type noMethod StreamVariantsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// TestIamPermissionsRequest: Request message for `TestIamPermissions`
// method.
type TestIamPermissionsRequest struct {
// Permissions: REQUIRED: The set of permissions to check for the
// 'resource'. Permissions with wildcards (such as '*' or 'storage.*')
// are not allowed. Allowed permissions are: *
// `genomics.datasets.create` * `genomics.datasets.delete` *
// `genomics.datasets.get` * `genomics.datasets.list` *
// `genomics.datasets.update` * `genomics.datasets.getIamPolicy` *
// `genomics.datasets.setIamPolicy`
Permissions []string `json:"permissions,omitempty"`
// ForceSendFields is a list of field names (e.g. "Permissions") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *TestIamPermissionsRequest) MarshalJSON() ([]byte, error) {
type noMethod TestIamPermissionsRequest
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// TestIamPermissionsResponse: Response message for `TestIamPermissions`
// method.
type TestIamPermissionsResponse struct {
// Permissions: A subset of `TestPermissionsRequest.permissions` that
// the caller is allowed.
Permissions []string `json:"permissions,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "Permissions") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *TestIamPermissionsResponse) MarshalJSON() ([]byte, error) {
type noMethod TestIamPermissionsResponse
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
type UndeleteDatasetRequest struct {
}
// Variant: A variant represents a change in DNA sequence relative to a
// reference sequence. For example, a variant could represent a SNP or
// an insertion. Variants belong to a variant set. For more genomics
// resource definitions, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Each of the calls on a variant represent a determination of
// genotype with respect to that variant. For example, a call might
// assign probability of 0.32 to the occurrence of a SNP named rs1234 in
// a sample named NA12345. A call belongs to a call set, which contains
// related calls typically from one sample.
type Variant struct {
// AlternateBases: The bases that appear instead of the reference bases.
AlternateBases []string `json:"alternateBases,omitempty"`
// Calls: The variant calls for this particular variant. Each one
// represents the determination of genotype with respect to this
// variant.
Calls []*VariantCall `json:"calls,omitempty"`
// Created: The date this variant was created, in milliseconds from the
// epoch.
Created int64 `json:"created,omitempty,string"`
// End: The end position (0-based) of this variant. This corresponds to
// the first base after the last base in the reference allele. So, the
// length of the reference allele is (end - start). This is useful for
// variants that don't explicitly give alternate bases, for example
// large deletions.
End int64 `json:"end,omitempty,string"`
// Filter: A list of filters (normally quality filters) this variant has
// failed. `PASS` indicates this variant has passed all filters.
Filter []string `json:"filter,omitempty"`
// Id: The server-generated variant ID, unique across all variants.
Id string `json:"id,omitempty"`
// Info: A map of additional variant information. This must be of the
// form map (string key mapping to a list of string values).
Info *VariantInfo `json:"info,omitempty"`
// Names: Names for the variant, for example a RefSNP ID.
Names []string `json:"names,omitempty"`
// Quality: A measure of how likely this variant is to be real. A higher
// value is better.
Quality float64 `json:"quality,omitempty"`
// ReferenceBases: The reference bases for this variant. They start at
// the given position.
ReferenceBases string `json:"referenceBases,omitempty"`
// ReferenceName: The reference on which this variant occurs. (such as
// `chr20` or `X`)
ReferenceName string `json:"referenceName,omitempty"`
// Start: The position at which this variant occurs (0-based). This
// corresponds to the first base of the string of reference bases.
Start int64 `json:"start,omitempty,string"`
// VariantSetId: The ID of the variant set this variant belongs to.
VariantSetId string `json:"variantSetId,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "AlternateBases") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *Variant) MarshalJSON() ([]byte, error) {
type noMethod Variant
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// VariantInfo: A map of additional variant information. This must be of
// the form map (string key mapping to a list of string values).
type VariantInfo struct {
}
// VariantCall: A call represents the determination of genotype with
// respect to a particular variant. It may include associated
// information such as quality and phasing. For example, a call might
// assign a probability of 0.32 to the occurrence of a SNP named rs1234
// in a call set with the name NA12345.
type VariantCall struct {
// CallSetId: The ID of the call set this variant call belongs to.
CallSetId string `json:"callSetId,omitempty"`
// CallSetName: The name of the call set this variant call belongs to.
CallSetName string `json:"callSetName,omitempty"`
// Genotype: The genotype of this variant call. Each value represents
// either the value of the `referenceBases` field or a 1-based index
// into `alternateBases`. If a variant had a `referenceBases` value of
// `T` and an `alternateBases` value of `["A", "C"]`, and the `genotype`
// was `[2, 1]`, that would mean the call represented the heterozygous
// value `CA` for this variant. If the `genotype` was instead `[0, 1]`,
// the represented value would be `TA`. Ordering of the genotype values
// is important if the `phaseset` is present. If a genotype is not
// called (that is, a `.` is present in the GT string) -1 is returned.
Genotype []int64 `json:"genotype,omitempty"`
// GenotypeLikelihood: The genotype likelihoods for this variant call.
// Each array entry represents how likely a specific genotype is for
// this call. The value ordering is defined by the GL tag in the VCF
// spec. If Phred-scaled genotype likelihood scores (PL) are available
// and log10(P) genotype likelihood scores (GL) are not, PL scores are
// converted to GL scores. If both are available, PL scores are stored
// in `info`.
GenotypeLikelihood []float64 `json:"genotypeLikelihood,omitempty"`
// Info: A map of additional variant call information. This must be of
// the form map (string key mapping to a list of string values).
Info *VariantCallInfo `json:"info,omitempty"`
// Phaseset: If this field is present, this variant call's genotype
// ordering implies the phase of the bases and is consistent with any
// other variant calls in the same reference sequence which have the
// same phaseset value. When importing data from VCF, if the genotype
// data was phased but no phase set was specified this field will be set
// to `*`.
Phaseset string `json:"phaseset,omitempty"`
// ForceSendFields is a list of field names (e.g. "CallSetId") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *VariantCall) MarshalJSON() ([]byte, error) {
type noMethod VariantCall
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// VariantCallInfo: A map of additional variant call information. This
// must be of the form map (string key mapping to a list of string
// values).
type VariantCallInfo struct {
}
// VariantSet: A variant set is a collection of call sets and variants.
// It contains summary statistics of those contents. A variant set
// belongs to a dataset. For more genomics resource definitions, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
type VariantSet struct {
// DatasetId: The dataset to which this variant set belongs.
DatasetId string `json:"datasetId,omitempty"`
// Id: The server-generated variant set ID, unique across all variant
// sets.
Id string `json:"id,omitempty"`
// Metadata: The metadata associated with this variant set.
Metadata []*VariantSetMetadata `json:"metadata,omitempty"`
// ReferenceBounds: A list of all references used by the variants in a
// variant set with associated coordinate upper bounds for each one.
ReferenceBounds []*ReferenceBound `json:"referenceBounds,omitempty"`
// ReferenceSetId: The reference set to which the variant set is mapped.
// The reference set describes the alignment provenance of the variant
// set, while the `referenceBounds` describe the shape of the actual
// variant data. The reference set's reference names are a superset of
// those found in the `referenceBounds`. For example, given a variant
// set that is mapped to the GRCh38 reference set and contains a single
// variant on reference 'X', `referenceBounds` would contain only an
// entry for 'X', while the associated reference set enumerates all
// possible references: '1', '2', 'X', 'Y', 'MT', etc.
ReferenceSetId string `json:"referenceSetId,omitempty"`
// ServerResponse contains the HTTP response code and headers from the
// server.
googleapi.ServerResponse `json:"-"`
// ForceSendFields is a list of field names (e.g. "DatasetId") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *VariantSet) MarshalJSON() ([]byte, error) {
type noMethod VariantSet
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// VariantSetMetadata: Metadata describes a single piece of variant call
// metadata. These data include a top level key and either a single
// value string (value) or a list of key-value pairs (info.) Value and
// info are mutually exclusive.
type VariantSetMetadata struct {
// Description: A textual description of this metadata.
Description string `json:"description,omitempty"`
// Id: User-provided ID field, not enforced by this API. Two or more
// pieces of structured metadata with identical id and key fields are
// considered equivalent.
Id string `json:"id,omitempty"`
// Info: Remaining structured metadata key-value pairs. This must be of
// the form map (string key mapping to a list of string values).
Info *VariantSetMetadataInfo `json:"info,omitempty"`
// Key: The top-level key.
Key string `json:"key,omitempty"`
// Number: The number of values that can be included in a field
// described by this metadata.
Number string `json:"number,omitempty"`
// Type: The type of data. Possible types include: Integer, Float, Flag,
// Character, and String.
//
// Possible values:
// "TYPE_UNSPECIFIED"
// "INTEGER"
// "FLOAT"
// "FLAG"
// "CHARACTER"
// "STRING"
Type string `json:"type,omitempty"`
// Value: The value field for simple metadata
Value string `json:"value,omitempty"`
// ForceSendFields is a list of field names (e.g. "Description") to
// unconditionally include in API requests. By default, fields with
// empty values are omitted from API requests. However, any non-pointer,
// non-interface field appearing in ForceSendFields will be sent to the
// server regardless of whether the field is empty or not. This may be
// used to include empty fields in Patch requests.
ForceSendFields []string `json:"-"`
}
func (s *VariantSetMetadata) MarshalJSON() ([]byte, error) {
type noMethod VariantSetMetadata
raw := noMethod(*s)
return gensupport.MarshalJSON(raw, s.ForceSendFields)
}
// VariantSetMetadataInfo: Remaining structured metadata key-value
// pairs. This must be of the form map (string key mapping to a list of
// string values).
type VariantSetMetadataInfo struct {
}
// method id "genomics.callsets.create":
type CallsetsCreateCall struct {
s *Service
callset *CallSet
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Create: Creates a new call set. For the definitions of call sets and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *CallsetsService) Create(callset *CallSet) *CallsetsCreateCall {
c := &CallsetsCreateCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.callset = callset
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *CallsetsCreateCall) Fields(s ...googleapi.Field) *CallsetsCreateCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *CallsetsCreateCall) Context(ctx context.Context) *CallsetsCreateCall {
c.ctx_ = ctx
return c
}
func (c *CallsetsCreateCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.callset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/callsets")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.callsets.create" call.
