// source: phenopackets/schema/v1/phenopackets.proto
/**
* @fileoverview
* @enhanceable
* @suppress {missingRequire} reports error on implicit type usages.
* @suppress {messageConventions} JS Compiler reports an error if a variable or
* field starts with 'MSG_' and isn't a translatable message.
* @public
*/
// GENERATED CODE -- DO NOT EDIT!
/* eslint-disable */
// @ts-nocheck
var jspb = require('google-protobuf');
var goog = jspb;
var global =
(typeof globalThis !== 'undefined' && globalThis) ||
(typeof window !== 'undefined' && window) ||
(typeof global !== 'undefined' && global) ||
(typeof self !== 'undefined' && self) ||
(function () { return this; }).call(null) ||
Function('return this')();
var phenopackets_schema_v1_base_pb = require('../../../phenopackets/schema/v1/base_pb.js');
goog.object.extend(proto, phenopackets_schema_v1_base_pb);
goog.exportSymbol('proto.org.phenopackets.schema.v1.Cohort', null, global);
goog.exportSymbol('proto.org.phenopackets.schema.v1.Family', null, global);
goog.exportSymbol('proto.org.phenopackets.schema.v1.Phenopacket', null, global);
/**
* Generated by JsPbCodeGenerator.
* @param {Array=} opt_data Optional initial data array, typically from a
* server response, or constructed directly in Javascript. The array is used
* in place and becomes part of the constructed object. It is not cloned.
* If no data is provided, the constructed object will be empty, but still
* valid.
* @extends {jspb.Message}
* @constructor
*/
proto.org.phenopackets.schema.v1.Phenopacket = function(opt_data) {
jspb.Message.initialize(this, opt_data, 0, -1, proto.org.phenopackets.schema.v1.Phenopacket.repeatedFields_, null);
};
goog.inherits(proto.org.phenopackets.schema.v1.Phenopacket, jspb.Message);
if (goog.DEBUG && !COMPILED) {
/**
* @public
* @override
*/
proto.org.phenopackets.schema.v1.Phenopacket.displayName = 'proto.org.phenopackets.schema.v1.Phenopacket';
}
/**
* Generated by JsPbCodeGenerator.
* @param {Array=} opt_data Optional initial data array, typically from a
* server response, or constructed directly in Javascript. The array is used
* in place and becomes part of the constructed object. It is not cloned.
* If no data is provided, the constructed object will be empty, but still
* valid.
* @extends {jspb.Message}
* @constructor
*/
proto.org.phenopackets.schema.v1.Family = function(opt_data) {
jspb.Message.initialize(this, opt_data, 0, -1, proto.org.phenopackets.schema.v1.Family.repeatedFields_, null);
};
goog.inherits(proto.org.phenopackets.schema.v1.Family, jspb.Message);
if (goog.DEBUG && !COMPILED) {
/**
* @public
* @override
*/
proto.org.phenopackets.schema.v1.Family.displayName = 'proto.org.phenopackets.schema.v1.Family';
}
/**
* Generated by JsPbCodeGenerator.
* @param {Array=} opt_data Optional initial data array, typically from a
* server response, or constructed directly in Javascript. The array is used
* in place and becomes part of the constructed object. It is not cloned.
* If no data is provided, the constructed object will be empty, but still
* valid.
* @extends {jspb.Message}
* @constructor
*/
proto.org.phenopackets.schema.v1.Cohort = function(opt_data) {
jspb.Message.initialize(this, opt_data, 0, -1, proto.org.phenopackets.schema.v1.Cohort.repeatedFields_, null);
};
goog.inherits(proto.org.phenopackets.schema.v1.Cohort, jspb.Message);
if (goog.DEBUG && !COMPILED) {
/**
* @public
* @override
*/
proto.org.phenopackets.schema.v1.Cohort.displayName = 'proto.org.phenopackets.schema.v1.Cohort';
}
/**
* List of repeated fields within this message type.
* @private {!Array<number>}
* @const
*/
proto.org.phenopackets.schema.v1.Phenopacket.repeatedFields_ = [3,4,5,6,7,8];
if (jspb.Message.GENERATE_TO_OBJECT) {
/**
* Creates an object representation of this proto.
* Field names that are reserved in JavaScript and will be renamed to pb_name.
* Optional fields that are not set will be set to undefined.
* To access a reserved field use, foo.pb_<name>, eg, foo.pb_default.
* For the list of reserved names please see:
* net/proto2/compiler/js/internal/generator.cc#kKeyword.
