+++ /dev/null
-// Code generated by protoc-gen-go. DO NOT EDIT.
-// source: google/genomics/v1/variants.proto
-
-package genomics
-
-import proto "github.com/golang/protobuf/proto"
-import fmt "fmt"
-import math "math"
-import _ "google.golang.org/genproto/googleapis/api/annotations"
-import google_longrunning "google.golang.org/genproto/googleapis/longrunning"
-import google_protobuf1 "github.com/golang/protobuf/ptypes/empty"
-import google_protobuf2 "google.golang.org/genproto/protobuf/field_mask"
-import google_protobuf3 "github.com/golang/protobuf/ptypes/struct"
-
-import (
- context "golang.org/x/net/context"
- grpc "google.golang.org/grpc"
-)
-
-// Reference imports to suppress errors if they are not otherwise used.
-var _ = proto.Marshal
-var _ = fmt.Errorf
-var _ = math.Inf
-
-// Operations to be performed during import on Variant info fields.
-// These operations are set for each info field in the info_merge_config
-// map of ImportVariantsRequest, which is plumbed down to the
-// MergeVariantRequests generated by the import job.
-type InfoMergeOperation int32
-
-const (
- InfoMergeOperation_INFO_MERGE_OPERATION_UNSPECIFIED InfoMergeOperation = 0
- // By default, Variant info fields are persisted if the Variant doesn't
- // already exist in the variantset. If the Variant is equivalent to a
- // Variant already in the variantset, the incoming Variant's info field
- // is ignored in favor of that of the already persisted Variant.
- InfoMergeOperation_IGNORE_NEW InfoMergeOperation = 1
- // This operation removes an info field from the incoming Variant
- // and persists this info field in each of the incoming Variant's Calls.
- InfoMergeOperation_MOVE_TO_CALLS InfoMergeOperation = 2
-)
-
-var InfoMergeOperation_name = map[int32]string{
- 0: "INFO_MERGE_OPERATION_UNSPECIFIED",
- 1: "IGNORE_NEW",
- 2: "MOVE_TO_CALLS",
-}
-var InfoMergeOperation_value = map[string]int32{
- "INFO_MERGE_OPERATION_UNSPECIFIED": 0,
- "IGNORE_NEW": 1,
- "MOVE_TO_CALLS": 2,
-}
-
-func (x InfoMergeOperation) String() string {
- return proto.EnumName(InfoMergeOperation_name, int32(x))
-}
-func (InfoMergeOperation) EnumDescriptor() ([]byte, []int) { return fileDescriptor11, []int{0} }
-
-type VariantSetMetadata_Type int32
-
-const (
- VariantSetMetadata_TYPE_UNSPECIFIED VariantSetMetadata_Type = 0
- VariantSetMetadata_INTEGER VariantSetMetadata_Type = 1
- VariantSetMetadata_FLOAT VariantSetMetadata_Type = 2
- VariantSetMetadata_FLAG VariantSetMetadata_Type = 3
- VariantSetMetadata_CHARACTER VariantSetMetadata_Type = 4
- VariantSetMetadata_STRING VariantSetMetadata_Type = 5
-)
-
-var VariantSetMetadata_Type_name = map[int32]string{
- 0: "TYPE_UNSPECIFIED",
- 1: "INTEGER",
- 2: "FLOAT",
- 3: "FLAG",
- 4: "CHARACTER",
- 5: "STRING",
-}
-var VariantSetMetadata_Type_value = map[string]int32{
- "TYPE_UNSPECIFIED": 0,
- "INTEGER": 1,
- "FLOAT": 2,
- "FLAG": 3,
- "CHARACTER": 4,
- "STRING": 5,
-}
-
-func (x VariantSetMetadata_Type) String() string {
- return proto.EnumName(VariantSetMetadata_Type_name, int32(x))
-}
-func (VariantSetMetadata_Type) EnumDescriptor() ([]byte, []int) { return fileDescriptor11, []int{0, 0} }
-
-type ImportVariantsRequest_Format int32
-
-const (
- ImportVariantsRequest_FORMAT_UNSPECIFIED ImportVariantsRequest_Format = 0
- // VCF (Variant Call Format). The VCF files may be gzip compressed. gVCF is
- // also supported.
- ImportVariantsRequest_FORMAT_VCF ImportVariantsRequest_Format = 1
- // Complete Genomics masterVarBeta format. The masterVarBeta files may
- // be bzip2 compressed.
- ImportVariantsRequest_FORMAT_COMPLETE_GENOMICS ImportVariantsRequest_Format = 2
-)
-
-var ImportVariantsRequest_Format_name = map[int32]string{
- 0: "FORMAT_UNSPECIFIED",
- 1: "FORMAT_VCF",
- 2: "FORMAT_COMPLETE_GENOMICS",
-}
-var ImportVariantsRequest_Format_value = map[string]int32{
- "FORMAT_UNSPECIFIED": 0,
- "FORMAT_VCF": 1,
- "FORMAT_COMPLETE_GENOMICS": 2,
-}
-
-func (x ImportVariantsRequest_Format) String() string {
- return proto.EnumName(ImportVariantsRequest_Format_name, int32(x))
-}
-func (ImportVariantsRequest_Format) EnumDescriptor() ([]byte, []int) {
- return fileDescriptor11, []int{6, 0}
-}
-
-type ExportVariantSetRequest_Format int32
-
-const (
- ExportVariantSetRequest_FORMAT_UNSPECIFIED ExportVariantSetRequest_Format = 0
- // Export the data to Google BigQuery.
- ExportVariantSetRequest_FORMAT_BIGQUERY ExportVariantSetRequest_Format = 1
-)
-
-var ExportVariantSetRequest_Format_name = map[int32]string{
- 0: "FORMAT_UNSPECIFIED",
- 1: "FORMAT_BIGQUERY",
-}
-var ExportVariantSetRequest_Format_value = map[string]int32{
- "FORMAT_UNSPECIFIED": 0,
- "FORMAT_BIGQUERY": 1,
-}
-
-func (x ExportVariantSetRequest_Format) String() string {
- return proto.EnumName(ExportVariantSetRequest_Format_name, int32(x))
-}
-func (ExportVariantSetRequest_Format) EnumDescriptor() ([]byte, []int) {
- return fileDescriptor11, []int{9, 0}
-}
-
-// 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 {
- // The top-level key.
- Key string `protobuf:"bytes,1,opt,name=key" json:"key,omitempty"`
- // The value field for simple metadata
- Value string `protobuf:"bytes,2,opt,name=value" json:"value,omitempty"`
- // 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 `protobuf:"bytes,4,opt,name=id" json:"id,omitempty"`
- // The type of data. Possible types include: Integer, Float,
- // Flag, Character, and String.
- Type VariantSetMetadata_Type `protobuf:"varint,5,opt,name=type,enum=google.genomics.v1.VariantSetMetadata_Type" json:"type,omitempty"`
- // The number of values that can be included in a field described by this
- // metadata.
- Number string `protobuf:"bytes,8,opt,name=number" json:"number,omitempty"`
- // A textual description of this metadata.
- Description string `protobuf:"bytes,7,opt,name=description" json:"description,omitempty"`
- // Remaining structured metadata key-value pairs. This must be of the form
- // map<string, string[]> (string key mapping to a list of string values).
- Info map[string]*google_protobuf3.ListValue `protobuf:"bytes,3,rep,name=info" json:"info,omitempty" protobuf_key:"bytes,1,opt,name=key" protobuf_val:"bytes,2,opt,name=value"`
-}
-
-func (m *VariantSetMetadata) Reset() { *m = VariantSetMetadata{} }
-func (m *VariantSetMetadata) String() string { return proto.CompactTextString(m) }
-func (*VariantSetMetadata) ProtoMessage() {}
-func (*VariantSetMetadata) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{0} }
-
-func (m *VariantSetMetadata) GetKey() string {
- if m != nil {
- return m.Key
- }
- return ""
-}
-
-func (m *VariantSetMetadata) GetValue() string {
- if m != nil {
- return m.Value
- }
- return ""
-}
-
-func (m *VariantSetMetadata) GetId() string {
- if m != nil {
- return m.Id
- }
- return ""
-}
-
-func (m *VariantSetMetadata) GetType() VariantSetMetadata_Type {
- if m != nil {
- return m.Type
- }
- return VariantSetMetadata_TYPE_UNSPECIFIED
-}
-
-func (m *VariantSetMetadata) GetNumber() string {
- if m != nil {
- return m.Number
- }
- return ""
-}
-
-func (m *VariantSetMetadata) GetDescription() string {
- if m != nil {
- return m.Description
- }
- return ""
-}
-
-func (m *VariantSetMetadata) GetInfo() map[string]*google_protobuf3.ListValue {
- if m != nil {
- return m.Info
- }
- return nil
-}
-
-// A variant set is a collection of call sets and variants. It contains summary
-// statistics of those contents. A variant set belongs to a dataset.
-//
-// For more genomics resource definitions, see [Fundamentals of Google
-// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
-type VariantSet struct {
- // The dataset to which this variant set belongs.
- DatasetId string `protobuf:"bytes,1,opt,name=dataset_id,json=datasetId" json:"dataset_id,omitempty"`
- // The server-generated variant set ID, unique across all variant sets.
- Id string `protobuf:"bytes,2,opt,name=id" json:"id,omitempty"`
- // 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 `protobuf:"bytes,6,opt,name=reference_set_id,json=referenceSetId" json:"reference_set_id,omitempty"`
- // A list of all references used by the variants in a variant set
- // with associated coordinate upper bounds for each one.
- ReferenceBounds []*ReferenceBound `protobuf:"bytes,5,rep,name=reference_bounds,json=referenceBounds" json:"reference_bounds,omitempty"`
- // The metadata associated with this variant set.
- Metadata []*VariantSetMetadata `protobuf:"bytes,4,rep,name=metadata" json:"metadata,omitempty"`
- // User-specified, mutable name.