// Exactly one of *CallSet or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *CallSet.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *CallsetsCreateCall) Do(opts ...googleapi.CallOption) (*CallSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &CallSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Creates a new call set. For the definitions of call sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "POST",
// "id": "genomics.callsets.create",
// "path": "v1/callsets",
// "request": {
// "$ref": "CallSet"
// },
// "response": {
// "$ref": "CallSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.callsets.delete":
type CallsetsDeleteCall struct {
s *Service
callSetId string
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Delete: Deletes a call set. For the definitions of call sets and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *CallsetsService) Delete(callSetId string) *CallsetsDeleteCall {
c := &CallsetsDeleteCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.callSetId = callSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *CallsetsDeleteCall) Fields(s ...googleapi.Field) *CallsetsDeleteCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *CallsetsDeleteCall) Context(ctx context.Context) *CallsetsDeleteCall {
c.ctx_ = ctx
return c
}
func (c *CallsetsDeleteCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/callsets/{callSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("DELETE", urls, body)
googleapi.Expand(req.URL, map[string]string{
"callSetId": c.callSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.callsets.delete" call.
// Exactly one of *Empty or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Empty.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *CallsetsDeleteCall) Do(opts ...googleapi.CallOption) (*Empty, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Empty{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Deletes a call set. For the definitions of call sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "DELETE",
// "id": "genomics.callsets.delete",
// "parameterOrder": [
// "callSetId"
// ],
// "parameters": {
// "callSetId": {
// "description": "The ID of the call set to be deleted.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/callsets/{callSetId}",
// "response": {
// "$ref": "Empty"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.callsets.get":
type CallsetsGetCall struct {
s *Service
callSetId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a call set by ID. For the definitions of call sets and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *CallsetsService) Get(callSetId string) *CallsetsGetCall {
c := &CallsetsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.callSetId = callSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *CallsetsGetCall) Fields(s ...googleapi.Field) *CallsetsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *CallsetsGetCall) IfNoneMatch(entityTag string) *CallsetsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *CallsetsGetCall) Context(ctx context.Context) *CallsetsGetCall {
c.ctx_ = ctx
return c
}
func (c *CallsetsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/callsets/{callSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"callSetId": c.callSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.callsets.get" call.
// Exactly one of *CallSet or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *CallSet.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *CallsetsGetCall) Do(opts ...googleapi.CallOption) (*CallSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &CallSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a call set by ID. For the definitions of call sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "GET",
// "id": "genomics.callsets.get",
// "parameterOrder": [
// "callSetId"
// ],
// "parameters": {
// "callSetId": {
// "description": "The ID of the call set.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/callsets/{callSetId}",
// "response": {
// "$ref": "CallSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.callsets.patch":
type CallsetsPatchCall struct {
s *Service
callSetId string
callset *CallSet
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Patch: Updates a call set. For the definitions of call sets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) This method supports patch semantics.
func (r *CallsetsService) Patch(callSetId string, callset *CallSet) *CallsetsPatchCall {
c := &CallsetsPatchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.callSetId = callSetId
c.callset = callset
return c
}
// UpdateMask sets the optional parameter "updateMask": An optional mask
// specifying which fields to update. At this time, the only mutable
// field is name. The only acceptable value is "name". If unspecified,
// all mutable fields will be updated.
func (c *CallsetsPatchCall) UpdateMask(updateMask string) *CallsetsPatchCall {
c.urlParams_.Set("updateMask", updateMask)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *CallsetsPatchCall) Fields(s ...googleapi.Field) *CallsetsPatchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *CallsetsPatchCall) Context(ctx context.Context) *CallsetsPatchCall {
c.ctx_ = ctx
return c
}
func (c *CallsetsPatchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.callset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/callsets/{callSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("PATCH", urls, body)
googleapi.Expand(req.URL, map[string]string{
"callSetId": c.callSetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.callsets.patch" call.
// Exactly one of *CallSet or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *CallSet.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *CallsetsPatchCall) Do(opts ...googleapi.CallOption) (*CallSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &CallSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Updates a call set. For the definitions of call sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) This method supports patch semantics.",
// "httpMethod": "PATCH",
// "id": "genomics.callsets.patch",
// "parameterOrder": [
// "callSetId"
// ],
// "parameters": {
// "callSetId": {
// "description": "The ID of the call set to be updated.",
// "location": "path",
// "required": true,
// "type": "string"
// },
// "updateMask": {
// "description": "An optional mask specifying which fields to update. At this time, the only mutable field is name. The only acceptable value is \"name\". If unspecified, all mutable fields will be updated.",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/callsets/{callSetId}",
// "request": {
// "$ref": "CallSet"
// },
// "response": {
// "$ref": "CallSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.callsets.search":
type CallsetsSearchCall struct {
s *Service
searchcallsetsrequest *SearchCallSetsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Gets a list of call sets matching the criteria. For the
// definitions of call sets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.searchCallSets](https://github.com/ga4gh/schemas/bl
// ob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L178).
func (r *CallsetsService) Search(searchcallsetsrequest *SearchCallSetsRequest) *CallsetsSearchCall {
c := &CallsetsSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchcallsetsrequest = searchcallsetsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *CallsetsSearchCall) Fields(s ...googleapi.Field) *CallsetsSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *CallsetsSearchCall) Context(ctx context.Context) *CallsetsSearchCall {
c.ctx_ = ctx
return c
}
func (c *CallsetsSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchcallsetsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/callsets/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.callsets.search" call.
// Exactly one of *SearchCallSetsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *SearchCallSetsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *CallsetsSearchCall) Do(opts ...googleapi.CallOption) (*SearchCallSetsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchCallSetsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a list of call sets matching the criteria. For the definitions of call sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchCallSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L178).",
// "httpMethod": "POST",
// "id": "genomics.callsets.search",
// "path": "v1/callsets/search",
// "request": {
// "$ref": "SearchCallSetsRequest"
// },
// "response": {
// "$ref": "SearchCallSetsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.datasets.create":
type DatasetsCreateCall struct {
s *Service
dataset *Dataset
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Create: Creates a new dataset. For the definitions of datasets and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *DatasetsService) Create(dataset *Dataset) *DatasetsCreateCall {
c := &DatasetsCreateCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.dataset = dataset
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsCreateCall) Fields(s ...googleapi.Field) *DatasetsCreateCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsCreateCall) Context(ctx context.Context) *DatasetsCreateCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsCreateCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.dataset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/datasets")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.create" call.
// Exactly one of *Dataset or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Dataset.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsCreateCall) Do(opts ...googleapi.CallOption) (*Dataset, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Dataset{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Creates a new dataset. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "POST",
// "id": "genomics.datasets.create",
// "path": "v1/datasets",
// "request": {
// "$ref": "Dataset"
// },
// "response": {
// "$ref": "Dataset"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.datasets.delete":
type DatasetsDeleteCall struct {
s *Service
datasetId string
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Delete: Deletes a dataset. For the definitions of datasets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *DatasetsService) Delete(datasetId string) *DatasetsDeleteCall {
c := &DatasetsDeleteCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.datasetId = datasetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsDeleteCall) Fields(s ...googleapi.Field) *DatasetsDeleteCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsDeleteCall) Context(ctx context.Context) *DatasetsDeleteCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsDeleteCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/datasets/{datasetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("DELETE", urls, body)
googleapi.Expand(req.URL, map[string]string{
"datasetId": c.datasetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.delete" call.
// Exactly one of *Empty or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Empty.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsDeleteCall) Do(opts ...googleapi.CallOption) (*Empty, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Empty{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Deletes a dataset. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "DELETE",
// "id": "genomics.datasets.delete",
// "parameterOrder": [
// "datasetId"
// ],
// "parameters": {
// "datasetId": {
// "description": "The ID of the dataset to be deleted.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/datasets/{datasetId}",
// "response": {
// "$ref": "Empty"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.datasets.get":
type DatasetsGetCall struct {
s *Service
datasetId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a dataset by ID. For the definitions of datasets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *DatasetsService) Get(datasetId string) *DatasetsGetCall {
c := &DatasetsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.datasetId = datasetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsGetCall) Fields(s ...googleapi.Field) *DatasetsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *DatasetsGetCall) IfNoneMatch(entityTag string) *DatasetsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsGetCall) Context(ctx context.Context) *DatasetsGetCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/datasets/{datasetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"datasetId": c.datasetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.get" call.
// Exactly one of *Dataset or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Dataset.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsGetCall) Do(opts ...googleapi.CallOption) (*Dataset, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Dataset{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a dataset by ID. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "GET",
// "id": "genomics.datasets.get",
// "parameterOrder": [
// "datasetId"
// ],
// "parameters": {
// "datasetId": {
// "description": "The ID of the dataset.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/datasets/{datasetId}",
// "response": {
// "$ref": "Dataset"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.datasets.getIamPolicy":
type DatasetsGetIamPolicyCall struct {
s *Service
resource string
getiampolicyrequest *GetIamPolicyRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// GetIamPolicy: Gets the access control policy for the dataset. This is
// empty if the policy or resource does not exist. See Getting a Policy
// for more information. For the definitions of datasets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *DatasetsService) GetIamPolicy(resource string, getiampolicyrequest *GetIamPolicyRequest) *DatasetsGetIamPolicyCall {
c := &DatasetsGetIamPolicyCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.resource = resource
c.getiampolicyrequest = getiampolicyrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsGetIamPolicyCall) Fields(s ...googleapi.Field) *DatasetsGetIamPolicyCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsGetIamPolicyCall) Context(ctx context.Context) *DatasetsGetIamPolicyCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsGetIamPolicyCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.getiampolicyrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/{+resource}:getIamPolicy")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"resource": c.resource,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.getIamPolicy" call.
