Source file src/google.golang.org/genproto/googleapis/genomics/v1/readgroup.pb.go

Documentation: google.golang.org/genproto/googleapis/genomics/v1

     1  // Copyright 2024 Google LLC
     2  //
     3  // Licensed under the Apache License, Version 2.0 (the "License");
     4  // you may not use this file except in compliance with the License.
     5  // You may obtain a copy of the License at
     6  //
     7  //     http://www.apache.org/licenses/LICENSE-2.0
     8  //
     9  // Unless required by applicable law or agreed to in writing, software
    10  // distributed under the License is distributed on an "AS IS" BASIS,
    11  // WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
    12  // See the License for the specific language governing permissions and
    13  // limitations under the License.
    14  
    15  // Code generated by protoc-gen-go. DO NOT EDIT.
    16  // versions:
    17  // 	protoc-gen-go v1.26.0
    18  // 	protoc        v4.24.4
    19  // source: google/genomics/v1/readgroup.proto
    20  
    21  package genomics
    22  
    23  import (
    24  	reflect "reflect"
    25  	sync "sync"
    26  
    27  	_ "google.golang.org/genproto/googleapis/api/annotations"
    28  	protoreflect "google.golang.org/protobuf/reflect/protoreflect"
    29  	protoimpl "google.golang.org/protobuf/runtime/protoimpl"
    30  	structpb "google.golang.org/protobuf/types/known/structpb"
    31  )
    32  
    33  const (
    34  	// Verify that this generated code is sufficiently up-to-date.
    35  	_ = protoimpl.EnforceVersion(20 - protoimpl.MinVersion)
    36  	// Verify that runtime/protoimpl is sufficiently up-to-date.
    37  	_ = protoimpl.EnforceVersion(protoimpl.MaxVersion - 20)
    38  )
    39  
    40  // A read group is all the data that's processed the same way by the sequencer.
    41  type ReadGroup struct {
    42  	state         protoimpl.MessageState
    43  	sizeCache     protoimpl.SizeCache
    44  	unknownFields protoimpl.UnknownFields
    45  
    46  	// The server-generated read group ID, unique for all read groups.
    47  	// Note: This is different than the @RG ID field in the SAM spec. For that
    48  	// value, see [name][google.genomics.v1.ReadGroup.name].
    49  	Id string `protobuf:"bytes,1,opt,name=id,proto3" json:"id,omitempty"`
    50  	// The dataset to which this read group belongs.
    51  	DatasetId string `protobuf:"bytes,2,opt,name=dataset_id,json=datasetId,proto3" json:"dataset_id,omitempty"`
    52  	// The read group name. This corresponds to the @RG ID field in the SAM spec.
    53  	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
    54  	// A free-form text description of this read group.
    55  	Description string `protobuf:"bytes,4,opt,name=description,proto3" json:"description,omitempty"`
    56  	// A client-supplied sample identifier for the reads in this read group.
    57  	SampleId string `protobuf:"bytes,5,opt,name=sample_id,json=sampleId,proto3" json:"sample_id,omitempty"`
    58  	// The experiment used to generate this read group.
    59  	Experiment *ReadGroup_Experiment `protobuf:"bytes,6,opt,name=experiment,proto3" json:"experiment,omitempty"`
    60  	// The predicted insert size of this read group. The insert size is the length
    61  	// the sequenced DNA fragment from end-to-end, not including the adapters.
    62  	PredictedInsertSize int32 `protobuf:"varint,7,opt,name=predicted_insert_size,json=predictedInsertSize,proto3" json:"predicted_insert_size,omitempty"`
    63  	// The programs used to generate this read group. Programs are always
    64  	// identical for all read groups within a read group set. For this reason,
    65  	// only the first read group in a returned set will have this field
    66  	// populated.
    67  	Programs []*ReadGroup_Program `protobuf:"bytes,10,rep,name=programs,proto3" json:"programs,omitempty"`
    68  	// The reference set the reads in this read group are aligned to.
    69  	ReferenceSetId string `protobuf:"bytes,11,opt,name=reference_set_id,json=referenceSetId,proto3" json:"reference_set_id,omitempty"`
    70  	// A map of additional read group information. This must be of the form
    71  	// map<string, string[]> (string key mapping to a list of string values).