- Name string `protobuf:"bytes,7,opt,name=name" json:"name,omitempty"`
- // A textual description of this variant set.
- Description string `protobuf:"bytes,8,opt,name=description" json:"description,omitempty"`
-}
-
-func (m *VariantSet) Reset() { *m = VariantSet{} }
-func (m *VariantSet) String() string { return proto.CompactTextString(m) }
-func (*VariantSet) ProtoMessage() {}
-func (*VariantSet) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{1} }
-
-func (m *VariantSet) GetDatasetId() string {
- if m != nil {
- return m.DatasetId
- }
- return ""
-}
-
-func (m *VariantSet) GetId() string {
- if m != nil {
- return m.Id
- }
- return ""
-}
-
-func (m *VariantSet) GetReferenceSetId() string {
- if m != nil {
- return m.ReferenceSetId
- }
- return ""
-}
-
-func (m *VariantSet) GetReferenceBounds() []*ReferenceBound {
- if m != nil {
- return m.ReferenceBounds
- }
- return nil
-}
-
-func (m *VariantSet) GetMetadata() []*VariantSetMetadata {
- if m != nil {
- return m.Metadata
- }
- return nil
-}
-
-func (m *VariantSet) GetName() string {
- if m != nil {
- return m.Name
- }
- return ""
-}
-
-func (m *VariantSet) GetDescription() string {
- if m != nil {
- return m.Description
- }
- return ""
-}
-
-// A variant represents a change in DNA sequence relative to a reference
-// sequence. For example, a variant could represent a SNP or an insertion.
-// Variants belong to a variant set.
-//
-// For more genomics resource definitions, see [Fundamentals of Google
-// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
-//
-// Each of the calls on a variant represent a determination of genotype with
-// respect to that variant. For example, a call might assign probability of 0.32
-// to the occurrence of a SNP named rs1234 in a sample named NA12345. A call
-// belongs to a call set, which contains related calls typically from one
-// sample.
-type Variant struct {
- // The ID of the variant set this variant belongs to.
- VariantSetId string `protobuf:"bytes,15,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
- // The server-generated variant ID, unique across all variants.
- Id string `protobuf:"bytes,2,opt,name=id" json:"id,omitempty"`
- // Names for the variant, for example a RefSNP ID.
- Names []string `protobuf:"bytes,3,rep,name=names" json:"names,omitempty"`
- // The date this variant was created, in milliseconds from the epoch.
- Created int64 `protobuf:"varint,12,opt,name=created" json:"created,omitempty"`
- // The reference on which this variant occurs.
- // (such as `chr20` or `X`)
- ReferenceName string `protobuf:"bytes,14,opt,name=reference_name,json=referenceName" json:"reference_name,omitempty"`
- // The position at which this variant occurs (0-based).
- // This corresponds to the first base of the string of reference bases.
- Start int64 `protobuf:"varint,16,opt,name=start" json:"start,omitempty"`
- // 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 `protobuf:"varint,13,opt,name=end" json:"end,omitempty"`
- // The reference bases for this variant. They start at the given
- // position.
- ReferenceBases string `protobuf:"bytes,6,opt,name=reference_bases,json=referenceBases" json:"reference_bases,omitempty"`
- // The bases that appear instead of the reference bases.
- AlternateBases []string `protobuf:"bytes,7,rep,name=alternate_bases,json=alternateBases" json:"alternate_bases,omitempty"`
- // A measure of how likely this variant is to be real.
- // A higher value is better.
- Quality float64 `protobuf:"fixed64,8,opt,name=quality" json:"quality,omitempty"`
- // A list of filters (normally quality filters) this variant has failed.
- // `PASS` indicates this variant has passed all filters.
- Filter []string `protobuf:"bytes,9,rep,name=filter" json:"filter,omitempty"`
- // A map of additional variant information. This must be of the form
- // map<string, string[]> (string key mapping to a list of string values).
- Info map[string]*google_protobuf3.ListValue `protobuf:"bytes,10,rep,name=info" json:"info,omitempty" protobuf_key:"bytes,1,opt,name=key" protobuf_val:"bytes,2,opt,name=value"`
- // The variant calls for this particular variant. Each one represents the
- // determination of genotype with respect to this variant.
- Calls []*VariantCall `protobuf:"bytes,11,rep,name=calls" json:"calls,omitempty"`
-}
-
-func (m *Variant) Reset() { *m = Variant{} }
-func (m *Variant) String() string { return proto.CompactTextString(m) }
-func (*Variant) ProtoMessage() {}
-func (*Variant) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{2} }
-
-func (m *Variant) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-func (m *Variant) GetId() string {
- if m != nil {
- return m.Id
- }
- return ""
-}
-
-func (m *Variant) GetNames() []string {
- if m != nil {
- return m.Names
- }
- return nil
-}
-
-func (m *Variant) GetCreated() int64 {
- if m != nil {
- return m.Created
- }
- return 0
-}
-
-func (m *Variant) GetReferenceName() string {
- if m != nil {
- return m.ReferenceName
- }
- return ""
-}
-
-func (m *Variant) GetStart() int64 {
- if m != nil {
- return m.Start
- }
- return 0
-}
-
-func (m *Variant) GetEnd() int64 {
- if m != nil {
- return m.End
- }
- return 0
-}
-
-func (m *Variant) GetReferenceBases() string {
- if m != nil {
- return m.ReferenceBases
- }
- return ""
-}
-
-func (m *Variant) GetAlternateBases() []string {
- if m != nil {
- return m.AlternateBases
- }
- return nil
-}
-
-func (m *Variant) GetQuality() float64 {
- if m != nil {
- return m.Quality
- }
- return 0
-}
-
-func (m *Variant) GetFilter() []string {
- if m != nil {
- return m.Filter
- }
- return nil
-}
-
-func (m *Variant) GetInfo() map[string]*google_protobuf3.ListValue {
- if m != nil {
- return m.Info
- }
- return nil
-}
-
-func (m *Variant) GetCalls() []*VariantCall {
- if m != nil {
- return m.Calls
- }
- return nil
-}
-
-// 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 {
- // The ID of the call set this variant call belongs to.
- CallSetId string `protobuf:"bytes,8,opt,name=call_set_id,json=callSetId" json:"call_set_id,omitempty"`
- // The name of the call set this variant call belongs to.
- CallSetName string `protobuf:"bytes,9,opt,name=call_set_name,json=callSetName" json:"call_set_name,omitempty"`
- // 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 []int32 `protobuf:"varint,7,rep,packed,name=genotype" json:"genotype,omitempty"`
- // 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 `protobuf:"bytes,5,opt,name=phaseset" json:"phaseset,omitempty"`
- // 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 `protobuf:"fixed64,6,rep,packed,name=genotype_likelihood,json=genotypeLikelihood" json:"genotype_likelihood,omitempty"`
- // A map of additional variant call information. This must be of the form
- // map<string, string[]> (string key mapping to a list of string values).
- Info map[string]*google_protobuf3.ListValue `protobuf:"bytes,2,rep,name=info" json:"info,omitempty" protobuf_key:"bytes,1,opt,name=key" protobuf_val:"bytes,2,opt,name=value"`
-}
-
-func (m *VariantCall) Reset() { *m = VariantCall{} }
-func (m *VariantCall) String() string { return proto.CompactTextString(m) }
-func (*VariantCall) ProtoMessage() {}
-func (*VariantCall) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{3} }
-
-func (m *VariantCall) GetCallSetId() string {
- if m != nil {
- return m.CallSetId
- }
- return ""
-}
-
-func (m *VariantCall) GetCallSetName() string {
- if m != nil {
- return m.CallSetName
- }
- return ""
-}
-
-func (m *VariantCall) GetGenotype() []int32 {
- if m != nil {
- return m.Genotype
- }
- return nil
-}
-
-func (m *VariantCall) GetPhaseset() string {
- if m != nil {
- return m.Phaseset
- }
- return ""
-}
-
-func (m *VariantCall) GetGenotypeLikelihood() []float64 {
- if m != nil {
- return m.GenotypeLikelihood
- }
- return nil
-}
-
-func (m *VariantCall) GetInfo() map[string]*google_protobuf3.ListValue {
- if m != nil {
- return m.Info
- }
- return nil
-}
-
-// A call set is a collection of variant calls, typically for one sample. It
-// belongs to a variant set.
-//
-// For more genomics resource definitions, see [Fundamentals of Google
-// Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
-type CallSet struct {
- // The server-generated call set ID, unique across all call sets.
- Id string `protobuf:"bytes,1,opt,name=id" json:"id,omitempty"`
- // The call set name.
- Name string `protobuf:"bytes,2,opt,name=name" json:"name,omitempty"`
- // The sample ID this call set corresponds to.
- SampleId string `protobuf:"bytes,7,opt,name=sample_id,json=sampleId" json:"sample_id,omitempty"`
- // The IDs of the variant sets this call set belongs to. This field must
- // have exactly length one, as a call set belongs to a single variant set.
- // This field is repeated for compatibility with the
- // [GA4GH 0.5.1
- // API](https://github.com/ga4gh/schemas/blob/v0.5.1/src/main/resources/avro/variants.avdl#L76).
- VariantSetIds []string `protobuf:"bytes,6,rep,name=variant_set_ids,json=variantSetIds" json:"variant_set_ids,omitempty"`
- // The date this call set was created in milliseconds from the epoch.
- Created int64 `protobuf:"varint,5,opt,name=created" json:"created,omitempty"`
- // A map of additional call set information. This must be of the form
- // map<string, string[]> (string key mapping to a list of string values).