// Exactly one of *Policy or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Policy.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsGetIamPolicyCall) Do(opts ...googleapi.CallOption) (*Policy, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Policy{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets the access control policy for the dataset. This is empty if the policy or resource does not exist. See Getting a Policy for more information. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "POST",
// "id": "genomics.datasets.getIamPolicy",
// "parameterOrder": [
// "resource"
// ],
// "parameters": {
// "resource": {
// "description": "REQUIRED: The resource for which policy is being specified. Format is `datasets/`.",
// "location": "path",
// "pattern": "^datasets/[^/]*$",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/{+resource}:getIamPolicy",
// "request": {
// "$ref": "GetIamPolicyRequest"
// },
// "response": {
// "$ref": "Policy"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.datasets.list":
type DatasetsListCall struct {
s *Service
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// List: Lists datasets within a project. For the definitions of
// datasets and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *DatasetsService) List() *DatasetsListCall {
c := &DatasetsListCall{s: r.s, urlParams_: make(gensupport.URLParams)}
return c
}
// PageSize sets the optional parameter "pageSize": The maximum number
// of results to return in a single page. If unspecified, defaults to
// 50. The maximum value is 1024.
func (c *DatasetsListCall) PageSize(pageSize int64) *DatasetsListCall {
c.urlParams_.Set("pageSize", fmt.Sprint(pageSize))
return c
}
// PageToken sets the optional parameter "pageToken": 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.
func (c *DatasetsListCall) PageToken(pageToken string) *DatasetsListCall {
c.urlParams_.Set("pageToken", pageToken)
return c
}
// ProjectId sets the optional parameter "projectId": Required. The
// project to list datasets for.
func (c *DatasetsListCall) ProjectId(projectId string) *DatasetsListCall {
c.urlParams_.Set("projectId", projectId)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsListCall) Fields(s ...googleapi.Field) *DatasetsListCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *DatasetsListCall) IfNoneMatch(entityTag string) *DatasetsListCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsListCall) Context(ctx context.Context) *DatasetsListCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsListCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/datasets")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.list" call.
// Exactly one of *ListDatasetsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *ListDatasetsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *DatasetsListCall) Do(opts ...googleapi.CallOption) (*ListDatasetsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ListDatasetsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Lists datasets within a project. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "GET",
// "id": "genomics.datasets.list",
// "parameters": {
// "pageSize": {
// "description": "The maximum number of results to return in a single page. If unspecified, defaults to 50. The maximum value is 1024.",
// "format": "int32",
// "location": "query",
// "type": "integer"
// },
// "pageToken": {
// "description": "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.",
// "location": "query",
// "type": "string"
// },
// "projectId": {
// "description": "Required. The project to list datasets for.",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/datasets",
// "response": {
// "$ref": "ListDatasetsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.datasets.patch":
type DatasetsPatchCall struct {
s *Service
datasetId string
dataset *Dataset
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Patch: Updates a dataset. For the definitions of datasets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) This method supports patch semantics.
func (r *DatasetsService) Patch(datasetId string, dataset *Dataset) *DatasetsPatchCall {
c := &DatasetsPatchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.datasetId = datasetId
c.dataset = dataset
return c
}
// UpdateMask sets the optional parameter "updateMask": An optional mask
// specifying which fields to update. At this time, the only mutable
// field is name. The only acceptable value is "name". If unspecified,
// all mutable fields will be updated.
func (c *DatasetsPatchCall) UpdateMask(updateMask string) *DatasetsPatchCall {
c.urlParams_.Set("updateMask", updateMask)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsPatchCall) Fields(s ...googleapi.Field) *DatasetsPatchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsPatchCall) Context(ctx context.Context) *DatasetsPatchCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsPatchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.dataset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/datasets/{datasetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("PATCH", urls, body)
googleapi.Expand(req.URL, map[string]string{
"datasetId": c.datasetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.patch" call.
// Exactly one of *Dataset or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Dataset.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsPatchCall) Do(opts ...googleapi.CallOption) (*Dataset, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Dataset{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Updates a dataset. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) This method supports patch semantics.",
// "httpMethod": "PATCH",
// "id": "genomics.datasets.patch",
// "parameterOrder": [
// "datasetId"
// ],
// "parameters": {
// "datasetId": {
// "description": "The ID of the dataset to be updated.",
// "location": "path",
// "required": true,
// "type": "string"
// },
// "updateMask": {
// "description": "An optional mask specifying which fields to update. At this time, the only mutable field is name. The only acceptable value is \"name\". If unspecified, all mutable fields will be updated.",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/datasets/{datasetId}",
// "request": {
// "$ref": "Dataset"
// },
// "response": {
// "$ref": "Dataset"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.datasets.setIamPolicy":
type DatasetsSetIamPolicyCall struct {
s *Service
resource string
setiampolicyrequest *SetIamPolicyRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// SetIamPolicy: Sets the access control policy on the specified
// dataset. Replaces any existing policy. For the definitions of
// datasets and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) See Setting a Policy for more information.
func (r *DatasetsService) SetIamPolicy(resource string, setiampolicyrequest *SetIamPolicyRequest) *DatasetsSetIamPolicyCall {
c := &DatasetsSetIamPolicyCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.resource = resource
c.setiampolicyrequest = setiampolicyrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsSetIamPolicyCall) Fields(s ...googleapi.Field) *DatasetsSetIamPolicyCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsSetIamPolicyCall) Context(ctx context.Context) *DatasetsSetIamPolicyCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsSetIamPolicyCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.setiampolicyrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/{+resource}:setIamPolicy")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"resource": c.resource,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.setIamPolicy" call.
// Exactly one of *Policy or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Policy.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsSetIamPolicyCall) Do(opts ...googleapi.CallOption) (*Policy, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Policy{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Sets the access control policy on the specified dataset. Replaces any existing policy. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) See Setting a Policy for more information.",
// "httpMethod": "POST",
// "id": "genomics.datasets.setIamPolicy",
// "parameterOrder": [
// "resource"
// ],
// "parameters": {
// "resource": {
// "description": "REQUIRED: The resource for which policy is being specified. Format is `datasets/`.",
// "location": "path",
// "pattern": "^datasets/[^/]*$",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/{+resource}:setIamPolicy",
// "request": {
// "$ref": "SetIamPolicyRequest"
// },
// "response": {
// "$ref": "Policy"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.datasets.testIamPermissions":
type DatasetsTestIamPermissionsCall struct {
s *Service
resource string
testiampermissionsrequest *TestIamPermissionsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// TestIamPermissions: Returns permissions that a caller has on the
// specified resource. See Testing Permissions for more information. For
// the definitions of datasets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *DatasetsService) TestIamPermissions(resource string, testiampermissionsrequest *TestIamPermissionsRequest) *DatasetsTestIamPermissionsCall {
c := &DatasetsTestIamPermissionsCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.resource = resource
c.testiampermissionsrequest = testiampermissionsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsTestIamPermissionsCall) Fields(s ...googleapi.Field) *DatasetsTestIamPermissionsCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsTestIamPermissionsCall) Context(ctx context.Context) *DatasetsTestIamPermissionsCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsTestIamPermissionsCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.testiampermissionsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/{+resource}:testIamPermissions")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"resource": c.resource,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.testIamPermissions" call.
// Exactly one of *TestIamPermissionsResponse or error will be non-nil.
// Any non-2xx status code is an error. Response headers are in either
// *TestIamPermissionsResponse.ServerResponse.Header or (if a response
// was returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *DatasetsTestIamPermissionsCall) Do(opts ...googleapi.CallOption) (*TestIamPermissionsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &TestIamPermissionsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Returns permissions that a caller has on the specified resource. See Testing Permissions for more information. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "POST",
// "id": "genomics.datasets.testIamPermissions",
// "parameterOrder": [
// "resource"
// ],
// "parameters": {
// "resource": {
// "description": "REQUIRED: The resource for which policy is being specified. Format is `datasets/`.",
// "location": "path",
// "pattern": "^datasets/[^/]*$",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/{+resource}:testIamPermissions",
// "request": {
// "$ref": "TestIamPermissionsRequest"
// },
// "response": {
// "$ref": "TestIamPermissionsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.datasets.undelete":
type DatasetsUndeleteCall struct {
s *Service
datasetId string
undeletedatasetrequest *UndeleteDatasetRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Undelete: Undeletes a dataset by restoring a dataset which was
// deleted via this API. For the definitions of datasets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) This operation is only possible for a week after the deletion
// occurred.
func (r *DatasetsService) Undelete(datasetId string, undeletedatasetrequest *UndeleteDatasetRequest) *DatasetsUndeleteCall {
c := &DatasetsUndeleteCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.datasetId = datasetId
c.undeletedatasetrequest = undeletedatasetrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *DatasetsUndeleteCall) Fields(s ...googleapi.Field) *DatasetsUndeleteCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *DatasetsUndeleteCall) Context(ctx context.Context) *DatasetsUndeleteCall {
c.ctx_ = ctx
return c
}
func (c *DatasetsUndeleteCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.undeletedatasetrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/datasets/{datasetId}:undelete")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"datasetId": c.datasetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.datasets.undelete" call.
// Exactly one of *Dataset or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Dataset.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *DatasetsUndeleteCall) Do(opts ...googleapi.CallOption) (*Dataset, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Dataset{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Undeletes a dataset by restoring a dataset which was deleted via this API. For the definitions of datasets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) This operation is only possible for a week after the deletion occurred.",
// "httpMethod": "POST",
// "id": "genomics.datasets.undelete",
// "parameterOrder": [
// "datasetId"
// ],
// "parameters": {
// "datasetId": {
// "description": "The ID of the dataset to be undeleted.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/datasets/{datasetId}:undelete",
// "request": {
// "$ref": "UndeleteDatasetRequest"
// },
// "response": {
// "$ref": "Dataset"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.operations.cancel":
type OperationsCancelCall struct {
s *Service
name string
canceloperationrequest *CancelOperationRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Cancel: Starts asynchronous cancellation on a long-running operation.
// The server makes a best effort to cancel the operation, but success
// is not guaranteed. Clients may use Operations.GetOperation or
// Operations.ListOperations to check whether the cancellation succeeded
// or the operation completed despite cancellation.
func (r *OperationsService) Cancel(name string, canceloperationrequest *CancelOperationRequest) *OperationsCancelCall {
c := &OperationsCancelCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.name = name
c.canceloperationrequest = canceloperationrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *OperationsCancelCall) Fields(s ...googleapi.Field) *OperationsCancelCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *OperationsCancelCall) Context(ctx context.Context) *OperationsCancelCall {
c.ctx_ = ctx
return c
}
func (c *OperationsCancelCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.canceloperationrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/{+name}:cancel")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"name": c.name,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.operations.cancel" call.