    72  	Info map[string]*structpb.ListValue `protobuf:"bytes,12,rep,name=info,proto3" json:"info,omitempty" protobuf_key:"bytes,1,opt,name=key,proto3" protobuf_val:"bytes,2,opt,name=value,proto3"`
    73  }
    74  
    75  func (x *ReadGroup) Reset() {
    76  	*x = ReadGroup{}
    77  	if protoimpl.UnsafeEnabled {
    78  		mi := &file_google_genomics_v1_readgroup_proto_msgTypes[0]
    79  		ms := protoimpl.X.MessageStateOf(protoimpl.Pointer(x))
    80  		ms.StoreMessageInfo(mi)
    81  	}
    82  }
    83  
    84  func (x *ReadGroup) String() string {
    85  	return protoimpl.X.MessageStringOf(x)
    86  }
    87  
    88  func (*ReadGroup) ProtoMessage() {}
    89  
    90  func (x *ReadGroup) ProtoReflect() protoreflect.Message {
    91  	mi := &file_google_genomics_v1_readgroup_proto_msgTypes[0]
    92  	if protoimpl.UnsafeEnabled && x != nil {
    93  		ms := protoimpl.X.MessageStateOf(protoimpl.Pointer(x))
    94  		if ms.LoadMessageInfo() == nil {
    95  			ms.StoreMessageInfo(mi)
    96  		}
    97  		return ms
    98  	}
    99  	return mi.MessageOf(x)
   100  }
   101  
   102  // Deprecated: Use ReadGroup.ProtoReflect.Descriptor instead.
   103  func (*ReadGroup) Descriptor() ([]byte, []int) {
   104  	return file_google_genomics_v1_readgroup_proto_rawDescGZIP(), []int{0}
   105  }
   106  
   107  func (x *ReadGroup) GetId() string {
   108  	if x != nil {
   109  		return x.Id
   110  	}
   111  	return ""
   112  }
   113  
   114  func (x *ReadGroup) GetDatasetId() string {
   115  	if x != nil {
   116  		return x.DatasetId
   117  	}
   118  	return ""
   119  }
   120  
   121  func (x *ReadGroup) GetName() string {
   122  	if x != nil {
   123  		return x.Name
   124  	}
   125  	return ""
   126  }
   127  
   128  func (x *ReadGroup) GetDescription() string {
   129  	if x != nil {
   130  		return x.Description
   131  	}
   132  	return ""
   133  }
   134  
   135  func (x *ReadGroup) GetSampleId() string {
   136  	if x != nil {
   137  		return x.SampleId
   138  	}
   139  	return ""
   140  }
   141  
   142  func (x *ReadGroup) GetExperiment() *ReadGroup_Experiment {
   143  	if x != nil {
   144  		return x.Experiment
   145  	}
   146  	return nil
   147  }
   148  
   149  func (x *ReadGroup) GetPredictedInsertSize() int32 {
   150  	if x != nil {
   151  		return x.PredictedInsertSize
   152  	}
   153  	return 0
   154  }
   155  
   156  func (x *ReadGroup) GetPrograms() []*ReadGroup_Program {
   157  	if x != nil {
   158  		return x.Programs
   159  	}
   160  	return nil
   161  }
   162  
   163  func (x *ReadGroup) GetReferenceSetId() string {
   164  	if x != nil {
   165  		return x.ReferenceSetId
   166  	}
   167  	return ""
   168  }
   169  
   170  func (x *ReadGroup) GetInfo() map[string]*structpb.ListValue {
   171  	if x != nil {
   172  		return x.Info
   173  	}
   174  	return nil
   175  }
   176  
   177  type ReadGroup_Experiment struct {
   178  	state         protoimpl.MessageState
   179  	sizeCache     protoimpl.SizeCache
   180  	unknownFields protoimpl.UnknownFields
   181  
   182  	// A client-supplied library identifier; a library is a collection of DNA
   183  	// fragments which have been prepared for sequencing from a sample. This
   184  	// field is important for quality control as error or bias can be introduced
   185  	// during sample preparation.