- Info map[string]*google_protobuf3.ListValue `protobuf:"bytes,4,rep,name=info" json:"info,omitempty" protobuf_key:"bytes,1,opt,name=key" protobuf_val:"bytes,2,opt,name=value"`
-}
-
-func (m *CallSet) Reset() { *m = CallSet{} }
-func (m *CallSet) String() string { return proto.CompactTextString(m) }
-func (*CallSet) ProtoMessage() {}
-func (*CallSet) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{4} }
-
-func (m *CallSet) GetId() string {
- if m != nil {
- return m.Id
- }
- return ""
-}
-
-func (m *CallSet) GetName() string {
- if m != nil {
- return m.Name
- }
- return ""
-}
-
-func (m *CallSet) GetSampleId() string {
- if m != nil {
- return m.SampleId
- }
- return ""
-}
-
-func (m *CallSet) GetVariantSetIds() []string {
- if m != nil {
- return m.VariantSetIds
- }
- return nil
-}
-
-func (m *CallSet) GetCreated() int64 {
- if m != nil {
- return m.Created
- }
- return 0
-}
-
-func (m *CallSet) GetInfo() map[string]*google_protobuf3.ListValue {
- if m != nil {
- return m.Info
- }
- return nil
-}
-
-// ReferenceBound records an upper bound for the starting coordinate of
-// variants in a particular reference.
-type ReferenceBound struct {
- // The name of the reference associated with this reference bound.
- ReferenceName string `protobuf:"bytes,1,opt,name=reference_name,json=referenceName" json:"reference_name,omitempty"`
- // An upper bound (inclusive) on the starting coordinate of any
- // variant in the reference sequence.
- UpperBound int64 `protobuf:"varint,2,opt,name=upper_bound,json=upperBound" json:"upper_bound,omitempty"`
-}
-
-func (m *ReferenceBound) Reset() { *m = ReferenceBound{} }
-func (m *ReferenceBound) String() string { return proto.CompactTextString(m) }
-func (*ReferenceBound) ProtoMessage() {}
-func (*ReferenceBound) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{5} }
-
-func (m *ReferenceBound) GetReferenceName() string {
- if m != nil {
- return m.ReferenceName
- }
- return ""
-}
-
-func (m *ReferenceBound) GetUpperBound() int64 {
- if m != nil {
- return m.UpperBound
- }
- return 0
-}
-
-// The variant data import request.
-type ImportVariantsRequest struct {
- // Required. The variant set to which variant data should be imported.
- VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
- // A list of URIs referencing variant files in Google Cloud Storage. URIs can
- // include wildcards [as described
- // here](https://cloud.google.com/storage/docs/gsutil/addlhelp/WildcardNames).
- // Note that recursive wildcards ('**') are not supported.
- SourceUris []string `protobuf:"bytes,2,rep,name=source_uris,json=sourceUris" json:"source_uris,omitempty"`
- // The format of the variant data being imported. If unspecified, defaults to
- // to `VCF`.
- Format ImportVariantsRequest_Format `protobuf:"varint,3,opt,name=format,enum=google.genomics.v1.ImportVariantsRequest_Format" json:"format,omitempty"`
- // 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 `protobuf:"varint,5,opt,name=normalize_reference_names,json=normalizeReferenceNames" json:"normalize_reference_names,omitempty"`
- // A mapping between info field keys and the InfoMergeOperations to
- // be performed on them. This is plumbed down to the MergeVariantRequests
- // generated by the resulting import job.
- InfoMergeConfig map[string]InfoMergeOperation `protobuf:"bytes,6,rep,name=info_merge_config,json=infoMergeConfig" json:"info_merge_config,omitempty" protobuf_key:"bytes,1,opt,name=key" protobuf_val:"varint,2,opt,name=value,enum=google.genomics.v1.InfoMergeOperation"`
-}
-
-func (m *ImportVariantsRequest) Reset() { *m = ImportVariantsRequest{} }
-func (m *ImportVariantsRequest) String() string { return proto.CompactTextString(m) }
-func (*ImportVariantsRequest) ProtoMessage() {}
-func (*ImportVariantsRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{6} }
-
-func (m *ImportVariantsRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-func (m *ImportVariantsRequest) GetSourceUris() []string {
- if m != nil {
- return m.SourceUris
- }
- return nil
-}
-
-func (m *ImportVariantsRequest) GetFormat() ImportVariantsRequest_Format {
- if m != nil {
- return m.Format
- }
- return ImportVariantsRequest_FORMAT_UNSPECIFIED
-}
-
-func (m *ImportVariantsRequest) GetNormalizeReferenceNames() bool {
- if m != nil {
- return m.NormalizeReferenceNames
- }
- return false
-}
-
-func (m *ImportVariantsRequest) GetInfoMergeConfig() map[string]InfoMergeOperation {
- if m != nil {
- return m.InfoMergeConfig
- }
- return nil
-}
-
-// The variant data import response.
-type ImportVariantsResponse struct {
- // IDs of the call sets created during the import.
- CallSetIds []string `protobuf:"bytes,1,rep,name=call_set_ids,json=callSetIds" json:"call_set_ids,omitempty"`
-}
-
-func (m *ImportVariantsResponse) Reset() { *m = ImportVariantsResponse{} }
-func (m *ImportVariantsResponse) String() string { return proto.CompactTextString(m) }
-func (*ImportVariantsResponse) ProtoMessage() {}
-func (*ImportVariantsResponse) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{7} }
-
-func (m *ImportVariantsResponse) GetCallSetIds() []string {
- if m != nil {
- return m.CallSetIds
- }
- return nil
-}
-
-// The CreateVariantSet request
-type CreateVariantSetRequest struct {
- // Required. The variant set to be created. Must have a valid `datasetId`.
- VariantSet *VariantSet `protobuf:"bytes,1,opt,name=variant_set,json=variantSet" json:"variant_set,omitempty"`
-}
-
-func (m *CreateVariantSetRequest) Reset() { *m = CreateVariantSetRequest{} }
-func (m *CreateVariantSetRequest) String() string { return proto.CompactTextString(m) }
-func (*CreateVariantSetRequest) ProtoMessage() {}
-func (*CreateVariantSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{8} }
-
-func (m *CreateVariantSetRequest) GetVariantSet() *VariantSet {
- if m != nil {
- return m.VariantSet
- }
- return nil
-}
-
-// The variant data export request.
-type ExportVariantSetRequest struct {
- // 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.
- VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
- // If provided, only variant call information from the specified call sets
- // will be exported. By default all variant calls are exported.
- CallSetIds []string `protobuf:"bytes,2,rep,name=call_set_ids,json=callSetIds" json:"call_set_ids,omitempty"`
- // 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 `protobuf:"bytes,3,opt,name=project_id,json=projectId" json:"project_id,omitempty"`
- // The format for the exported data.
- Format ExportVariantSetRequest_Format `protobuf:"varint,4,opt,name=format,enum=google.genomics.v1.ExportVariantSetRequest_Format" json:"format,omitempty"`
- // 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 `protobuf:"bytes,5,opt,name=bigquery_dataset,json=bigqueryDataset" json:"bigquery_dataset,omitempty"`
- // 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 `protobuf:"bytes,6,opt,name=bigquery_table,json=bigqueryTable" json:"bigquery_table,omitempty"`
-}
-
-func (m *ExportVariantSetRequest) Reset() { *m = ExportVariantSetRequest{} }
-func (m *ExportVariantSetRequest) String() string { return proto.CompactTextString(m) }
-func (*ExportVariantSetRequest) ProtoMessage() {}
-func (*ExportVariantSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{9} }
-
-func (m *ExportVariantSetRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-func (m *ExportVariantSetRequest) GetCallSetIds() []string {
- if m != nil {
- return m.CallSetIds
- }
- return nil
-}
-
-func (m *ExportVariantSetRequest) GetProjectId() string {
- if m != nil {
- return m.ProjectId
- }
- return ""
-}
-
-func (m *ExportVariantSetRequest) GetFormat() ExportVariantSetRequest_Format {
- if m != nil {
- return m.Format
- }
- return ExportVariantSetRequest_FORMAT_UNSPECIFIED
-}
-
-func (m *ExportVariantSetRequest) GetBigqueryDataset() string {
- if m != nil {
- return m.BigqueryDataset
- }
- return ""
-}
-
-func (m *ExportVariantSetRequest) GetBigqueryTable() string {
- if m != nil {
- return m.BigqueryTable
- }
- return ""
-}
-
-// The variant set request.
-type GetVariantSetRequest struct {
- // Required. The ID of the variant set.
- VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
-}
-
-func (m *GetVariantSetRequest) Reset() { *m = GetVariantSetRequest{} }
-func (m *GetVariantSetRequest) String() string { return proto.CompactTextString(m) }
-func (*GetVariantSetRequest) ProtoMessage() {}
-func (*GetVariantSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{10} }
-
-func (m *GetVariantSetRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-// The search variant sets request.
-type SearchVariantSetsRequest struct {
- // Exactly one dataset ID must be provided here. Only variant sets which
- // belong to this dataset will be returned.
- DatasetIds []string `protobuf:"bytes,1,rep,name=dataset_ids,json=datasetIds" json:"dataset_ids,omitempty"`
- // 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 `protobuf:"bytes,2,opt,name=page_token,json=pageToken" json:"page_token,omitempty"`
- // The maximum number of results to return in a single page. If unspecified,
- // defaults to 1024.
- PageSize int32 `protobuf:"varint,3,opt,name=page_size,json=pageSize" json:"page_size,omitempty"`
-}
-
-func (m *SearchVariantSetsRequest) Reset() { *m = SearchVariantSetsRequest{} }
-func (m *SearchVariantSetsRequest) String() string { return proto.CompactTextString(m) }
-func (*SearchVariantSetsRequest) ProtoMessage() {}
-func (*SearchVariantSetsRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{11} }
-
-func (m *SearchVariantSetsRequest) GetDatasetIds() []string {
- if m != nil {
- return m.DatasetIds
- }
- return nil
-}
-
-func (m *SearchVariantSetsRequest) GetPageToken() string {
- if m != nil {
- return m.PageToken
- }
- return ""
-}
-
-func (m *SearchVariantSetsRequest) GetPageSize() int32 {
- if m != nil {
- return m.PageSize
- }
- return 0
-}
-
-// The search variant sets response.