// Exactly one of *Empty or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Empty.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *OperationsCancelCall) Do(opts ...googleapi.CallOption) (*Empty, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Empty{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Starts asynchronous cancellation on a long-running operation. The server makes a best effort to cancel the operation, but success is not guaranteed. Clients may use Operations.GetOperation or Operations.ListOperations to check whether the cancellation succeeded or the operation completed despite cancellation.",
// "httpMethod": "POST",
// "id": "genomics.operations.cancel",
// "parameterOrder": [
// "name"
// ],
// "parameters": {
// "name": {
// "description": "The name of the operation resource to be cancelled.",
// "location": "path",
// "pattern": "^operations/.*$",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/{+name}:cancel",
// "request": {
// "$ref": "CancelOperationRequest"
// },
// "response": {
// "$ref": "Empty"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.operations.get":
type OperationsGetCall struct {
s *Service
name string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets the latest state of a long-running operation. Clients can
// use this method to poll the operation result at intervals as
// recommended by the API service.
func (r *OperationsService) Get(name string) *OperationsGetCall {
c := &OperationsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.name = name
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *OperationsGetCall) Fields(s ...googleapi.Field) *OperationsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *OperationsGetCall) IfNoneMatch(entityTag string) *OperationsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *OperationsGetCall) Context(ctx context.Context) *OperationsGetCall {
c.ctx_ = ctx
return c
}
func (c *OperationsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/{+name}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"name": c.name,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.operations.get" call.
// Exactly one of *Operation or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *Operation.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *OperationsGetCall) Do(opts ...googleapi.CallOption) (*Operation, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Operation{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets the latest state of a long-running operation. Clients can use this method to poll the operation result at intervals as recommended by the API service.",
// "httpMethod": "GET",
// "id": "genomics.operations.get",
// "parameterOrder": [
// "name"
// ],
// "parameters": {
// "name": {
// "description": "The name of the operation resource.",
// "location": "path",
// "pattern": "^operations/.*$",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/{+name}",
// "response": {
// "$ref": "Operation"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.operations.list":
type OperationsListCall struct {
s *Service
name string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// List: Lists operations that match the specified filter in the
// request.
func (r *OperationsService) List(name string) *OperationsListCall {
c := &OperationsListCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.name = name
return c
}
// Filter sets the optional parameter "filter": A string for filtering
// Operations. The following filter fields are supported: * projectId:
// Required. Corresponds to OperationMetadata.projectId. * createTime:
// The time this job was created, in seconds from the
// [epoch](http://en.wikipedia.org/wiki/Unix_time). Can use `>=` and/or
// `= 1432140000` * `projectId = my-project AND createTime >= 1432140000
// AND createTime <= 1432150000 AND status = RUNNING`
func (c *OperationsListCall) Filter(filter string) *OperationsListCall {
c.urlParams_.Set("filter", filter)
return c
}
// PageSize sets the optional parameter "pageSize": The maximum number
// of results to return. If unspecified, defaults to 256. The maximum
// value is 2048.
func (c *OperationsListCall) PageSize(pageSize int64) *OperationsListCall {
c.urlParams_.Set("pageSize", fmt.Sprint(pageSize))
return c
}
// PageToken sets the optional parameter "pageToken": The standard list
// page token.
func (c *OperationsListCall) PageToken(pageToken string) *OperationsListCall {
c.urlParams_.Set("pageToken", pageToken)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *OperationsListCall) Fields(s ...googleapi.Field) *OperationsListCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *OperationsListCall) IfNoneMatch(entityTag string) *OperationsListCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *OperationsListCall) Context(ctx context.Context) *OperationsListCall {
c.ctx_ = ctx
return c
}
func (c *OperationsListCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/{+name}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"name": c.name,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.operations.list" call.
// Exactly one of *ListOperationsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *ListOperationsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *OperationsListCall) Do(opts ...googleapi.CallOption) (*ListOperationsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ListOperationsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Lists operations that match the specified filter in the request.",
// "httpMethod": "GET",
// "id": "genomics.operations.list",
// "parameterOrder": [
// "name"
// ],
// "parameters": {
// "filter": {
// "description": "A string for filtering Operations. The following filter fields are supported: * projectId: Required. Corresponds to OperationMetadata.projectId. * createTime: The time this job was created, in seconds from the [epoch](http://en.wikipedia.org/wiki/Unix_time). Can use `\u003e=` and/or `= 1432140000` * `projectId = my-project AND createTime \u003e= 1432140000 AND createTime \u003c= 1432150000 AND status = RUNNING`",
// "location": "query",
// "type": "string"
// },
// "name": {
// "description": "The name of the operation collection.",
// "location": "path",
// "pattern": "^operations$",
// "required": true,
// "type": "string"
// },
// "pageSize": {
// "description": "The maximum number of results to return. If unspecified, defaults to 256. The maximum value is 2048.",
// "format": "int32",
// "location": "query",
// "type": "integer"
// },
// "pageToken": {
// "description": "The standard list page token.",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/{+name}",
// "response": {
// "$ref": "ListOperationsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.readgroupsets.delete":
type ReadgroupsetsDeleteCall struct {
s *Service
readGroupSetId string
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Delete: Deletes a read group set. For the definitions of read group
// sets and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *ReadgroupsetsService) Delete(readGroupSetId string) *ReadgroupsetsDeleteCall {
c := &ReadgroupsetsDeleteCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.readGroupSetId = readGroupSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsDeleteCall) Fields(s ...googleapi.Field) *ReadgroupsetsDeleteCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsDeleteCall) Context(ctx context.Context) *ReadgroupsetsDeleteCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsDeleteCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets/{readGroupSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("DELETE", urls, body)
googleapi.Expand(req.URL, map[string]string{
"readGroupSetId": c.readGroupSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.delete" call.
// Exactly one of *Empty or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Empty.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *ReadgroupsetsDeleteCall) Do(opts ...googleapi.CallOption) (*Empty, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Empty{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Deletes a read group set. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "DELETE",
// "id": "genomics.readgroupsets.delete",
// "parameterOrder": [
// "readGroupSetId"
// ],
// "parameters": {
// "readGroupSetId": {
// "description": "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.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/readgroupsets/{readGroupSetId}",
// "response": {
// "$ref": "Empty"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.readgroupsets.export":
type ReadgroupsetsExportCall struct {
s *Service
readGroupSetId string
exportreadgroupsetrequest *ExportReadGroupSetRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Export: Exports a read group set to a BAM file in Google Cloud
// Storage. For the definitions of read group sets and other genomics
// resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Note that currently there may be some differences between
// exported BAM files and the original BAM file at the time of import.
// See
// [ImportReadGroupSets](google.genomics.v1.ReadServiceV1.ImportReadGroup
// Sets) for caveats.
func (r *ReadgroupsetsService) Export(readGroupSetId string, exportreadgroupsetrequest *ExportReadGroupSetRequest) *ReadgroupsetsExportCall {
c := &ReadgroupsetsExportCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.readGroupSetId = readGroupSetId
c.exportreadgroupsetrequest = exportreadgroupsetrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsExportCall) Fields(s ...googleapi.Field) *ReadgroupsetsExportCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsExportCall) Context(ctx context.Context) *ReadgroupsetsExportCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsExportCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.exportreadgroupsetrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets/{readGroupSetId}:export")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"readGroupSetId": c.readGroupSetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.export" call.
// Exactly one of *Operation or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *Operation.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *ReadgroupsetsExportCall) Do(opts ...googleapi.CallOption) (*Operation, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Operation{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Exports a read group set to a BAM file in Google Cloud Storage. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Note that currently there may be some differences between exported BAM files and the original BAM file at the time of import. See [ImportReadGroupSets](google.genomics.v1.ReadServiceV1.ImportReadGroupSets) for caveats.",
// "httpMethod": "POST",
// "id": "genomics.readgroupsets.export",
// "parameterOrder": [
// "readGroupSetId"
// ],
// "parameters": {
// "readGroupSetId": {
// "description": "Required. The ID of the read group set to export. The caller must have READ access to this read group set.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/readgroupsets/{readGroupSetId}:export",
// "request": {
// "$ref": "ExportReadGroupSetRequest"
// },
// "response": {
// "$ref": "Operation"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/devstorage.read_write",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.readgroupsets.get":
type ReadgroupsetsGetCall struct {
s *Service
readGroupSetId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a read group set by ID. For the definitions of read group
// sets and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *ReadgroupsetsService) Get(readGroupSetId string) *ReadgroupsetsGetCall {
c := &ReadgroupsetsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.readGroupSetId = readGroupSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsGetCall) Fields(s ...googleapi.Field) *ReadgroupsetsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *ReadgroupsetsGetCall) IfNoneMatch(entityTag string) *ReadgroupsetsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsGetCall) Context(ctx context.Context) *ReadgroupsetsGetCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets/{readGroupSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"readGroupSetId": c.readGroupSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.get" call.
// Exactly one of *ReadGroupSet or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *ReadGroupSet.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *ReadgroupsetsGetCall) Do(opts ...googleapi.CallOption) (*ReadGroupSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ReadGroupSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a read group set by ID. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "GET",
// "id": "genomics.readgroupsets.get",
// "parameterOrder": [
// "readGroupSetId"
// ],
// "parameters": {
// "readGroupSetId": {
// "description": "The ID of the read group set.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/readgroupsets/{readGroupSetId}",
// "response": {
// "$ref": "ReadGroupSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.readgroupsets.import":
type ReadgroupsetsImportCall struct {
s *Service
importreadgroupsetsrequest *ImportReadGroupSetsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Import: Creates read group sets by asynchronously importing the
// provided information. For the definitions of read group sets and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) The caller must have WRITE permissions to the dataset. ##
// Notes on [BAM](https://samtools.github.io/hts-specs/SAMv1.pdf) import
// - Tags will be converted to strings - tag types are not preserved -
// Comments (`@CO`) in the input file header will not be preserved -
// Original header order of references (`@SQ`) will not be preserved -
// Any reverse stranded unmapped reads will be reverse complemented, and
// their qualities (and "BQ" tag, if any) will be reversed - Unmapped
// reads will be stripped of positional information (reference name and
// position)
func (r *ReadgroupsetsService) Import(importreadgroupsetsrequest *ImportReadGroupSetsRequest) *ReadgroupsetsImportCall {
c := &ReadgroupsetsImportCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.importreadgroupsetsrequest = importreadgroupsetsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsImportCall) Fields(s ...googleapi.Field) *ReadgroupsetsImportCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsImportCall) Context(ctx context.Context) *ReadgroupsetsImportCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsImportCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.importreadgroupsetsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets:import")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.import" call.