   186  	LibraryId string `protobuf:"bytes,1,opt,name=library_id,json=libraryId,proto3" json:"library_id,omitempty"`
   187  	// The platform unit used as part of this experiment, for example
   188  	// flowcell-barcode.lane for Illumina or slide for SOLiD. Corresponds to the
   189  	// @RG PU field in the SAM spec.
   190  	PlatformUnit string `protobuf:"bytes,2,opt,name=platform_unit,json=platformUnit,proto3" json:"platform_unit,omitempty"`
   191  	// The sequencing center used as part of this experiment.
   192  	SequencingCenter string `protobuf:"bytes,3,opt,name=sequencing_center,json=sequencingCenter,proto3" json:"sequencing_center,omitempty"`
   193  	// The instrument model used as part of this experiment. This maps to
   194  	// sequencing technology in the SAM spec.
   195  	InstrumentModel string `protobuf:"bytes,4,opt,name=instrument_model,json=instrumentModel,proto3" json:"instrument_model,omitempty"`
   196  }
   197  
   198  func (x *ReadGroup_Experiment) Reset() {
   199  	*x = ReadGroup_Experiment{}
   200  	if protoimpl.UnsafeEnabled {
   201  		mi := &file_google_genomics_v1_readgroup_proto_msgTypes[1]
   202  		ms := protoimpl.X.MessageStateOf(protoimpl.Pointer(x))
   203  		ms.StoreMessageInfo(mi)
   204  	}
   205  }
   206  
   207  func (x *ReadGroup_Experiment) String() string {
   208  	return protoimpl.X.MessageStringOf(x)
   209  }
   210  
   211  func (*ReadGroup_Experiment) ProtoMessage() {}
   212  
   213  func (x *ReadGroup_Experiment) ProtoReflect() protoreflect.Message {
   214  	mi := &file_google_genomics_v1_readgroup_proto_msgTypes[1]
   215  	if protoimpl.UnsafeEnabled && x != nil {
   216  		ms := protoimpl.X.MessageStateOf(protoimpl.Pointer(x))
   217  		if ms.LoadMessageInfo() == nil {
   218  			ms.StoreMessageInfo(mi)
   219  		}
   220  		return ms
   221  	}
   222  	return mi.MessageOf(x)
   223  }
   224  
   225  // Deprecated: Use ReadGroup_Experiment.ProtoReflect.Descriptor instead.
   226  func (*ReadGroup_Experiment) Descriptor() ([]byte, []int) {
   227  	return file_google_genomics_v1_readgroup_proto_rawDescGZIP(), []int{0, 0}
   228  }
   229  
   230  func (x *ReadGroup_Experiment) GetLibraryId() string {
   231  	if x != nil {
   232  		return x.LibraryId
   233  	}
   234  	return ""
   235  }
   236  
   237  func (x *ReadGroup_Experiment) GetPlatformUnit() string {
   238  	if x != nil {
   239  		return x.PlatformUnit
   240  	}
   241  	return ""
   242  }
   243  
   244  func (x *ReadGroup_Experiment) GetSequencingCenter() string {
   245  	if x != nil {
   246  		return x.SequencingCenter
   247  	}
   248  	return ""
   249  }
   250  
   251  func (x *ReadGroup_Experiment) GetInstrumentModel() string {
   252  	if x != nil {
   253  		return x.InstrumentModel
   254  	}
   255  	return ""
   256  }
   257  
   258  type ReadGroup_Program struct {
   259  	state         protoimpl.MessageState
   260  	sizeCache     protoimpl.SizeCache
   261  	unknownFields protoimpl.UnknownFields
   262  
   263  	// The command line used to run this program.
   264  	CommandLine string `protobuf:"bytes,1,opt,name=command_line,json=commandLine,proto3" json:"command_line,omitempty"`
   265  	// The user specified locally unique ID of the program. Used along with
   266  	// `prevProgramId` to define an ordering between programs.
   267  	Id string `protobuf:"bytes,2,opt,name=id,proto3" json:"id,omitempty"`
   268  	// The display name of the program. This is typically the colloquial name of
   269  	// the tool used, for example 'bwa' or 'picard'.