-type SearchVariantSetsResponse struct {
- // The variant sets belonging to the requested dataset.
- VariantSets []*VariantSet `protobuf:"bytes,1,rep,name=variant_sets,json=variantSets" json:"variant_sets,omitempty"`
- // 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 `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken" json:"next_page_token,omitempty"`
-}
-
-func (m *SearchVariantSetsResponse) Reset() { *m = SearchVariantSetsResponse{} }
-func (m *SearchVariantSetsResponse) String() string { return proto.CompactTextString(m) }
-func (*SearchVariantSetsResponse) ProtoMessage() {}
-func (*SearchVariantSetsResponse) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{12} }
-
-func (m *SearchVariantSetsResponse) GetVariantSets() []*VariantSet {
- if m != nil {
- return m.VariantSets
- }
- return nil
-}
-
-func (m *SearchVariantSetsResponse) GetNextPageToken() string {
- if m != nil {
- return m.NextPageToken
- }
- return ""
-}
-
-// The delete variant set request.
-type DeleteVariantSetRequest struct {
- // The ID of the variant set to be deleted.
- VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
-}
-
-func (m *DeleteVariantSetRequest) Reset() { *m = DeleteVariantSetRequest{} }
-func (m *DeleteVariantSetRequest) String() string { return proto.CompactTextString(m) }
-func (*DeleteVariantSetRequest) ProtoMessage() {}
-func (*DeleteVariantSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{13} }
-
-func (m *DeleteVariantSetRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-type UpdateVariantSetRequest struct {
- // The ID of the variant to be updated (must already exist).
- VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
- // The new variant data. Only the variant_set.metadata will be considered
- // for update.
- VariantSet *VariantSet `protobuf:"bytes,2,opt,name=variant_set,json=variantSet" json:"variant_set,omitempty"`
- // An optional mask specifying which fields to update. Supported fields:
- //
- // * [metadata][google.genomics.v1.VariantSet.metadata].
- // * [name][google.genomics.v1.VariantSet.name].
- // * [description][google.genomics.v1.VariantSet.description].
- //
- // Leaving `updateMask` unset is equivalent to specifying all mutable
- // fields.
- UpdateMask *google_protobuf2.FieldMask `protobuf:"bytes,5,opt,name=update_mask,json=updateMask" json:"update_mask,omitempty"`
-}
-
-func (m *UpdateVariantSetRequest) Reset() { *m = UpdateVariantSetRequest{} }
-func (m *UpdateVariantSetRequest) String() string { return proto.CompactTextString(m) }
-func (*UpdateVariantSetRequest) ProtoMessage() {}
-func (*UpdateVariantSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{14} }
-
-func (m *UpdateVariantSetRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-func (m *UpdateVariantSetRequest) GetVariantSet() *VariantSet {
- if m != nil {
- return m.VariantSet
- }
- return nil
-}
-
-func (m *UpdateVariantSetRequest) GetUpdateMask() *google_protobuf2.FieldMask {
- if m != nil {
- return m.UpdateMask
- }
- return nil
-}
-
-// The variant search request.
-type SearchVariantsRequest struct {
- // 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 `protobuf:"bytes,1,rep,name=variant_set_ids,json=variantSetIds" json:"variant_set_ids,omitempty"`
- // Only return variants which have exactly this name.
- VariantName string `protobuf:"bytes,2,opt,name=variant_name,json=variantName" json:"variant_name,omitempty"`
- // 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.
- CallSetIds []string `protobuf:"bytes,3,rep,name=call_set_ids,json=callSetIds" json:"call_set_ids,omitempty"`
- // Required. Only return variants in this reference sequence.
- ReferenceName string `protobuf:"bytes,4,opt,name=reference_name,json=referenceName" json:"reference_name,omitempty"`
- // The beginning of the window (0-based, inclusive) for which
- // overlapping variants should be returned. If unspecified, defaults to 0.
- Start int64 `protobuf:"varint,5,opt,name=start" json:"start,omitempty"`
- // The end of the window, 0-based exclusive. If unspecified or 0, defaults to
- // the length of the reference.
- End int64 `protobuf:"varint,6,opt,name=end" json:"end,omitempty"`
- // 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 `protobuf:"bytes,7,opt,name=page_token,json=pageToken" json:"page_token,omitempty"`
- // The maximum number of variants to return in a single page. If unspecified,
- // defaults to 5000. The maximum value is 10000.
- PageSize int32 `protobuf:"varint,8,opt,name=page_size,json=pageSize" json:"page_size,omitempty"`
- // The maximum number of calls to return in a single page. Note that this
- // limit may be exceeded in the event that a matching variant contains more
- // calls than the requested maximum. If unspecified, defaults to 5000. The
- // maximum value is 10000.
- MaxCalls int32 `protobuf:"varint,9,opt,name=max_calls,json=maxCalls" json:"max_calls,omitempty"`
-}
-
-func (m *SearchVariantsRequest) Reset() { *m = SearchVariantsRequest{} }
-func (m *SearchVariantsRequest) String() string { return proto.CompactTextString(m) }
-func (*SearchVariantsRequest) ProtoMessage() {}
-func (*SearchVariantsRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{15} }
-
-func (m *SearchVariantsRequest) GetVariantSetIds() []string {
- if m != nil {
- return m.VariantSetIds
- }
- return nil
-}
-
-func (m *SearchVariantsRequest) GetVariantName() string {
- if m != nil {
- return m.VariantName
- }
- return ""
-}
-
-func (m *SearchVariantsRequest) GetCallSetIds() []string {
- if m != nil {
- return m.CallSetIds
- }
- return nil
-}
-
-func (m *SearchVariantsRequest) GetReferenceName() string {
- if m != nil {
- return m.ReferenceName
- }
- return ""
-}
-
-func (m *SearchVariantsRequest) GetStart() int64 {
- if m != nil {
- return m.Start
- }
- return 0
-}
-
-func (m *SearchVariantsRequest) GetEnd() int64 {
- if m != nil {
- return m.End
- }
- return 0
-}
-
-func (m *SearchVariantsRequest) GetPageToken() string {
- if m != nil {
- return m.PageToken
- }
- return ""
-}
-
-func (m *SearchVariantsRequest) GetPageSize() int32 {
- if m != nil {
- return m.PageSize
- }
- return 0
-}
-
-func (m *SearchVariantsRequest) GetMaxCalls() int32 {
- if m != nil {
- return m.MaxCalls
- }
- return 0
-}
-
-// The variant search response.
-type SearchVariantsResponse struct {
- // The list of matching Variants.
- Variants []*Variant `protobuf:"bytes,1,rep,name=variants" json:"variants,omitempty"`
- // 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 `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken" json:"next_page_token,omitempty"`
-}
-
-func (m *SearchVariantsResponse) Reset() { *m = SearchVariantsResponse{} }
-func (m *SearchVariantsResponse) String() string { return proto.CompactTextString(m) }
-func (*SearchVariantsResponse) ProtoMessage() {}
-func (*SearchVariantsResponse) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{16} }
-
-func (m *SearchVariantsResponse) GetVariants() []*Variant {
- if m != nil {
- return m.Variants
- }
- return nil
-}
-
-func (m *SearchVariantsResponse) GetNextPageToken() string {
- if m != nil {
- return m.NextPageToken
- }
- return ""
-}
-
-type CreateVariantRequest struct {
- // The variant to be created.
- Variant *Variant `protobuf:"bytes,1,opt,name=variant" json:"variant,omitempty"`
-}
-
-func (m *CreateVariantRequest) Reset() { *m = CreateVariantRequest{} }
-func (m *CreateVariantRequest) String() string { return proto.CompactTextString(m) }
-func (*CreateVariantRequest) ProtoMessage() {}
-func (*CreateVariantRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{17} }
-
-func (m *CreateVariantRequest) GetVariant() *Variant {
- if m != nil {
- return m.Variant
- }
- return nil
-}
-
-type UpdateVariantRequest struct {
- // The ID of the variant to be updated.
- VariantId string `protobuf:"bytes,1,opt,name=variant_id,json=variantId" json:"variant_id,omitempty"`
- // The new variant data.
- Variant *Variant `protobuf:"bytes,2,opt,name=variant" json:"variant,omitempty"`
- // An optional mask specifying which fields to update. At this time, mutable
- // fields are [names][google.genomics.v1.Variant.names] and
- // [info][google.genomics.v1.Variant.info]. Acceptable values are "names" and
- // "info". If unspecified, all mutable fields will be updated.
- UpdateMask *google_protobuf2.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask" json:"update_mask,omitempty"`
-}
-
-func (m *UpdateVariantRequest) Reset() { *m = UpdateVariantRequest{} }
-func (m *UpdateVariantRequest) String() string { return proto.CompactTextString(m) }
-func (*UpdateVariantRequest) ProtoMessage() {}
-func (*UpdateVariantRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{18} }
-
-func (m *UpdateVariantRequest) GetVariantId() string {
- if m != nil {
- return m.VariantId
- }
- return ""
-}
-
-func (m *UpdateVariantRequest) GetVariant() *Variant {
- if m != nil {
- return m.Variant
- }
- return nil
-}
-
-func (m *UpdateVariantRequest) GetUpdateMask() *google_protobuf2.FieldMask {
- if m != nil {
- return m.UpdateMask
- }
- return nil
-}
-
-type DeleteVariantRequest struct {
- // The ID of the variant to be deleted.
- VariantId string `protobuf:"bytes,1,opt,name=variant_id,json=variantId" json:"variant_id,omitempty"`
-}
-
-func (m *DeleteVariantRequest) Reset() { *m = DeleteVariantRequest{} }
-func (m *DeleteVariantRequest) String() string { return proto.CompactTextString(m) }
-func (*DeleteVariantRequest) ProtoMessage() {}
-func (*DeleteVariantRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{19} }
-
-func (m *DeleteVariantRequest) GetVariantId() string {
- if m != nil {
- return m.VariantId
- }
- return ""
-}
-
-type GetVariantRequest struct {
- // The ID of the variant.