// Exactly one of *Operation or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *Operation.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *ReadgroupsetsImportCall) Do(opts ...googleapi.CallOption) (*Operation, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Operation{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Creates read group sets by asynchronously importing the provided information. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) The caller must have WRITE permissions to the dataset. ## Notes on [BAM](https://samtools.github.io/hts-specs/SAMv1.pdf) import - Tags will be converted to strings - tag types are not preserved - Comments (`@CO`) in the input file header will not be preserved - Original header order of references (`@SQ`) will not be preserved - Any reverse stranded unmapped reads will be reverse complemented, and their qualities (and \"BQ\" tag, if any) will be reversed - Unmapped reads will be stripped of positional information (reference name and position)",
// "httpMethod": "POST",
// "id": "genomics.readgroupsets.import",
// "path": "v1/readgroupsets:import",
// "request": {
// "$ref": "ImportReadGroupSetsRequest"
// },
// "response": {
// "$ref": "Operation"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/devstorage.read_write",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.readgroupsets.patch":
type ReadgroupsetsPatchCall struct {
s *Service
readGroupSetId string
readgroupset *ReadGroupSet
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Patch: Updates a read group set. For the definitions of read group
// sets and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) This method supports patch semantics.
func (r *ReadgroupsetsService) Patch(readGroupSetId string, readgroupset *ReadGroupSet) *ReadgroupsetsPatchCall {
c := &ReadgroupsetsPatchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.readGroupSetId = readGroupSetId
c.readgroupset = readgroupset
return c
}
// UpdateMask sets the optional parameter "updateMask": An optional mask
// specifying which fields to update. Supported fields: * name. *
// referenceSetId. Leaving `updateMask` unset is equivalent to
// specifying all mutable fields.
func (c *ReadgroupsetsPatchCall) UpdateMask(updateMask string) *ReadgroupsetsPatchCall {
c.urlParams_.Set("updateMask", updateMask)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsPatchCall) Fields(s ...googleapi.Field) *ReadgroupsetsPatchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsPatchCall) Context(ctx context.Context) *ReadgroupsetsPatchCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsPatchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.readgroupset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets/{readGroupSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("PATCH", urls, body)
googleapi.Expand(req.URL, map[string]string{
"readGroupSetId": c.readGroupSetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.patch" call.
// Exactly one of *ReadGroupSet or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *ReadGroupSet.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *ReadgroupsetsPatchCall) Do(opts ...googleapi.CallOption) (*ReadGroupSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ReadGroupSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Updates a read group set. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) This method supports patch semantics.",
// "httpMethod": "PATCH",
// "id": "genomics.readgroupsets.patch",
// "parameterOrder": [
// "readGroupSetId"
// ],
// "parameters": {
// "readGroupSetId": {
// "description": "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.",
// "location": "path",
// "required": true,
// "type": "string"
// },
// "updateMask": {
// "description": "An optional mask specifying which fields to update. Supported fields: * name. * referenceSetId. Leaving `updateMask` unset is equivalent to specifying all mutable fields.",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/readgroupsets/{readGroupSetId}",
// "request": {
// "$ref": "ReadGroupSet"
// },
// "response": {
// "$ref": "ReadGroupSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.readgroupsets.search":
type ReadgroupsetsSearchCall struct {
s *Service
searchreadgroupsetsrequest *SearchReadGroupSetsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Searches for read group sets matching the criteria. For the
// definitions of read group sets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.searchReadGroupSets](https://github.com/ga4gh/schem
// as/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L135).
func (r *ReadgroupsetsService) Search(searchreadgroupsetsrequest *SearchReadGroupSetsRequest) *ReadgroupsetsSearchCall {
c := &ReadgroupsetsSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchreadgroupsetsrequest = searchreadgroupsetsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsSearchCall) Fields(s ...googleapi.Field) *ReadgroupsetsSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsSearchCall) Context(ctx context.Context) *ReadgroupsetsSearchCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchreadgroupsetsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.search" call.
// Exactly one of *SearchReadGroupSetsResponse or error will be non-nil.
// Any non-2xx status code is an error. Response headers are in either
// *SearchReadGroupSetsResponse.ServerResponse.Header or (if a response
// was returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReadgroupsetsSearchCall) Do(opts ...googleapi.CallOption) (*SearchReadGroupSetsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchReadGroupSetsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Searches for read group sets matching the criteria. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchReadGroupSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L135).",
// "httpMethod": "POST",
// "id": "genomics.readgroupsets.search",
// "path": "v1/readgroupsets/search",
// "request": {
// "$ref": "SearchReadGroupSetsRequest"
// },
// "response": {
// "$ref": "SearchReadGroupSetsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.readgroupsets.coveragebuckets.list":
type ReadgroupsetsCoveragebucketsListCall struct {
s *Service
readGroupSetId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// List: 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. For the definitions of read group sets and other genomics
// resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) 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.
func (r *ReadgroupsetsCoveragebucketsService) List(readGroupSetId string) *ReadgroupsetsCoveragebucketsListCall {
c := &ReadgroupsetsCoveragebucketsListCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.readGroupSetId = readGroupSetId
return c
}
// End sets the optional parameter "end": The end position of the range
// on the reference, 0-based exclusive. If specified, `referenceName`
// must also be specified. If unset or 0, defaults to the length of the
// reference.
func (c *ReadgroupsetsCoveragebucketsListCall) End(end int64) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("end", fmt.Sprint(end))
return c
}
// PageSize sets the optional parameter "pageSize": The maximum number
// of results to return in a single page. If unspecified, defaults to
// 1024. The maximum value is 2048.
func (c *ReadgroupsetsCoveragebucketsListCall) PageSize(pageSize int64) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("pageSize", fmt.Sprint(pageSize))
return c
}
// PageToken sets the optional parameter "pageToken": 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.
func (c *ReadgroupsetsCoveragebucketsListCall) PageToken(pageToken string) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("pageToken", pageToken)
return c
}
// ReferenceName sets the optional parameter "referenceName": The name
// of the reference to query, within the reference set associated with
// this query.
func (c *ReadgroupsetsCoveragebucketsListCall) ReferenceName(referenceName string) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("referenceName", referenceName)
return c
}
// Start sets the optional parameter "start": The start position of the
// range on the reference, 0-based inclusive. If specified,
// `referenceName` must also be specified. Defaults to 0.
func (c *ReadgroupsetsCoveragebucketsListCall) Start(start int64) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("start", fmt.Sprint(start))
return c
}
// TargetBucketWidth sets the optional parameter "targetBucketWidth":
// 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.
func (c *ReadgroupsetsCoveragebucketsListCall) TargetBucketWidth(targetBucketWidth int64) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("targetBucketWidth", fmt.Sprint(targetBucketWidth))
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadgroupsetsCoveragebucketsListCall) Fields(s ...googleapi.Field) *ReadgroupsetsCoveragebucketsListCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *ReadgroupsetsCoveragebucketsListCall) IfNoneMatch(entityTag string) *ReadgroupsetsCoveragebucketsListCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadgroupsetsCoveragebucketsListCall) Context(ctx context.Context) *ReadgroupsetsCoveragebucketsListCall {
c.ctx_ = ctx
return c
}
func (c *ReadgroupsetsCoveragebucketsListCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/readgroupsets/{readGroupSetId}/coveragebuckets")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"readGroupSetId": c.readGroupSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.readgroupsets.coveragebuckets.list" call.
// Exactly one of *ListCoverageBucketsResponse or error will be non-nil.
// Any non-2xx status code is an error. Response headers are in either
// *ListCoverageBucketsResponse.ServerResponse.Header or (if a response
// was returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReadgroupsetsCoveragebucketsListCall) Do(opts ...googleapi.CallOption) (*ListCoverageBucketsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ListCoverageBucketsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "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. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) 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.",
// "httpMethod": "GET",
// "id": "genomics.readgroupsets.coveragebuckets.list",
// "parameterOrder": [
// "readGroupSetId"
// ],
// "parameters": {
// "end": {
// "description": "The end position of the range on the reference, 0-based exclusive. If specified, `referenceName` must also be specified. If unset or 0, defaults to the length of the reference.",
// "format": "int64",
// "location": "query",
// "type": "string"
// },
// "pageSize": {
// "description": "The maximum number of results to return in a single page. If unspecified, defaults to 1024. The maximum value is 2048.",
// "format": "int32",
// "location": "query",
// "type": "integer"
// },
// "pageToken": {
// "description": "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.",
// "location": "query",
// "type": "string"
// },
// "readGroupSetId": {
// "description": "Required. The ID of the read group set over which coverage is requested.",
// "location": "path",
// "required": true,
// "type": "string"
// },
// "referenceName": {
// "description": "The name of the reference to query, within the reference set associated with this query. Optional.",
// "location": "query",
// "type": "string"
// },
// "start": {
// "description": "The start position of the range on the reference, 0-based inclusive. If specified, `referenceName` must also be specified. Defaults to 0.",
// "format": "int64",
// "location": "query",
// "type": "string"
// },
// "targetBucketWidth": {
// "description": "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.",
// "format": "int64",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/readgroupsets/{readGroupSetId}/coveragebuckets",
// "response": {
// "$ref": "ListCoverageBucketsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.reads.search":
type ReadsSearchCall struct {
s *Service
searchreadsrequest *SearchReadsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Gets a list of reads for one or more read group sets. For the
// definitions of read group sets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) 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 (by
// reference sequence, then position). Reads with equivalent genomic
// coordinates are returned in an unspecified order. This order is
// consistent, such that two queries for the same content (regardless of
// page size) yield reads in the same order across their respective
// streams of paginated responses. Implements
// [GlobalAllianceApi.searchReads](https://github.com/ga4gh/schemas/blob/
// v0.5.1/src/main/resources/avro/readmethods.avdl#L85).
func (r *ReadsService) Search(searchreadsrequest *SearchReadsRequest) *ReadsSearchCall {
c := &ReadsSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchreadsrequest = searchreadsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadsSearchCall) Fields(s ...googleapi.Field) *ReadsSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadsSearchCall) Context(ctx context.Context) *ReadsSearchCall {
c.ctx_ = ctx
return c
}
func (c *ReadsSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchreadsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/reads/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.reads.search" call.