* @param {boolean=} opt_includeInstance Deprecated. whether to include the
* JSPB instance for transitional soy proto support:
* http://goto/soy-param-migration
* @return {!Object}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.toObject = function(opt_includeInstance) {
return proto.org.phenopackets.schema.v1.Phenopacket.toObject(opt_includeInstance, this);
};
/**
* Static version of the {@see toObject} method.
* @param {boolean|undefined} includeInstance Deprecated. Whether to include
* the JSPB instance for transitional soy proto support:
* http://goto/soy-param-migration
* @param {!proto.org.phenopackets.schema.v1.Phenopacket} msg The msg instance to transform.
* @return {!Object}
* @suppress {unusedLocalVariables} f is only used for nested messages
*/
proto.org.phenopackets.schema.v1.Phenopacket.toObject = function(includeInstance, msg) {
var f, obj = {
id: jspb.Message.getFieldWithDefault(msg, 1, ""),
subject: (f = msg.getSubject()) && phenopackets_schema_v1_base_pb.Individual.toObject(includeInstance, f),
phenotypicFeaturesList: jspb.Message.toObjectList(msg.getPhenotypicFeaturesList(),
phenopackets_schema_v1_base_pb.PhenotypicFeature.toObject, includeInstance),
biosamplesList: jspb.Message.toObjectList(msg.getBiosamplesList(),
phenopackets_schema_v1_base_pb.Biosample.toObject, includeInstance),
genesList: jspb.Message.toObjectList(msg.getGenesList(),
phenopackets_schema_v1_base_pb.Gene.toObject, includeInstance),
variantsList: jspb.Message.toObjectList(msg.getVariantsList(),
phenopackets_schema_v1_base_pb.Variant.toObject, includeInstance),
diseasesList: jspb.Message.toObjectList(msg.getDiseasesList(),
phenopackets_schema_v1_base_pb.Disease.toObject, includeInstance),
htsFilesList: jspb.Message.toObjectList(msg.getHtsFilesList(),
phenopackets_schema_v1_base_pb.HtsFile.toObject, includeInstance),
metaData: (f = msg.getMetaData()) && phenopackets_schema_v1_base_pb.MetaData.toObject(includeInstance, f)
};
if (includeInstance) {
obj.$jspbMessageInstance = msg;
}
return obj;
};
}
/**
* Deserializes binary data (in protobuf wire format).
* @param {jspb.ByteSource} bytes The bytes to deserialize.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket}
*/
proto.org.phenopackets.schema.v1.Phenopacket.deserializeBinary = function(bytes) {
var reader = new jspb.BinaryReader(bytes);
var msg = new proto.org.phenopackets.schema.v1.Phenopacket;
return proto.org.phenopackets.schema.v1.Phenopacket.deserializeBinaryFromReader(msg, reader);
};
/**
* Deserializes binary data (in protobuf wire format) from the
* given reader into the given message object.
* @param {!proto.org.phenopackets.schema.v1.Phenopacket} msg The message object to deserialize into.
* @param {!jspb.BinaryReader} reader The BinaryReader to use.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket}
*/
proto.org.phenopackets.schema.v1.Phenopacket.deserializeBinaryFromReader = function(msg, reader) {
while (reader.nextField()) {
if (reader.isEndGroup()) {
break;
}
var field = reader.getFieldNumber();
switch (field) {
case 1:
var value = /** @type {string} */ (reader.readString());
msg.setId(value);
break;
case 2:
var value = new phenopackets_schema_v1_base_pb.Individual;
reader.readMessage(value,phenopackets_schema_v1_base_pb.Individual.deserializeBinaryFromReader);
msg.setSubject(value);
break;
case 3:
var value = new phenopackets_schema_v1_base_pb.PhenotypicFeature;
reader.readMessage(value,phenopackets_schema_v1_base_pb.PhenotypicFeature.deserializeBinaryFromReader);
msg.addPhenotypicFeatures(value);
break;
case 4:
var value = new phenopackets_schema_v1_base_pb.Biosample;
reader.readMessage(value,phenopackets_schema_v1_base_pb.Biosample.deserializeBinaryFromReader);
msg.addBiosamples(value);
break;
case 5:
var value = new phenopackets_schema_v1_base_pb.Gene;
reader.readMessage(value,phenopackets_schema_v1_base_pb.Gene.deserializeBinaryFromReader);
msg.addGenes(value);
break;
case 6:
var value = new phenopackets_schema_v1_base_pb.Variant;
reader.readMessage(value,phenopackets_schema_v1_base_pb.Variant.deserializeBinaryFromReader);
msg.addVariants(value);
break;
case 7:
var value = new phenopackets_schema_v1_base_pb.Disease;
reader.readMessage(value,phenopackets_schema_v1_base_pb.Disease.deserializeBinaryFromReader);
msg.addDiseases(value);
break;
case 8:
var value = new phenopackets_schema_v1_base_pb.HtsFile;
reader.readMessage(value,phenopackets_schema_v1_base_pb.HtsFile.deserializeBinaryFromReader);
msg.addHtsFiles(value);
break;
case 9:
var value = new phenopackets_schema_v1_base_pb.MetaData;
reader.readMessage(value,phenopackets_schema_v1_base_pb.MetaData.deserializeBinaryFromReader);
msg.setMetaData(value);
break;
default:
reader.skipField();
break;
}
}
return msg;
};
/**
* Serializes the message to binary data (in protobuf wire format).