- VariantId string `protobuf:"bytes,1,opt,name=variant_id,json=variantId" json:"variant_id,omitempty"`
-}
-
-func (m *GetVariantRequest) Reset() { *m = GetVariantRequest{} }
-func (m *GetVariantRequest) String() string { return proto.CompactTextString(m) }
-func (*GetVariantRequest) ProtoMessage() {}
-func (*GetVariantRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{20} }
-
-func (m *GetVariantRequest) GetVariantId() string {
- if m != nil {
- return m.VariantId
- }
- return ""
-}
-
-type MergeVariantsRequest struct {
- // The destination variant set.
- VariantSetId string `protobuf:"bytes,1,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
- // The variants to be merged with existing variants.
- Variants []*Variant `protobuf:"bytes,2,rep,name=variants" json:"variants,omitempty"`
- // A mapping between info field keys and the InfoMergeOperations to
- // be performed on them.
- InfoMergeConfig map[string]InfoMergeOperation `protobuf:"bytes,3,rep,name=info_merge_config,json=infoMergeConfig" json:"info_merge_config,omitempty" protobuf_key:"bytes,1,opt,name=key" protobuf_val:"varint,2,opt,name=value,enum=google.genomics.v1.InfoMergeOperation"`
-}
-
-func (m *MergeVariantsRequest) Reset() { *m = MergeVariantsRequest{} }
-func (m *MergeVariantsRequest) String() string { return proto.CompactTextString(m) }
-func (*MergeVariantsRequest) ProtoMessage() {}
-func (*MergeVariantsRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{21} }
-
-func (m *MergeVariantsRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-func (m *MergeVariantsRequest) GetVariants() []*Variant {
- if m != nil {
- return m.Variants
- }
- return nil
-}
-
-func (m *MergeVariantsRequest) GetInfoMergeConfig() map[string]InfoMergeOperation {
- if m != nil {
- return m.InfoMergeConfig
- }
- return nil
-}
-
-// The call set search request.
-type SearchCallSetsRequest struct {
- // Restrict the query to call sets within the given variant sets. At least one
- // ID must be provided.
- VariantSetIds []string `protobuf:"bytes,1,rep,name=variant_set_ids,json=variantSetIds" json:"variant_set_ids,omitempty"`
- // Only return call sets for which a substring of the name matches this
- // string.
- Name string `protobuf:"bytes,2,opt,name=name" json:"name,omitempty"`
- // 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 `protobuf:"bytes,3,opt,name=page_token,json=pageToken" json:"page_token,omitempty"`
- // The maximum number of results to return in a single page. If unspecified,
- // defaults to 1024.
- PageSize int32 `protobuf:"varint,4,opt,name=page_size,json=pageSize" json:"page_size,omitempty"`
-}
-
-func (m *SearchCallSetsRequest) Reset() { *m = SearchCallSetsRequest{} }
-func (m *SearchCallSetsRequest) String() string { return proto.CompactTextString(m) }
-func (*SearchCallSetsRequest) ProtoMessage() {}
-func (*SearchCallSetsRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{22} }
-
-func (m *SearchCallSetsRequest) GetVariantSetIds() []string {
- if m != nil {
- return m.VariantSetIds
- }
- return nil
-}
-
-func (m *SearchCallSetsRequest) GetName() string {
- if m != nil {
- return m.Name
- }
- return ""
-}
-
-func (m *SearchCallSetsRequest) GetPageToken() string {
- if m != nil {
- return m.PageToken
- }
- return ""
-}
-
-func (m *SearchCallSetsRequest) GetPageSize() int32 {
- if m != nil {
- return m.PageSize
- }
- return 0
-}
-
-// The call set search response.
-type SearchCallSetsResponse struct {
- // The list of matching call sets.
- CallSets []*CallSet `protobuf:"bytes,1,rep,name=call_sets,json=callSets" json:"call_sets,omitempty"`
- // 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 `protobuf:"bytes,2,opt,name=next_page_token,json=nextPageToken" json:"next_page_token,omitempty"`
-}
-
-func (m *SearchCallSetsResponse) Reset() { *m = SearchCallSetsResponse{} }
-func (m *SearchCallSetsResponse) String() string { return proto.CompactTextString(m) }
-func (*SearchCallSetsResponse) ProtoMessage() {}
-func (*SearchCallSetsResponse) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{23} }
-
-func (m *SearchCallSetsResponse) GetCallSets() []*CallSet {
- if m != nil {
- return m.CallSets
- }
- return nil
-}
-
-func (m *SearchCallSetsResponse) GetNextPageToken() string {
- if m != nil {
- return m.NextPageToken
- }
- return ""
-}
-
-type CreateCallSetRequest struct {
- // The call set to be created.
- CallSet *CallSet `protobuf:"bytes,1,opt,name=call_set,json=callSet" json:"call_set,omitempty"`
-}
-
-func (m *CreateCallSetRequest) Reset() { *m = CreateCallSetRequest{} }
-func (m *CreateCallSetRequest) String() string { return proto.CompactTextString(m) }
-func (*CreateCallSetRequest) ProtoMessage() {}
-func (*CreateCallSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{24} }
-
-func (m *CreateCallSetRequest) GetCallSet() *CallSet {
- if m != nil {
- return m.CallSet
- }
- return nil
-}
-
-type UpdateCallSetRequest struct {
- // The ID of the call set to be updated.
- CallSetId string `protobuf:"bytes,1,opt,name=call_set_id,json=callSetId" json:"call_set_id,omitempty"`
- // The new call set data.
- CallSet *CallSet `protobuf:"bytes,2,opt,name=call_set,json=callSet" json:"call_set,omitempty"`
- // An optional mask specifying which fields to update. At this time, the only
- // mutable field is [name][google.genomics.v1.CallSet.name]. The only
- // acceptable value is "name". If unspecified, all mutable fields will be
- // updated.
- UpdateMask *google_protobuf2.FieldMask `protobuf:"bytes,3,opt,name=update_mask,json=updateMask" json:"update_mask,omitempty"`
-}
-
-func (m *UpdateCallSetRequest) Reset() { *m = UpdateCallSetRequest{} }
-func (m *UpdateCallSetRequest) String() string { return proto.CompactTextString(m) }
-func (*UpdateCallSetRequest) ProtoMessage() {}
-func (*UpdateCallSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{25} }
-
-func (m *UpdateCallSetRequest) GetCallSetId() string {
- if m != nil {
- return m.CallSetId
- }
- return ""
-}
-
-func (m *UpdateCallSetRequest) GetCallSet() *CallSet {
- if m != nil {
- return m.CallSet
- }
- return nil
-}
-
-func (m *UpdateCallSetRequest) GetUpdateMask() *google_protobuf2.FieldMask {
- if m != nil {
- return m.UpdateMask
- }
- return nil
-}
-
-type DeleteCallSetRequest struct {
- // The ID of the call set to be deleted.
- CallSetId string `protobuf:"bytes,1,opt,name=call_set_id,json=callSetId" json:"call_set_id,omitempty"`
-}
-
-func (m *DeleteCallSetRequest) Reset() { *m = DeleteCallSetRequest{} }
-func (m *DeleteCallSetRequest) String() string { return proto.CompactTextString(m) }
-func (*DeleteCallSetRequest) ProtoMessage() {}
-func (*DeleteCallSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{26} }
-
-func (m *DeleteCallSetRequest) GetCallSetId() string {
- if m != nil {
- return m.CallSetId
- }
- return ""
-}
-
-type GetCallSetRequest struct {
- // The ID of the call set.
- CallSetId string `protobuf:"bytes,1,opt,name=call_set_id,json=callSetId" json:"call_set_id,omitempty"`
-}
-
-func (m *GetCallSetRequest) Reset() { *m = GetCallSetRequest{} }
-func (m *GetCallSetRequest) String() string { return proto.CompactTextString(m) }
-func (*GetCallSetRequest) ProtoMessage() {}
-func (*GetCallSetRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{27} }
-
-func (m *GetCallSetRequest) GetCallSetId() string {
- if m != nil {
- return m.CallSetId
- }
- return ""
-}
-
-// The stream variants request.
-type StreamVariantsRequest struct {
- // The Google Cloud project ID which will be billed
- // for this access. The caller must have WRITE access to this project.
- // Required.
- ProjectId string `protobuf:"bytes,1,opt,name=project_id,json=projectId" json:"project_id,omitempty"`
- // The variant set ID from which to stream variants.
- VariantSetId string `protobuf:"bytes,2,opt,name=variant_set_id,json=variantSetId" json:"variant_set_id,omitempty"`
- // Only return variant calls which belong to call sets with these IDs.
- // Leaving this blank returns all variant calls.
- CallSetIds []string `protobuf:"bytes,3,rep,name=call_set_ids,json=callSetIds" json:"call_set_ids,omitempty"`
- // Required. Only return variants in this reference sequence.
- ReferenceName string `protobuf:"bytes,4,opt,name=reference_name,json=referenceName" json:"reference_name,omitempty"`
- // The beginning of the window (0-based, inclusive) for which
- // overlapping variants should be returned.
- Start int64 `protobuf:"varint,5,opt,name=start" json:"start,omitempty"`
- // The end of the window (0-based, exclusive) for which overlapping
- // variants should be returned.