   270  	Name string `protobuf:"bytes,3,opt,name=name,proto3" json:"name,omitempty"`
   271  	// The ID of the program run before this one.
   272  	PrevProgramId string `protobuf:"bytes,4,opt,name=prev_program_id,json=prevProgramId,proto3" json:"prev_program_id,omitempty"`
   273  	// The version of the program run.
   274  	Version string `protobuf:"bytes,5,opt,name=version,proto3" json:"version,omitempty"`
   275  }
   276  
   277  func (x *ReadGroup_Program) Reset() {
   278  	*x = ReadGroup_Program{}
   279  	if protoimpl.UnsafeEnabled {
   280  		mi := &file_google_genomics_v1_readgroup_proto_msgTypes[2]
   281  		ms := protoimpl.X.MessageStateOf(protoimpl.Pointer(x))
   282  		ms.StoreMessageInfo(mi)
   283  	}
   284  }
   285  
   286  func (x *ReadGroup_Program) String() string {
   287  	return protoimpl.X.MessageStringOf(x)
   288  }
   289  
   290  func (*ReadGroup_Program) ProtoMessage() {}
   291  
   292  func (x *ReadGroup_Program) ProtoReflect() protoreflect.Message {
   293  	mi := &file_google_genomics_v1_readgroup_proto_msgTypes[2]
   294  	if protoimpl.UnsafeEnabled && x != nil {
   295  		ms := protoimpl.X.MessageStateOf(protoimpl.Pointer(x))
   296  		if ms.LoadMessageInfo() == nil {
   297  			ms.StoreMessageInfo(mi)
   298  		}
   299  		return ms
   300  	}
   301  	return mi.MessageOf(x)
   302  }
   303  
   304  // Deprecated: Use ReadGroup_Program.ProtoReflect.Descriptor instead.
   305  func (*ReadGroup_Program) Descriptor() ([]byte, []int) {
   306  	return file_google_genomics_v1_readgroup_proto_rawDescGZIP(), []int{0, 1}
   307  }
   308  
   309  func (x *ReadGroup_Program) GetCommandLine() string {
   310  	if x != nil {
   311  		return x.CommandLine
   312  	}
   313  	return ""
   314  }
   315  
   316  func (x *ReadGroup_Program) GetId() string {
   317  	if x != nil {
   318  		return x.Id
   319  	}
   320  	return ""
   321  }
   322  
   323  func (x *ReadGroup_Program) GetName() string {
   324  	if x != nil {
   325  		return x.Name
   326  	}
   327  	return ""
   328  }
   329  
   330  func (x *ReadGroup_Program) GetPrevProgramId() string {
   331  	if x != nil {
   332  		return x.PrevProgramId
   333  	}
   334  	return ""
   335  }
   336  
   337  func (x *ReadGroup_Program) GetVersion() string {
   338  	if x != nil {
   339  		return x.Version
   340  	}
   341  	return ""
   342  }
   343  
   344  var File_google_genomics_v1_readgroup_proto protoreflect.FileDescriptor
   345  
   346  var file_google_genomics_v1_readgroup_proto_rawDesc = []byte{
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   414  	0x6f, 0x74, 0x6f, 0x33,
   415  }
   416  
   417  var (
   418  	file_google_genomics_v1_readgroup_proto_rawDescOnce sync.Once
   419  	file_google_genomics_v1_readgroup_proto_rawDescData = file_google_genomics_v1_readgroup_proto_rawDesc
   420  )
   421  
   422  func file_google_genomics_v1_readgroup_proto_rawDescGZIP() []byte {
   423  	file_google_genomics_v1_readgroup_proto_rawDescOnce.Do(func() {
   424  		file_google_genomics_v1_readgroup_proto_rawDescData = protoimpl.X.CompressGZIP(file_google_genomics_v1_readgroup_proto_rawDescData)
   425  	})
   426  	return file_google_genomics_v1_readgroup_proto_rawDescData
   427  }
   428  
   429  var file_google_genomics_v1_readgroup_proto_msgTypes = make([]protoimpl.MessageInfo, 4)
   430  var file_google_genomics_v1_readgroup_proto_goTypes = []interface{}{
   431  	(*ReadGroup)(nil),            // 0: google.genomics.v1.ReadGroup