// Exactly one of *SearchReadsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *SearchReadsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReadsSearchCall) Do(opts ...googleapi.CallOption) (*SearchReadsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchReadsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a list of reads for one or more read group sets. For the definitions of read group sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Reads search operates over a genomic coordinate space of reference sequence \u0026 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 (by reference sequence, then position). Reads with equivalent genomic coordinates are returned in an unspecified order. This order is consistent, such that two queries for the same content (regardless of page size) yield reads in the same order across their respective streams of paginated responses. Implements [GlobalAllianceApi.searchReads](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/readmethods.avdl#L85).",
// "httpMethod": "POST",
// "id": "genomics.reads.search",
// "path": "v1/reads/search",
// "request": {
// "$ref": "SearchReadsRequest"
// },
// "response": {
// "$ref": "SearchReadsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.reads.stream":
type ReadsStreamCall struct {
s *Service
streamreadsrequest *StreamReadsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Stream: Returns a stream of all the reads matching the search
// request, ordered by reference name, position, and ID.
func (r *ReadsService) Stream(streamreadsrequest *StreamReadsRequest) *ReadsStreamCall {
c := &ReadsStreamCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.streamreadsrequest = streamreadsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReadsStreamCall) Fields(s ...googleapi.Field) *ReadsStreamCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReadsStreamCall) Context(ctx context.Context) *ReadsStreamCall {
c.ctx_ = ctx
return c
}
func (c *ReadsStreamCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.streamreadsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/reads:stream")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.reads.stream" call.
// Exactly one of *StreamReadsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *StreamReadsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReadsStreamCall) Do(opts ...googleapi.CallOption) (*StreamReadsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &StreamReadsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Returns a stream of all the reads matching the search request, ordered by reference name, position, and ID.",
// "httpMethod": "POST",
// "id": "genomics.reads.stream",
// "path": "v1/reads:stream",
// "request": {
// "$ref": "StreamReadsRequest"
// },
// "response": {
// "$ref": "StreamReadsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.references.get":
type ReferencesGetCall struct {
s *Service
referenceId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a reference. For the definitions of references and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.getReference](https://github.com/ga4gh/schemas/blob
// /v0.5.1/src/main/resources/avro/referencemethods.avdl#L158).
func (r *ReferencesService) Get(referenceId string) *ReferencesGetCall {
c := &ReferencesGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.referenceId = referenceId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReferencesGetCall) Fields(s ...googleapi.Field) *ReferencesGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *ReferencesGetCall) IfNoneMatch(entityTag string) *ReferencesGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReferencesGetCall) Context(ctx context.Context) *ReferencesGetCall {
c.ctx_ = ctx
return c
}
func (c *ReferencesGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/references/{referenceId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"referenceId": c.referenceId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.references.get" call.
// Exactly one of *Reference or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *Reference.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *ReferencesGetCall) Do(opts ...googleapi.CallOption) (*Reference, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Reference{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a reference. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.getReference](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L158).",
// "httpMethod": "GET",
// "id": "genomics.references.get",
// "parameterOrder": [
// "referenceId"
// ],
// "parameters": {
// "referenceId": {
// "description": "The ID of the reference.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/references/{referenceId}",
// "response": {
// "$ref": "Reference"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.references.search":
type ReferencesSearchCall struct {
s *Service
searchreferencesrequest *SearchReferencesRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Searches for references which match the given criteria. For
// the definitions of references and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.searchReferences](https://github.com/ga4gh/schemas/
// blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L146).
func (r *ReferencesService) Search(searchreferencesrequest *SearchReferencesRequest) *ReferencesSearchCall {
c := &ReferencesSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchreferencesrequest = searchreferencesrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReferencesSearchCall) Fields(s ...googleapi.Field) *ReferencesSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReferencesSearchCall) Context(ctx context.Context) *ReferencesSearchCall {
c.ctx_ = ctx
return c
}
func (c *ReferencesSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchreferencesrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/references/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.references.search" call.
// Exactly one of *SearchReferencesResponse or error will be non-nil.
// Any non-2xx status code is an error. Response headers are in either
// *SearchReferencesResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReferencesSearchCall) Do(opts ...googleapi.CallOption) (*SearchReferencesResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchReferencesResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Searches for references which match the given criteria. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchReferences](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L146).",
// "httpMethod": "POST",
// "id": "genomics.references.search",
// "path": "v1/references/search",
// "request": {
// "$ref": "SearchReferencesRequest"
// },
// "response": {
// "$ref": "SearchReferencesResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.references.bases.list":
type ReferencesBasesListCall struct {
s *Service
referenceId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// List: Lists the bases in a reference, optionally restricted to a
// range. For the definitions of references and other genomics
// resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.getReferenceBases](https://github.com/ga4gh/schemas
// /blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L221).
func (r *ReferencesBasesService) List(referenceId string) *ReferencesBasesListCall {
c := &ReferencesBasesListCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.referenceId = referenceId
return c
}
// End sets the optional parameter "end": The end position (0-based,
// exclusive) of this query. Defaults to the length of this reference.
func (c *ReferencesBasesListCall) End(end int64) *ReferencesBasesListCall {
c.urlParams_.Set("end", fmt.Sprint(end))
return c
}
// PageSize sets the optional parameter "pageSize": The maximum number
// of bases to return in a single page. If unspecified, defaults to
// 200Kbp (kilo base pairs). The maximum value is 10Mbp (mega base
// pairs).
func (c *ReferencesBasesListCall) PageSize(pageSize int64) *ReferencesBasesListCall {
c.urlParams_.Set("pageSize", fmt.Sprint(pageSize))
return c
}
// PageToken sets the optional parameter "pageToken": 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.
func (c *ReferencesBasesListCall) PageToken(pageToken string) *ReferencesBasesListCall {
c.urlParams_.Set("pageToken", pageToken)
return c
}
// Start sets the optional parameter "start": The start position
// (0-based) of this query. Defaults to 0.
func (c *ReferencesBasesListCall) Start(start int64) *ReferencesBasesListCall {
c.urlParams_.Set("start", fmt.Sprint(start))
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReferencesBasesListCall) Fields(s ...googleapi.Field) *ReferencesBasesListCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *ReferencesBasesListCall) IfNoneMatch(entityTag string) *ReferencesBasesListCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReferencesBasesListCall) Context(ctx context.Context) *ReferencesBasesListCall {
c.ctx_ = ctx
return c
}
func (c *ReferencesBasesListCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/references/{referenceId}/bases")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"referenceId": c.referenceId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.references.bases.list" call.
// Exactly one of *ListBasesResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *ListBasesResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReferencesBasesListCall) Do(opts ...googleapi.CallOption) (*ListBasesResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ListBasesResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Lists the bases in a reference, optionally restricted to a range. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.getReferenceBases](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L221).",
// "httpMethod": "GET",
// "id": "genomics.references.bases.list",
// "parameterOrder": [
// "referenceId"
// ],
// "parameters": {
// "end": {
// "description": "The end position (0-based, exclusive) of this query. Defaults to the length of this reference.",
// "format": "int64",
// "location": "query",
// "type": "string"
// },
// "pageSize": {
// "description": "The maximum number of bases to return in a single page. If unspecified, defaults to 200Kbp (kilo base pairs). The maximum value is 10Mbp (mega base pairs).",
// "format": "int32",
// "location": "query",
// "type": "integer"
// },
// "pageToken": {
// "description": "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.",
// "location": "query",
// "type": "string"
// },
// "referenceId": {
// "description": "The ID of the reference.",
// "location": "path",
// "required": true,
// "type": "string"
// },
// "start": {
// "description": "The start position (0-based) of this query. Defaults to 0.",
// "format": "int64",
// "location": "query",
// "type": "string"
// }
// },
// "path": "v1/references/{referenceId}/bases",
// "response": {
// "$ref": "ListBasesResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.referencesets.get":
type ReferencesetsGetCall struct {
s *Service
referenceSetId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a reference set. For the definitions of references and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/b
// lob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).
func (r *ReferencesetsService) Get(referenceSetId string) *ReferencesetsGetCall {
c := &ReferencesetsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.referenceSetId = referenceSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReferencesetsGetCall) Fields(s ...googleapi.Field) *ReferencesetsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *ReferencesetsGetCall) IfNoneMatch(entityTag string) *ReferencesetsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReferencesetsGetCall) Context(ctx context.Context) *ReferencesetsGetCall {
c.ctx_ = ctx
return c
}
func (c *ReferencesetsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/referencesets/{referenceSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"referenceSetId": c.referenceSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.referencesets.get" call.
// Exactly one of *ReferenceSet or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *ReferenceSet.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *ReferencesetsGetCall) Do(opts ...googleapi.CallOption) (*ReferenceSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &ReferenceSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a reference set. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.getReferenceSet](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L83).",
// "httpMethod": "GET",
// "id": "genomics.referencesets.get",
// "parameterOrder": [
// "referenceSetId"
// ],
// "parameters": {
// "referenceSetId": {
// "description": "The ID of the reference set.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/referencesets/{referenceSetId}",
// "response": {
// "$ref": "ReferenceSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.referencesets.search":
type ReferencesetsSearchCall struct {
s *Service
searchreferencesetsrequest *SearchReferenceSetsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Searches for reference sets which match the given criteria.
// For the definitions of references and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.searchReferenceSets](https://github.com/ga4gh/schem
// as/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L71)
func (r *ReferencesetsService) Search(searchreferencesetsrequest *SearchReferenceSetsRequest) *ReferencesetsSearchCall {
c := &ReferencesetsSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchreferencesetsrequest = searchreferencesetsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *ReferencesetsSearchCall) Fields(s ...googleapi.Field) *ReferencesetsSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *ReferencesetsSearchCall) Context(ctx context.Context) *ReferencesetsSearchCall {
c.ctx_ = ctx
return c
}
func (c *ReferencesetsSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchreferencesetsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/referencesets/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.referencesets.search" call.
// Exactly one of *SearchReferenceSetsResponse or error will be non-nil.
// Any non-2xx status code is an error. Response headers are in either
// *SearchReferenceSetsResponse.ServerResponse.Header or (if a response
// was returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *ReferencesetsSearchCall) Do(opts ...googleapi.CallOption) (*SearchReferenceSetsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchReferenceSetsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Searches for reference sets which match the given criteria. For the definitions of references and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchReferenceSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/referencemethods.avdl#L71)",
// "httpMethod": "POST",
// "id": "genomics.referencesets.search",
// "path": "v1/referencesets/search",
// "request": {
// "$ref": "SearchReferenceSetsRequest"
// },
// "response": {
// "$ref": "SearchReferenceSetsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.variants.create":
type VariantsCreateCall struct {
s *Service
variant *Variant
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Create: Creates a new variant. For the definitions of variants and
// other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsService) Create(variant *Variant) *VariantsCreateCall {
c := &VariantsCreateCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variant = variant
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsCreateCall) Fields(s ...googleapi.Field) *VariantsCreateCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsCreateCall) Context(ctx context.Context) *VariantsCreateCall {
c.ctx_ = ctx
return c
}
func (c *VariantsCreateCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.variant)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.create" call.