- End int64 `protobuf:"varint,6,opt,name=end" json:"end,omitempty"`
-}
-
-func (m *StreamVariantsRequest) Reset() { *m = StreamVariantsRequest{} }
-func (m *StreamVariantsRequest) String() string { return proto.CompactTextString(m) }
-func (*StreamVariantsRequest) ProtoMessage() {}
-func (*StreamVariantsRequest) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{28} }
-
-func (m *StreamVariantsRequest) GetProjectId() string {
- if m != nil {
- return m.ProjectId
- }
- return ""
-}
-
-func (m *StreamVariantsRequest) GetVariantSetId() string {
- if m != nil {
- return m.VariantSetId
- }
- return ""
-}
-
-func (m *StreamVariantsRequest) GetCallSetIds() []string {
- if m != nil {
- return m.CallSetIds
- }
- return nil
-}
-
-func (m *StreamVariantsRequest) GetReferenceName() string {
- if m != nil {
- return m.ReferenceName
- }
- return ""
-}
-
-func (m *StreamVariantsRequest) GetStart() int64 {
- if m != nil {
- return m.Start
- }
- return 0
-}
-
-func (m *StreamVariantsRequest) GetEnd() int64 {
- if m != nil {
- return m.End
- }
- return 0
-}
-
-type StreamVariantsResponse struct {
- Variants []*Variant `protobuf:"bytes,1,rep,name=variants" json:"variants,omitempty"`
-}
-
-func (m *StreamVariantsResponse) Reset() { *m = StreamVariantsResponse{} }
-func (m *StreamVariantsResponse) String() string { return proto.CompactTextString(m) }
-func (*StreamVariantsResponse) ProtoMessage() {}
-func (*StreamVariantsResponse) Descriptor() ([]byte, []int) { return fileDescriptor11, []int{29} }
-
-func (m *StreamVariantsResponse) GetVariants() []*Variant {
- if m != nil {
- return m.Variants
- }
- return nil
-}
-
-func init() {
- proto.RegisterType((*VariantSetMetadata)(nil), "google.genomics.v1.VariantSetMetadata")
- proto.RegisterType((*VariantSet)(nil), "google.genomics.v1.VariantSet")
- proto.RegisterType((*Variant)(nil), "google.genomics.v1.Variant")
- proto.RegisterType((*VariantCall)(nil), "google.genomics.v1.VariantCall")
- proto.RegisterType((*CallSet)(nil), "google.genomics.v1.CallSet")
- proto.RegisterType((*ReferenceBound)(nil), "google.genomics.v1.ReferenceBound")
- proto.RegisterType((*ImportVariantsRequest)(nil), "google.genomics.v1.ImportVariantsRequest")
- proto.RegisterType((*ImportVariantsResponse)(nil), "google.genomics.v1.ImportVariantsResponse")
- proto.RegisterType((*CreateVariantSetRequest)(nil), "google.genomics.v1.CreateVariantSetRequest")
- proto.RegisterType((*ExportVariantSetRequest)(nil), "google.genomics.v1.ExportVariantSetRequest")
- proto.RegisterType((*GetVariantSetRequest)(nil), "google.genomics.v1.GetVariantSetRequest")
- proto.RegisterType((*SearchVariantSetsRequest)(nil), "google.genomics.v1.SearchVariantSetsRequest")
- proto.RegisterType((*SearchVariantSetsResponse)(nil), "google.genomics.v1.SearchVariantSetsResponse")
- proto.RegisterType((*DeleteVariantSetRequest)(nil), "google.genomics.v1.DeleteVariantSetRequest")
- proto.RegisterType((*UpdateVariantSetRequest)(nil), "google.genomics.v1.UpdateVariantSetRequest")
- proto.RegisterType((*SearchVariantsRequest)(nil), "google.genomics.v1.SearchVariantsRequest")
- proto.RegisterType((*SearchVariantsResponse)(nil), "google.genomics.v1.SearchVariantsResponse")
- proto.RegisterType((*CreateVariantRequest)(nil), "google.genomics.v1.CreateVariantRequest")
- proto.RegisterType((*UpdateVariantRequest)(nil), "google.genomics.v1.UpdateVariantRequest")
- proto.RegisterType((*DeleteVariantRequest)(nil), "google.genomics.v1.DeleteVariantRequest")
- proto.RegisterType((*GetVariantRequest)(nil), "google.genomics.v1.GetVariantRequest")
- proto.RegisterType((*MergeVariantsRequest)(nil), "google.genomics.v1.MergeVariantsRequest")
- proto.RegisterType((*SearchCallSetsRequest)(nil), "google.genomics.v1.SearchCallSetsRequest")
- proto.RegisterType((*SearchCallSetsResponse)(nil), "google.genomics.v1.SearchCallSetsResponse")
- proto.RegisterType((*CreateCallSetRequest)(nil), "google.genomics.v1.CreateCallSetRequest")
- proto.RegisterType((*UpdateCallSetRequest)(nil), "google.genomics.v1.UpdateCallSetRequest")
- proto.RegisterType((*DeleteCallSetRequest)(nil), "google.genomics.v1.DeleteCallSetRequest")
- proto.RegisterType((*GetCallSetRequest)(nil), "google.genomics.v1.GetCallSetRequest")
- proto.RegisterType((*StreamVariantsRequest)(nil), "google.genomics.v1.StreamVariantsRequest")
- proto.RegisterType((*StreamVariantsResponse)(nil), "google.genomics.v1.StreamVariantsResponse")
- proto.RegisterEnum("google.genomics.v1.InfoMergeOperation", InfoMergeOperation_name, InfoMergeOperation_value)
- proto.RegisterEnum("google.genomics.v1.VariantSetMetadata_Type", VariantSetMetadata_Type_name, VariantSetMetadata_Type_value)
- proto.RegisterEnum("google.genomics.v1.ImportVariantsRequest_Format", ImportVariantsRequest_Format_name, ImportVariantsRequest_Format_value)
- proto.RegisterEnum("google.genomics.v1.ExportVariantSetRequest_Format", ExportVariantSetRequest_Format_name, ExportVariantSetRequest_Format_value)
-}
-
-// Reference imports to suppress errors if they are not otherwise used.
-var _ context.Context
-var _ grpc.ClientConn
-
-// This is a compile-time assertion to ensure that this generated file
-// is compatible with the grpc package it is being compiled against.
-const _ = grpc.SupportPackageIsVersion4
-
-// Client API for StreamingVariantService service
-
-type StreamingVariantServiceClient interface {
- // Returns a stream of all the variants matching the search request, ordered
- // by reference name, position, and ID.
- StreamVariants(ctx context.Context, in *StreamVariantsRequest, opts ...grpc.CallOption) (StreamingVariantService_StreamVariantsClient, error)
-}
-
-type streamingVariantServiceClient struct {
- cc *grpc.ClientConn
-}
-
-func NewStreamingVariantServiceClient(cc *grpc.ClientConn) StreamingVariantServiceClient {
- return &streamingVariantServiceClient{cc}
-}
-
-func (c *streamingVariantServiceClient) StreamVariants(ctx context.Context, in *StreamVariantsRequest, opts ...grpc.CallOption) (StreamingVariantService_StreamVariantsClient, error) {
- stream, err := grpc.NewClientStream(ctx, &_StreamingVariantService_serviceDesc.Streams[0], c.cc, "/google.genomics.v1.StreamingVariantService/StreamVariants", opts...)
- if err != nil {
- return nil, err
- }
- x := &streamingVariantServiceStreamVariantsClient{stream}
- if err := x.ClientStream.SendMsg(in); err != nil {
- return nil, err
- }
- if err := x.ClientStream.CloseSend(); err != nil {
- return nil, err
- }
- return x, nil
-}
-
-type StreamingVariantService_StreamVariantsClient interface {
- Recv() (*StreamVariantsResponse, error)
- grpc.ClientStream
-}
-
-type streamingVariantServiceStreamVariantsClient struct {
- grpc.ClientStream
-}
-
-func (x *streamingVariantServiceStreamVariantsClient) Recv() (*StreamVariantsResponse, error) {
- m := new(StreamVariantsResponse)
- if err := x.ClientStream.RecvMsg(m); err != nil {
- return nil, err
- }
- return m, nil
-}
-
-// Server API for StreamingVariantService service
-
-type StreamingVariantServiceServer interface {
- // Returns a stream of all the variants matching the search request, ordered
- // by reference name, position, and ID.
- StreamVariants(*StreamVariantsRequest, StreamingVariantService_StreamVariantsServer) error
-}
-
-func RegisterStreamingVariantServiceServer(s *grpc.Server, srv StreamingVariantServiceServer) {
- s.RegisterService(&_StreamingVariantService_serviceDesc, srv)
-}
-
-func _StreamingVariantService_StreamVariants_Handler(srv interface{}, stream grpc.ServerStream) error {
- m := new(StreamVariantsRequest)
- if err := stream.RecvMsg(m); err != nil {
- return err
- }
- return srv.(StreamingVariantServiceServer).StreamVariants(m, &streamingVariantServiceStreamVariantsServer{stream})
-}
-
-type StreamingVariantService_StreamVariantsServer interface {
- Send(*StreamVariantsResponse) error
- grpc.ServerStream
-}
-
-type streamingVariantServiceStreamVariantsServer struct {
- grpc.ServerStream
-}
-
-func (x *streamingVariantServiceStreamVariantsServer) Send(m *StreamVariantsResponse) error {
- return x.ServerStream.SendMsg(m)
-}
-
-var _StreamingVariantService_serviceDesc = grpc.ServiceDesc{
- ServiceName: "google.genomics.v1.StreamingVariantService",
- HandlerType: (*StreamingVariantServiceServer)(nil),
- Methods: []grpc.MethodDesc{},
- Streams: []grpc.StreamDesc{
- {
- StreamName: "StreamVariants",
- Handler: _StreamingVariantService_StreamVariants_Handler,
- ServerStreams: true,
- },
- },
- Metadata: "google/genomics/v1/variants.proto",
-}
-
-// Client API for VariantServiceV1 service
-
-type VariantServiceV1Client interface {
- // 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 Variant info fields are merged
- // as specified in
- // [infoMergeConfig][google.genomics.v1.ImportVariantsRequest.info_merge_config].
- // 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.
- ImportVariants(ctx context.Context, in *ImportVariantsRequest, opts ...grpc.CallOption) (*google_longrunning.Operation, error)
- // 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.