   432  	(*ReadGroup_Experiment)(nil), // 1: google.genomics.v1.ReadGroup.Experiment
   433  	(*ReadGroup_Program)(nil),    // 2: google.genomics.v1.ReadGroup.Program
   434  	nil,                          // 3: google.genomics.v1.ReadGroup.InfoEntry
   435  	(*structpb.ListValue)(nil),   // 4: google.protobuf.ListValue
   436  }
   437  var file_google_genomics_v1_readgroup_proto_depIdxs = []int32{
   438  	1, // 0: google.genomics.v1.ReadGroup.experiment:type_name -> google.genomics.v1.ReadGroup.Experiment
   439  	2, // 1: google.genomics.v1.ReadGroup.programs:type_name -> google.genomics.v1.ReadGroup.Program
   440  	3, // 2: google.genomics.v1.ReadGroup.info:type_name -> google.genomics.v1.ReadGroup.InfoEntry
   441  	4, // 3: google.genomics.v1.ReadGroup.InfoEntry.value:type_name -> google.protobuf.ListValue
   442  	4, // [4:4] is the sub-list for method output_type
   443  	4, // [4:4] is the sub-list for method input_type
   444  	4, // [4:4] is the sub-list for extension type_name
   445  	4, // [4:4] is the sub-list for extension extendee
   446  	0, // [0:4] is the sub-list for field type_name
   447  }
   448  
   449  func init() { file_google_genomics_v1_readgroup_proto_init() }
   450  func file_google_genomics_v1_readgroup_proto_init() {
   451  	if File_google_genomics_v1_readgroup_proto != nil {
   452  		return
   453  	}
   454  	if !protoimpl.UnsafeEnabled {
   455  		file_google_genomics_v1_readgroup_proto_msgTypes[0].Exporter = func(v interface{}, i int) interface{} {
   456  			switch v := v.(*ReadGroup); i {
   457  			case 0:
   458  				return &v.state
   459  			case 1:
   460  				return &v.sizeCache
   461  			case 2:
   462  				return &v.unknownFields
   463  			default:
   464  				return nil
   465  			}
   466  		}
   467  		file_google_genomics_v1_readgroup_proto_msgTypes[1].Exporter = func(v interface{}, i int) interface{} {
   468  			switch v := v.(*ReadGroup_Experiment); i {
   469  			case 0:
   470  				return &v.state
   471  			case 1:
   472  				return &v.sizeCache
   473  			case 2:
   474  				return &v.unknownFields
   475  			default:
   476  				return nil
   477  			}
   478  		}
   479  		file_google_genomics_v1_readgroup_proto_msgTypes[2].Exporter = func(v interface{}, i int) interface{} {
   480  			switch v := v.(*ReadGroup_Program); i {
   481  			case 0:
   482  				return &v.state
   483  			case 1:
   484  				return &v.sizeCache
   485  			case 2:
   486  				return &v.unknownFields
   487  			default:
   488  				return nil
   489  			}
   490  		}
   491  	}
   492  	type x struct{}
   493  	out := protoimpl.TypeBuilder{
   494  		File: protoimpl.DescBuilder{
   495  			GoPackagePath: reflect.TypeOf(x{}).PkgPath(),
   496  			RawDescriptor: file_google_genomics_v1_readgroup_proto_rawDesc,
   497  			NumEnums:      0,
   498  			NumMessages:   4,
   499  			NumExtensions: 0,
   500  			NumServices:   0,
   501  		},
   502  		GoTypes:           file_google_genomics_v1_readgroup_proto_goTypes,
   503  		DependencyIndexes: file_google_genomics_v1_readgroup_proto_depIdxs,
   504  		MessageInfos:      file_google_genomics_v1_readgroup_proto_msgTypes,
   505  	}.Build()
   506  	File_google_genomics_v1_readgroup_proto = out.File
   507  	file_google_genomics_v1_readgroup_proto_rawDesc = nil
   508  	file_google_genomics_v1_readgroup_proto_goTypes = nil
   509  	file_google_genomics_v1_readgroup_proto_depIdxs = nil
   510  }
   511  

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