// Exactly one of *Variant or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Variant.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *VariantsCreateCall) Do(opts ...googleapi.CallOption) (*Variant, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Variant{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Creates a new variant. For the definitions of variants and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "POST",
// "id": "genomics.variants.create",
// "path": "v1/variants",
// "request": {
// "$ref": "Variant"
// },
// "response": {
// "$ref": "Variant"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variants.delete":
type VariantsDeleteCall struct {
s *Service
variantId string
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Delete: Deletes a variant. For the definitions of variants and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsService) Delete(variantId string) *VariantsDeleteCall {
c := &VariantsDeleteCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantId = variantId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsDeleteCall) Fields(s ...googleapi.Field) *VariantsDeleteCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsDeleteCall) Context(ctx context.Context) *VariantsDeleteCall {
c.ctx_ = ctx
return c
}
func (c *VariantsDeleteCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants/{variantId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("DELETE", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantId": c.variantId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.delete" call.
// Exactly one of *Empty or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Empty.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *VariantsDeleteCall) Do(opts ...googleapi.CallOption) (*Empty, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Empty{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Deletes a variant. For the definitions of variants and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "DELETE",
// "id": "genomics.variants.delete",
// "parameterOrder": [
// "variantId"
// ],
// "parameters": {
// "variantId": {
// "description": "The ID of the variant to be deleted.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variants/{variantId}",
// "response": {
// "$ref": "Empty"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variants.get":
type VariantsGetCall struct {
s *Service
variantId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a variant by ID. For the definitions of variants and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsService) Get(variantId string) *VariantsGetCall {
c := &VariantsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantId = variantId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsGetCall) Fields(s ...googleapi.Field) *VariantsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *VariantsGetCall) IfNoneMatch(entityTag string) *VariantsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsGetCall) Context(ctx context.Context) *VariantsGetCall {
c.ctx_ = ctx
return c
}
func (c *VariantsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants/{variantId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantId": c.variantId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.get" call.
// Exactly one of *Variant or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Variant.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *VariantsGetCall) Do(opts ...googleapi.CallOption) (*Variant, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Variant{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a variant by ID. For the definitions of variants and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "GET",
// "id": "genomics.variants.get",
// "parameterOrder": [
// "variantId"
// ],
// "parameters": {
// "variantId": {
// "description": "The ID of the variant.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variants/{variantId}",
// "response": {
// "$ref": "Variant"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.variants.import":
type VariantsImportCall struct {
s *Service
importvariantsrequest *ImportVariantsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Import: Creates variant data by asynchronously importing the provided
// information. For the definitions of variant sets and other genomics
// resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) The variants for import will be merged with any 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. 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.
func (r *VariantsService) Import(importvariantsrequest *ImportVariantsRequest) *VariantsImportCall {
c := &VariantsImportCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.importvariantsrequest = importvariantsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsImportCall) Fields(s ...googleapi.Field) *VariantsImportCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsImportCall) Context(ctx context.Context) *VariantsImportCall {
c.ctx_ = ctx
return c
}
func (c *VariantsImportCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.importvariantsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants:import")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.import" call.
// Exactly one of *Operation or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *Operation.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *VariantsImportCall) Do(opts ...googleapi.CallOption) (*Operation, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Operation{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Creates variant data by asynchronously importing the provided information. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) The variants for import will be merged with any 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. 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.",
// "httpMethod": "POST",
// "id": "genomics.variants.import",
// "path": "v1/variants:import",
// "request": {
// "$ref": "ImportVariantsRequest"
// },
// "response": {
// "$ref": "Operation"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/devstorage.read_write",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variants.patch":
type VariantsPatchCall struct {
s *Service
variantId string
variant *Variant
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Patch: Updates a variant. For the definitions of variants and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) This method supports patch semantics. Returns the modified
// variant without its calls.
func (r *VariantsService) Patch(variantId string, variant *Variant) *VariantsPatchCall {
c := &VariantsPatchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantId = variantId
c.variant = variant
return c
}
// UpdateMask sets the optional parameter "updateMask": An optional mask
// specifying which fields to update. At this time, mutable fields are
// names and info. Acceptable values are "names" and "info". If
// unspecified, all mutable fields will be updated.
func (c *VariantsPatchCall) UpdateMask(updateMask string) *VariantsPatchCall {
c.urlParams_.Set("updateMask", updateMask)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsPatchCall) Fields(s ...googleapi.Field) *VariantsPatchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsPatchCall) Context(ctx context.Context) *VariantsPatchCall {
c.ctx_ = ctx
return c
}
func (c *VariantsPatchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.variant)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants/{variantId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("PATCH", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantId": c.variantId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.patch" call.
// Exactly one of *Variant or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Variant.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *VariantsPatchCall) Do(opts ...googleapi.CallOption) (*Variant, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Variant{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Updates a variant. For the definitions of variants and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) This method supports patch semantics. Returns the modified variant without its calls.",
// "httpMethod": "PATCH",
// "id": "genomics.variants.patch",
// "parameterOrder": [
// "variantId"
// ],
// "parameters": {
// "updateMask": {
// "description": "An optional mask specifying which fields to update. At this time, mutable fields are names and info. Acceptable values are \"names\" and \"info\". If unspecified, all mutable fields will be updated.",
// "location": "query",
// "type": "string"
// },
// "variantId": {
// "description": "The ID of the variant to be updated.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variants/{variantId}",
// "request": {
// "$ref": "Variant"
// },
// "response": {
// "$ref": "Variant"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variants.search":
type VariantsSearchCall struct {
s *Service
searchvariantsrequest *SearchVariantsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Gets a list of variants matching the criteria. For the
// definitions of variants and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.searchVariants](https://github.com/ga4gh/schemas/bl
// ob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L126).
func (r *VariantsService) Search(searchvariantsrequest *SearchVariantsRequest) *VariantsSearchCall {
c := &VariantsSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchvariantsrequest = searchvariantsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsSearchCall) Fields(s ...googleapi.Field) *VariantsSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsSearchCall) Context(ctx context.Context) *VariantsSearchCall {
c.ctx_ = ctx
return c
}
func (c *VariantsSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchvariantsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.search" call.
// Exactly one of *SearchVariantsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *SearchVariantsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *VariantsSearchCall) Do(opts ...googleapi.CallOption) (*SearchVariantsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchVariantsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a list of variants matching the criteria. For the definitions of variants and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchVariants](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L126).",
// "httpMethod": "POST",
// "id": "genomics.variants.search",
// "path": "v1/variants/search",
// "request": {
// "$ref": "SearchVariantsRequest"
// },
// "response": {
// "$ref": "SearchVariantsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.variants.stream":
type VariantsStreamCall struct {
s *Service
streamvariantsrequest *StreamVariantsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Stream: Returns a stream of all the variants matching the search
// request, ordered by reference name, position, and ID.
func (r *VariantsService) Stream(streamvariantsrequest *StreamVariantsRequest) *VariantsStreamCall {
c := &VariantsStreamCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.streamvariantsrequest = streamvariantsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsStreamCall) Fields(s ...googleapi.Field) *VariantsStreamCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsStreamCall) Context(ctx context.Context) *VariantsStreamCall {
c.ctx_ = ctx
return c
}
func (c *VariantsStreamCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.streamvariantsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variants:stream")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variants.stream" call.
// Exactly one of *StreamVariantsResponse or error will be non-nil. Any
// non-2xx status code is an error. Response headers are in either
// *StreamVariantsResponse.ServerResponse.Header or (if a response was
// returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *VariantsStreamCall) Do(opts ...googleapi.CallOption) (*StreamVariantsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &StreamVariantsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Returns a stream of all the variants matching the search request, ordered by reference name, position, and ID.",
// "httpMethod": "POST",
// "id": "genomics.variants.stream",
// "path": "v1/variants:stream",
// "request": {
// "$ref": "StreamVariantsRequest"
// },
// "response": {
// "$ref": "StreamVariantsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variantsets.create":
type VariantsetsCreateCall struct {
s *Service
variantset *VariantSet
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Create: Creates a new variant set. For the definitions of variant
// sets and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) The provided variant set must have a valid `datasetId` set -
// all other fields are optional. Note that the `id` field will be
// ignored, as this is assigned by the server.
func (r *VariantsetsService) Create(variantset *VariantSet) *VariantsetsCreateCall {
c := &VariantsetsCreateCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantset = variantset
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsetsCreateCall) Fields(s ...googleapi.Field) *VariantsetsCreateCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsetsCreateCall) Context(ctx context.Context) *VariantsetsCreateCall {
c.ctx_ = ctx
return c
}
func (c *VariantsetsCreateCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.variantset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variantsets")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variantsets.create" call.
// Exactly one of *VariantSet or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *VariantSet.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *VariantsetsCreateCall) Do(opts ...googleapi.CallOption) (*VariantSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &VariantSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Creates a new variant set. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) The provided variant set must have a valid `datasetId` set - all other fields are optional. Note that the `id` field will be ignored, as this is assigned by the server.",
// "httpMethod": "POST",
// "id": "genomics.variantsets.create",
// "path": "v1/variantsets",
// "request": {
// "$ref": "VariantSet"
// },
// "response": {
// "$ref": "VariantSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variantsets.delete":
type VariantsetsDeleteCall struct {
s *Service
variantSetId string
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Delete: Deletes the contents of a variant set. The variant set object
// is not deleted. For the definitions of variant sets and other
// genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsetsService) Delete(variantSetId string) *VariantsetsDeleteCall {
c := &VariantsetsDeleteCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantSetId = variantSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsetsDeleteCall) Fields(s ...googleapi.Field) *VariantsetsDeleteCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsetsDeleteCall) Context(ctx context.Context) *VariantsetsDeleteCall {
c.ctx_ = ctx
return c
}
func (c *VariantsetsDeleteCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variantsets/{variantSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("DELETE", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantSetId": c.variantSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variantsets.delete" call.