- CreateVariantSet(ctx context.Context, in *CreateVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error)
- // 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)
- ExportVariantSet(ctx context.Context, in *ExportVariantSetRequest, opts ...grpc.CallOption) (*google_longrunning.Operation, error)
- // 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)
- GetVariantSet(ctx context.Context, in *GetVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error)
- // 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).
- SearchVariantSets(ctx context.Context, in *SearchVariantSetsRequest, opts ...grpc.CallOption) (*SearchVariantSetsResponse, error)
- // Deletes a variant set including all variants, call sets, and calls within.
- // This is not reversible.
- //
- // For the definitions of variant sets and other genomics resources, see
- // [Fundamentals of Google
- // Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
- DeleteVariantSet(ctx context.Context, in *DeleteVariantSetRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error)
- // 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)
- UpdateVariantSet(ctx context.Context, in *UpdateVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error)
- // 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).
- SearchVariants(ctx context.Context, in *SearchVariantsRequest, opts ...grpc.CallOption) (*SearchVariantsResponse, error)
- // 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)
- CreateVariant(ctx context.Context, in *CreateVariantRequest, opts ...grpc.CallOption) (*Variant, error)
- // 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.
- UpdateVariant(ctx context.Context, in *UpdateVariantRequest, opts ...grpc.CallOption) (*Variant, error)
- // 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)
- DeleteVariant(ctx context.Context, in *DeleteVariantRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error)
- // 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)
- GetVariant(ctx context.Context, in *GetVariantRequest, opts ...grpc.CallOption) (*Variant, error)
- // Merges the given variants with existing variants.
- //
- // For the definitions of variants and other genomics resources, see
- // [Fundamentals of Google
- // Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
- //
- // Each variant will be
- // merged with an existing variant that matches its reference sequence,
- // start, end, reference bases, and alternative bases. If no such variant
- // exists, a new one will be created.
- //
- // When variants are merged, the call information from the new variant
- // is added to the existing variant. Variant info fields are merged as
- // specified in the
- // [infoMergeConfig][google.genomics.v1.MergeVariantsRequest.info_merge_config]
- // field of the MergeVariantsRequest.
- //
- // Please exercise caution when using this method! It is easy to introduce
- // mistakes in existing variants and difficult to back out of them. For
- // example,
- // suppose you were trying to merge a new variant with an existing one and
- // both
- // variants contain calls that belong to callsets with the same callset ID.
- //
- // // Existing variant - irrelevant fields trimmed for clarity
- // {
- // "variantSetId": "10473108253681171589",
- // "referenceName": "1",
- // "start": "10582",
- // "referenceBases": "G",
- // "alternateBases": [
- // "A"
- // ],
- // "calls": [
- // {
- // "callSetId": "10473108253681171589-0",
- // "callSetName": "CALLSET0",
- // "genotype": [
- // 0,
- // 1
- // ],
- // }
- // ]
- // }
- //
- // // New variant with conflicting call information
- // {
- // "variantSetId": "10473108253681171589",
- // "referenceName": "1",
- // "start": "10582",
- // "referenceBases": "G",
- // "alternateBases": [
- // "A"
- // ],
- // "calls": [
- // {
- // "callSetId": "10473108253681171589-0",
- // "callSetName": "CALLSET0",
- // "genotype": [
- // 1,
- // 1
- // ],
- // }
- // ]
- // }
- //
- // The resulting merged variant would overwrite the existing calls with those
- // from the new variant:
- //
- // {
- // "variantSetId": "10473108253681171589",
- // "referenceName": "1",
- // "start": "10582",
- // "referenceBases": "G",
- // "alternateBases": [
- // "A"
- // ],
- // "calls": [
- // {
- // "callSetId": "10473108253681171589-0",
- // "callSetName": "CALLSET0",
- // "genotype": [
- // 1,
- // 1
- // ],
- // }
- // ]
- // }
- //
- // This may be the desired outcome, but it is up to the user to determine if
- // if that is indeed the case.
- MergeVariants(ctx context.Context, in *MergeVariantsRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error)
- // 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).
- SearchCallSets(ctx context.Context, in *SearchCallSetsRequest, opts ...grpc.CallOption) (*SearchCallSetsResponse, error)
- // 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)
- CreateCallSet(ctx context.Context, in *CreateCallSetRequest, opts ...grpc.CallOption) (*CallSet, error)
- // 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.
- UpdateCallSet(ctx context.Context, in *UpdateCallSetRequest, opts ...grpc.CallOption) (*CallSet, error)
- // 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)
- DeleteCallSet(ctx context.Context, in *DeleteCallSetRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error)
- // 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)
- GetCallSet(ctx context.Context, in *GetCallSetRequest, opts ...grpc.CallOption) (*CallSet, error)
-}
-
-type variantServiceV1Client struct {
- cc *grpc.ClientConn
-}
-
-func NewVariantServiceV1Client(cc *grpc.ClientConn) VariantServiceV1Client {
- return &variantServiceV1Client{cc}
-}
-
-func (c *variantServiceV1Client) ImportVariants(ctx context.Context, in *ImportVariantsRequest, opts ...grpc.CallOption) (*google_longrunning.Operation, error) {
- out := new(google_longrunning.Operation)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/ImportVariants", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) CreateVariantSet(ctx context.Context, in *CreateVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error) {
- out := new(VariantSet)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/CreateVariantSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) ExportVariantSet(ctx context.Context, in *ExportVariantSetRequest, opts ...grpc.CallOption) (*google_longrunning.Operation, error) {
- out := new(google_longrunning.Operation)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/ExportVariantSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) GetVariantSet(ctx context.Context, in *GetVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error) {
- out := new(VariantSet)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/GetVariantSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) SearchVariantSets(ctx context.Context, in *SearchVariantSetsRequest, opts ...grpc.CallOption) (*SearchVariantSetsResponse, error) {
- out := new(SearchVariantSetsResponse)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/SearchVariantSets", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) DeleteVariantSet(ctx context.Context, in *DeleteVariantSetRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error) {
- out := new(google_protobuf1.Empty)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/DeleteVariantSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) UpdateVariantSet(ctx context.Context, in *UpdateVariantSetRequest, opts ...grpc.CallOption) (*VariantSet, error) {
- out := new(VariantSet)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/UpdateVariantSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) SearchVariants(ctx context.Context, in *SearchVariantsRequest, opts ...grpc.CallOption) (*SearchVariantsResponse, error) {
- out := new(SearchVariantsResponse)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/SearchVariants", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) CreateVariant(ctx context.Context, in *CreateVariantRequest, opts ...grpc.CallOption) (*Variant, error) {
- out := new(Variant)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/CreateVariant", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) UpdateVariant(ctx context.Context, in *UpdateVariantRequest, opts ...grpc.CallOption) (*Variant, error) {
- out := new(Variant)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/UpdateVariant", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) DeleteVariant(ctx context.Context, in *DeleteVariantRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error) {
- out := new(google_protobuf1.Empty)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/DeleteVariant", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) GetVariant(ctx context.Context, in *GetVariantRequest, opts ...grpc.CallOption) (*Variant, error) {
- out := new(Variant)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/GetVariant", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) MergeVariants(ctx context.Context, in *MergeVariantsRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error) {
- out := new(google_protobuf1.Empty)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/MergeVariants", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) SearchCallSets(ctx context.Context, in *SearchCallSetsRequest, opts ...grpc.CallOption) (*SearchCallSetsResponse, error) {
- out := new(SearchCallSetsResponse)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/SearchCallSets", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) CreateCallSet(ctx context.Context, in *CreateCallSetRequest, opts ...grpc.CallOption) (*CallSet, error) {
- out := new(CallSet)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/CreateCallSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) UpdateCallSet(ctx context.Context, in *UpdateCallSetRequest, opts ...grpc.CallOption) (*CallSet, error) {
- out := new(CallSet)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/UpdateCallSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) DeleteCallSet(ctx context.Context, in *DeleteCallSetRequest, opts ...grpc.CallOption) (*google_protobuf1.Empty, error) {
- out := new(google_protobuf1.Empty)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/DeleteCallSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-func (c *variantServiceV1Client) GetCallSet(ctx context.Context, in *GetCallSetRequest, opts ...grpc.CallOption) (*CallSet, error) {
- out := new(CallSet)
- err := grpc.Invoke(ctx, "/google.genomics.v1.VariantServiceV1/GetCallSet", in, out, c.cc, opts...)
- if err != nil {
- return nil, err
- }
- return out, nil
-}
-
-// Server API for VariantServiceV1 service
-
-type VariantServiceV1Server interface {
- // 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 Variant info fields are merged
- // as specified in
- // [infoMergeConfig][google.genomics.v1.ImportVariantsRequest.info_merge_config].
- // 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.
- ImportVariants(context.Context, *ImportVariantsRequest) (*google_longrunning.Operation, error)
- // 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.
- CreateVariantSet(context.Context, *CreateVariantSetRequest) (*VariantSet, error)
- // 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)
- ExportVariantSet(context.Context, *ExportVariantSetRequest) (*google_longrunning.Operation, error)
- // 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)
- GetVariantSet(context.Context, *GetVariantSetRequest) (*VariantSet, error)
- // 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).
- SearchVariantSets(context.Context, *SearchVariantSetsRequest) (*SearchVariantSetsResponse, error)
- // Deletes a variant set including all variants, call sets, and calls within.
- // This is not reversible.
- //
- // For the definitions of variant sets and other genomics resources, see
- // [Fundamentals of Google
- // Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
- DeleteVariantSet(context.Context, *DeleteVariantSetRequest) (*google_protobuf1.Empty, error)
- // 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)
- UpdateVariantSet(context.Context, *UpdateVariantSetRequest) (*VariantSet, error)
- // 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).
- SearchVariants(context.Context, *SearchVariantsRequest) (*SearchVariantsResponse, error)
- // 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)
- CreateVariant(context.Context, *CreateVariantRequest) (*Variant, error)
- // 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.
- UpdateVariant(context.Context, *UpdateVariantRequest) (*Variant, error)
- // 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)
- DeleteVariant(context.Context, *DeleteVariantRequest) (*google_protobuf1.Empty, error)
- // 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)
- GetVariant(context.Context, *GetVariantRequest) (*Variant, error)
- // Merges the given variants with existing variants.
- //
- // For the definitions of variants and other genomics resources, see
- // [Fundamentals of Google
- // Genomics](https://cloud.google.com/genomics/fundamentals-of-google-genomics)
- //
- // Each variant will be
- // merged with an existing variant that matches its reference sequence,
- // start, end, reference bases, and alternative bases. If no such variant
- // exists, a new one will be created.
- //
- // When variants are merged, the call information from the new variant
- // is added to the existing variant. Variant info fields are merged as
- // specified in the
- // [infoMergeConfig][google.genomics.v1.MergeVariantsRequest.info_merge_config]
- // field of the MergeVariantsRequest.
- //
- // Please exercise caution when using this method! It is easy to introduce
- // mistakes in existing variants and difficult to back out of them. For
- // example,
- // suppose you were trying to merge a new variant with an existing one and
- // both
- // variants contain calls that belong to callsets with the same callset ID.
- //
- // // Existing variant - irrelevant fields trimmed for clarity
- // {
- // "variantSetId": "10473108253681171589",
- // "referenceName": "1",
- // "start": "10582",
- // "referenceBases": "G",
- // "alternateBases": [
- // "A"
- // ],
- // "calls": [
- // {
- // "callSetId": "10473108253681171589-0",
- // "callSetName": "CALLSET0",
- // "genotype": [
- // 0,
- // 1
- // ],
- // }
- // ]
- // }
- //
- // // New variant with conflicting call information
- // {
- // "variantSetId": "10473108253681171589",
- // "referenceName": "1",
- // "start": "10582",
- // "referenceBases": "G",
- // "alternateBases": [
- // "A"
- // ],
- // "calls": [
- // {
- // "callSetId": "10473108253681171589-0",
- // "callSetName": "CALLSET0",
- // "genotype": [
- // 1,
- // 1
- // ],
- // }
- // ]
- // }
- //
- // The resulting merged variant would overwrite the existing calls with those
- // from the new variant:
- //
- // {
- // "variantSetId": "10473108253681171589",
- // "referenceName": "1",
- // "start": "10582",
- // "referenceBases": "G",
- // "alternateBases": [
- // "A"
- // ],
- // "calls": [
- // {
- // "callSetId": "10473108253681171589-0",
- // "callSetName": "CALLSET0",
- // "genotype": [
- // 1,
- // 1
- // ],
- // }
- // ]
- // }
- //
- // This may be the desired outcome, but it is up to the user to determine if
- // if that is indeed the case.
- MergeVariants(context.Context, *MergeVariantsRequest) (*google_protobuf1.Empty, error)
- // 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).
- SearchCallSets(context.Context, *SearchCallSetsRequest) (*SearchCallSetsResponse, error)
- // 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)
- CreateCallSet(context.Context, *CreateCallSetRequest) (*CallSet, error)
- // 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.
- UpdateCallSet(context.Context, *UpdateCallSetRequest) (*CallSet, error)
- // 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)
- DeleteCallSet(context.Context, *DeleteCallSetRequest) (*google_protobuf1.Empty, error)
- // 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)
- GetCallSet(context.Context, *GetCallSetRequest) (*CallSet, error)
-}
-
-func RegisterVariantServiceV1Server(s *grpc.Server, srv VariantServiceV1Server) {
- s.RegisterService(&_VariantServiceV1_serviceDesc, srv)
-}
-
-func _VariantServiceV1_ImportVariants_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(ImportVariantsRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).ImportVariants(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/ImportVariants",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).ImportVariants(ctx, req.(*ImportVariantsRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_CreateVariantSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(CreateVariantSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).CreateVariantSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/CreateVariantSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).CreateVariantSet(ctx, req.(*CreateVariantSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_ExportVariantSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(ExportVariantSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).ExportVariantSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/ExportVariantSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).ExportVariantSet(ctx, req.(*ExportVariantSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_GetVariantSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(GetVariantSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).GetVariantSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/GetVariantSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).GetVariantSet(ctx, req.(*GetVariantSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_SearchVariantSets_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(SearchVariantSetsRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).SearchVariantSets(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/SearchVariantSets",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).SearchVariantSets(ctx, req.(*SearchVariantSetsRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_DeleteVariantSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(DeleteVariantSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).DeleteVariantSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/DeleteVariantSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).DeleteVariantSet(ctx, req.(*DeleteVariantSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_UpdateVariantSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(UpdateVariantSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).UpdateVariantSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/UpdateVariantSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).UpdateVariantSet(ctx, req.(*UpdateVariantSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_SearchVariants_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(SearchVariantsRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).SearchVariants(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/SearchVariants",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).SearchVariants(ctx, req.(*SearchVariantsRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_CreateVariant_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(CreateVariantRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).CreateVariant(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/CreateVariant",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).CreateVariant(ctx, req.(*CreateVariantRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_UpdateVariant_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(UpdateVariantRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).UpdateVariant(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/UpdateVariant",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).UpdateVariant(ctx, req.(*UpdateVariantRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_DeleteVariant_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(DeleteVariantRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).DeleteVariant(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/DeleteVariant",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).DeleteVariant(ctx, req.(*DeleteVariantRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_GetVariant_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(GetVariantRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).GetVariant(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/GetVariant",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).GetVariant(ctx, req.(*GetVariantRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_MergeVariants_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(MergeVariantsRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).MergeVariants(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/MergeVariants",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).MergeVariants(ctx, req.(*MergeVariantsRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_SearchCallSets_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(SearchCallSetsRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).SearchCallSets(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/SearchCallSets",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).SearchCallSets(ctx, req.(*SearchCallSetsRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_CreateCallSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(CreateCallSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).CreateCallSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/CreateCallSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).CreateCallSet(ctx, req.(*CreateCallSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_UpdateCallSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(UpdateCallSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).UpdateCallSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/UpdateCallSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).UpdateCallSet(ctx, req.(*UpdateCallSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_DeleteCallSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(DeleteCallSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).DeleteCallSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/DeleteCallSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).DeleteCallSet(ctx, req.(*DeleteCallSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-func _VariantServiceV1_GetCallSet_Handler(srv interface{}, ctx context.Context, dec func(interface{}) error, interceptor grpc.UnaryServerInterceptor) (interface{}, error) {
- in := new(GetCallSetRequest)
- if err := dec(in); err != nil {
- return nil, err
- }
- if interceptor == nil {
- return srv.(VariantServiceV1Server).GetCallSet(ctx, in)
- }
- info := &grpc.UnaryServerInfo{
- Server: srv,
- FullMethod: "/google.genomics.v1.VariantServiceV1/GetCallSet",
- }
- handler := func(ctx context.Context, req interface{}) (interface{}, error) {
- return srv.(VariantServiceV1Server).GetCallSet(ctx, req.(*GetCallSetRequest))
- }
- return interceptor(ctx, in, info, handler)
-}
-
-var _VariantServiceV1_serviceDesc = grpc.ServiceDesc{
- ServiceName: "google.genomics.v1.VariantServiceV1",
- HandlerType: (*VariantServiceV1Server)(nil),
- Methods: []grpc.MethodDesc{
- {
- MethodName: "ImportVariants",
- Handler: _VariantServiceV1_ImportVariants_Handler,
- },
- {
- MethodName: "CreateVariantSet",
- Handler: _VariantServiceV1_CreateVariantSet_Handler,
- },
- {
- MethodName: "ExportVariantSet",
- Handler: _VariantServiceV1_ExportVariantSet_Handler,
- },
- {
- MethodName: "GetVariantSet",
- Handler: _VariantServiceV1_GetVariantSet_Handler,
- },
- {
- MethodName: "SearchVariantSets",
- Handler: _VariantServiceV1_SearchVariantSets_Handler,
- },
- {
- MethodName: "DeleteVariantSet",
- Handler: _VariantServiceV1_DeleteVariantSet_Handler,
- },
- {
- MethodName: "UpdateVariantSet",
- Handler: _VariantServiceV1_UpdateVariantSet_Handler,
- },
- {
- MethodName: "SearchVariants",
- Handler: _VariantServiceV1_SearchVariants_Handler,
- },
- {
- MethodName: "CreateVariant",
- Handler: _VariantServiceV1_CreateVariant_Handler,
- },
- {
- MethodName: "UpdateVariant",
- Handler: _VariantServiceV1_UpdateVariant_Handler,
- },
- {
- MethodName: "DeleteVariant",
- Handler: _VariantServiceV1_DeleteVariant_Handler,
- },
- {
- MethodName: "GetVariant",
- Handler: _VariantServiceV1_GetVariant_Handler,
- },
- {
- MethodName: "MergeVariants",
- Handler: _VariantServiceV1_MergeVariants_Handler,
- },
- {
- MethodName: "SearchCallSets",
- Handler: _VariantServiceV1_SearchCallSets_Handler,
- },
- {
- MethodName: "CreateCallSet",
- Handler: _VariantServiceV1_CreateCallSet_Handler,
- },
- {
- MethodName: "UpdateCallSet",
- Handler: _VariantServiceV1_UpdateCallSet_Handler,
- },
- {
- MethodName: "DeleteCallSet",
- Handler: _VariantServiceV1_DeleteCallSet_Handler,
- },
- {
- MethodName: "GetCallSet",
- Handler: _VariantServiceV1_GetCallSet_Handler,
- },
- },
- Streams: []grpc.StreamDesc{},
- Metadata: "google/genomics/v1/variants.proto",
-}
-
-func init() { proto.RegisterFile("google/genomics/v1/variants.proto", fileDescriptor11) }
-
-var fileDescriptor11 = []byte{
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