// Exactly one of *Empty or error will be non-nil. Any non-2xx status
// code is an error. Response headers are in either
// *Empty.ServerResponse.Header or (if a response was returned at all)
// in error.(*googleapi.Error).Header. Use googleapi.IsNotModified to
// check whether the returned error was because http.StatusNotModified
// was returned.
func (c *VariantsetsDeleteCall) Do(opts ...googleapi.CallOption) (*Empty, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Empty{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Deletes the contents of a variant set. The variant set object is not deleted. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "DELETE",
// "id": "genomics.variantsets.delete",
// "parameterOrder": [
// "variantSetId"
// ],
// "parameters": {
// "variantSetId": {
// "description": "The ID of the variant set to be deleted.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variantsets/{variantSetId}",
// "response": {
// "$ref": "Empty"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variantsets.export":
type VariantsetsExportCall struct {
s *Service
variantSetId string
exportvariantsetrequest *ExportVariantSetRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Export: Exports variant set data to an external destination. For the
// definitions of variant sets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsetsService) Export(variantSetId string, exportvariantsetrequest *ExportVariantSetRequest) *VariantsetsExportCall {
c := &VariantsetsExportCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantSetId = variantSetId
c.exportvariantsetrequest = exportvariantsetrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsetsExportCall) Fields(s ...googleapi.Field) *VariantsetsExportCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsetsExportCall) Context(ctx context.Context) *VariantsetsExportCall {
c.ctx_ = ctx
return c
}
func (c *VariantsetsExportCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.exportvariantsetrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variantsets/{variantSetId}:export")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantSetId": c.variantSetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variantsets.export" call.
// Exactly one of *Operation or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *Operation.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *VariantsetsExportCall) Do(opts ...googleapi.CallOption) (*Operation, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &Operation{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Exports variant set data to an external destination. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "POST",
// "id": "genomics.variantsets.export",
// "parameterOrder": [
// "variantSetId"
// ],
// "parameters": {
// "variantSetId": {
// "description": "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.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variantsets/{variantSetId}:export",
// "request": {
// "$ref": "ExportVariantSetRequest"
// },
// "response": {
// "$ref": "Operation"
// },
// "scopes": [
// "https://www.googleapis.com/auth/bigquery",
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variantsets.get":
type VariantsetsGetCall struct {
s *Service
variantSetId string
urlParams_ gensupport.URLParams
ifNoneMatch_ string
ctx_ context.Context
}
// Get: Gets a variant set by ID. For the definitions of variant sets
// and other genomics resources, see [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsetsService) Get(variantSetId string) *VariantsetsGetCall {
c := &VariantsetsGetCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantSetId = variantSetId
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsetsGetCall) Fields(s ...googleapi.Field) *VariantsetsGetCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// IfNoneMatch sets the optional parameter which makes the operation
// fail if the object's ETag matches the given value. This is useful for
// getting updates only after the object has changed since the last
// request. Use googleapi.IsNotModified to check whether the response
// error from Do is the result of In-None-Match.
func (c *VariantsetsGetCall) IfNoneMatch(entityTag string) *VariantsetsGetCall {
c.ifNoneMatch_ = entityTag
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsetsGetCall) Context(ctx context.Context) *VariantsetsGetCall {
c.ctx_ = ctx
return c
}
func (c *VariantsetsGetCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variantsets/{variantSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("GET", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantSetId": c.variantSetId,
})
req.Header.Set("User-Agent", c.s.userAgent())
if c.ifNoneMatch_ != "" {
req.Header.Set("If-None-Match", c.ifNoneMatch_)
}
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variantsets.get" call.
// Exactly one of *VariantSet or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *VariantSet.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *VariantsetsGetCall) Do(opts ...googleapi.CallOption) (*VariantSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &VariantSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Gets a variant set by ID. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "GET",
// "id": "genomics.variantsets.get",
// "parameterOrder": [
// "variantSetId"
// ],
// "parameters": {
// "variantSetId": {
// "description": "Required. The ID of the variant set.",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variantsets/{variantSetId}",
// "response": {
// "$ref": "VariantSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}
// method id "genomics.variantsets.patch":
type VariantsetsPatchCall struct {
s *Service
variantSetId string
variantset *VariantSet
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Patch: Updates a variant set using patch semantics. For the
// definitions of variant sets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics)
func (r *VariantsetsService) Patch(variantSetId string, variantset *VariantSet) *VariantsetsPatchCall {
c := &VariantsetsPatchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.variantSetId = variantSetId
c.variantset = variantset
return c
}
// UpdateMask sets the optional parameter "updateMask": An optional mask
// specifying which fields to update. Supported fields: * metadata.
// Leaving `updateMask` unset is equivalent to specifying all mutable
// fields.
func (c *VariantsetsPatchCall) UpdateMask(updateMask string) *VariantsetsPatchCall {
c.urlParams_.Set("updateMask", updateMask)
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsetsPatchCall) Fields(s ...googleapi.Field) *VariantsetsPatchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsetsPatchCall) Context(ctx context.Context) *VariantsetsPatchCall {
c.ctx_ = ctx
return c
}
func (c *VariantsetsPatchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.variantset)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variantsets/{variantSetId}")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("PATCH", urls, body)
googleapi.Expand(req.URL, map[string]string{
"variantSetId": c.variantSetId,
})
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variantsets.patch" call.
// Exactly one of *VariantSet or error will be non-nil. Any non-2xx
// status code is an error. Response headers are in either
// *VariantSet.ServerResponse.Header or (if a response was returned at
// all) in error.(*googleapi.Error).Header. Use googleapi.IsNotModified
// to check whether the returned error was because
// http.StatusNotModified was returned.
func (c *VariantsetsPatchCall) Do(opts ...googleapi.CallOption) (*VariantSet, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &VariantSet{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Updates a variant set using patch semantics. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)",
// "httpMethod": "PATCH",
// "id": "genomics.variantsets.patch",
// "parameterOrder": [
// "variantSetId"
// ],
// "parameters": {
// "updateMask": {
// "description": "An optional mask specifying which fields to update. Supported fields: * metadata. Leaving `updateMask` unset is equivalent to specifying all mutable fields.",
// "location": "query",
// "type": "string"
// },
// "variantSetId": {
// "description": "The ID of the variant to be updated (must already exist).",
// "location": "path",
// "required": true,
// "type": "string"
// }
// },
// "path": "v1/variantsets/{variantSetId}",
// "request": {
// "$ref": "VariantSet"
// },
// "response": {
// "$ref": "VariantSet"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics"
// ]
// }
}
// method id "genomics.variantsets.search":
type VariantsetsSearchCall struct {
s *Service
searchvariantsetsrequest *SearchVariantSetsRequest
urlParams_ gensupport.URLParams
ctx_ context.Context
}
// Search: Returns a list of all variant sets matching search criteria.
// For the definitions of variant sets and other genomics resources, see
// [Fundamentals of Google
// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-gen
// omics) Implements
// [GlobalAllianceApi.searchVariantSets](https://github.com/ga4gh/schemas
// /blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L49).
func (r *VariantsetsService) Search(searchvariantsetsrequest *SearchVariantSetsRequest) *VariantsetsSearchCall {
c := &VariantsetsSearchCall{s: r.s, urlParams_: make(gensupport.URLParams)}
c.searchvariantsetsrequest = searchvariantsetsrequest
return c
}
// Fields allows partial responses to be retrieved. See
// https://developers.google.com/gdata/docs/2.0/basics#PartialResponse
// for more information.
func (c *VariantsetsSearchCall) Fields(s ...googleapi.Field) *VariantsetsSearchCall {
c.urlParams_.Set("fields", googleapi.CombineFields(s))
return c
}
// Context sets the context to be used in this call's Do method. Any
// pending HTTP request will be aborted if the provided context is
// canceled.
func (c *VariantsetsSearchCall) Context(ctx context.Context) *VariantsetsSearchCall {
c.ctx_ = ctx
return c
}
func (c *VariantsetsSearchCall) doRequest(alt string) (*http.Response, error) {
var body io.Reader = nil
body, err := googleapi.WithoutDataWrapper.JSONReader(c.searchvariantsetsrequest)
if err != nil {
return nil, err
}
ctype := "application/json"
c.urlParams_.Set("alt", alt)
urls := googleapi.ResolveRelative(c.s.BasePath, "v1/variantsets/search")
urls += "?" + c.urlParams_.Encode()
req, _ := http.NewRequest("POST", urls, body)
googleapi.SetOpaque(req.URL)
req.Header.Set("Content-Type", ctype)
req.Header.Set("User-Agent", c.s.userAgent())
if c.ctx_ != nil {
return ctxhttp.Do(c.ctx_, c.s.client, req)
}
return c.s.client.Do(req)
}
// Do executes the "genomics.variantsets.search" call.
// Exactly one of *SearchVariantSetsResponse or error will be non-nil.
// Any non-2xx status code is an error. Response headers are in either
// *SearchVariantSetsResponse.ServerResponse.Header or (if a response
// was returned at all) in error.(*googleapi.Error).Header. Use
// googleapi.IsNotModified to check whether the returned error was
// because http.StatusNotModified was returned.
func (c *VariantsetsSearchCall) Do(opts ...googleapi.CallOption) (*SearchVariantSetsResponse, error) {
gensupport.SetOptions(c.urlParams_, opts...)
res, err := c.doRequest("json")
if res != nil && res.StatusCode == http.StatusNotModified {
if res.Body != nil {
res.Body.Close()
}
return nil, &googleapi.Error{
Code: res.StatusCode,
Header: res.Header,
}
}
if err != nil {
return nil, err
}
defer googleapi.CloseBody(res)
if err := googleapi.CheckResponse(res); err != nil {
return nil, err
}
ret := &SearchVariantSetsResponse{
ServerResponse: googleapi.ServerResponse{
Header: res.Header,
HTTPStatusCode: res.StatusCode,
},
}
if err := json.NewDecoder(res.Body).Decode(&ret); err != nil {
return nil, err
}
return ret, nil
// {
// "description": "Returns a list of all variant sets matching search criteria. For the definitions of variant sets and other genomics resources, see [Fundamentals of Google Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics) Implements [GlobalAllianceApi.searchVariantSets](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variantmethods.avdl#L49).",
// "httpMethod": "POST",
// "id": "genomics.variantsets.search",
// "path": "v1/variantsets/search",
// "request": {
// "$ref": "SearchVariantSetsRequest"
// },
// "response": {
// "$ref": "SearchVariantSetsResponse"
// },
// "scopes": [
// "https://www.googleapis.com/auth/cloud-platform",
// "https://www.googleapis.com/auth/genomics",
// "https://www.googleapis.com/auth/genomics.readonly"
// ]
// }
}