* @return {!Uint8Array}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.serializeBinary = function() {
var writer = new jspb.BinaryWriter();
proto.org.phenopackets.schema.v1.Phenopacket.serializeBinaryToWriter(this, writer);
return writer.getResultBuffer();
};
/**
* Serializes the given message to binary data (in protobuf wire
* format), writing to the given BinaryWriter.
* @param {!proto.org.phenopackets.schema.v1.Phenopacket} message
* @param {!jspb.BinaryWriter} writer
* @suppress {unusedLocalVariables} f is only used for nested messages
*/
proto.org.phenopackets.schema.v1.Phenopacket.serializeBinaryToWriter = function(message, writer) {
var f = undefined;
f = message.getId();
if (f.length > 0) {
writer.writeString(
1,
f
);
}
f = message.getSubject();
if (f != null) {
writer.writeMessage(
2,
f,
phenopackets_schema_v1_base_pb.Individual.serializeBinaryToWriter
);
}
f = message.getPhenotypicFeaturesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
3,
f,
phenopackets_schema_v1_base_pb.PhenotypicFeature.serializeBinaryToWriter
);
}
f = message.getBiosamplesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
4,
f,
phenopackets_schema_v1_base_pb.Biosample.serializeBinaryToWriter
);
}
f = message.getGenesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
5,
f,
phenopackets_schema_v1_base_pb.Gene.serializeBinaryToWriter
);
}
f = message.getVariantsList();
if (f.length > 0) {
writer.writeRepeatedMessage(
6,
f,
phenopackets_schema_v1_base_pb.Variant.serializeBinaryToWriter
);
}
f = message.getDiseasesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
7,
f,
phenopackets_schema_v1_base_pb.Disease.serializeBinaryToWriter
);
}
f = message.getHtsFilesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
8,
f,
phenopackets_schema_v1_base_pb.HtsFile.serializeBinaryToWriter
);
}
f = message.getMetaData();
if (f != null) {
writer.writeMessage(
9,
f,
phenopackets_schema_v1_base_pb.MetaData.serializeBinaryToWriter
);
}
};
/**
* optional string id = 1;
* @return {string}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getId = function() {
return /** @type {string} */ (jspb.Message.getFieldWithDefault(this, 1, ""));
};
/**
* @param {string} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setId = function(value) {
return jspb.Message.setProto3StringField(this, 1, value);
};
/**
* optional core.Individual subject = 2;
* @return {?proto.org.phenopackets.schema.v1.core.Individual}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getSubject = function() {
return /** @type{?proto.org.phenopackets.schema.v1.core.Individual} */ (
jspb.Message.getWrapperField(this, phenopackets_schema_v1_base_pb.Individual, 2));
};
/**
* @param {?proto.org.phenopackets.schema.v1.core.Individual|undefined} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setSubject = function(value) {
return jspb.Message.setWrapperField(this, 2, value);
};
/**
* Clears the message field making it undefined.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearSubject = function() {
return this.setSubject(undefined);
};
/**
* Returns whether this field is set.
* @return {boolean}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.hasSubject = function() {
return jspb.Message.getField(this, 2) != null;
};
/**
* repeated core.PhenotypicFeature phenotypic_features = 3;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.PhenotypicFeature>}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getPhenotypicFeaturesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.PhenotypicFeature>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.PhenotypicFeature, 3));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.PhenotypicFeature>} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setPhenotypicFeaturesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 3, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.PhenotypicFeature=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.PhenotypicFeature}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.addPhenotypicFeatures = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 3, opt_value, proto.org.phenopackets.schema.v1.core.PhenotypicFeature, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearPhenotypicFeaturesList = function() {
return this.setPhenotypicFeaturesList([]);
};
/**
* repeated core.Biosample biosamples = 4;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.Biosample>}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getBiosamplesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.Biosample>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.Biosample, 4));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.Biosample>} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setBiosamplesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 4, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.Biosample=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.Biosample}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.addBiosamples = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 4, opt_value, proto.org.phenopackets.schema.v1.core.Biosample, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearBiosamplesList = function() {
return this.setBiosamplesList([]);
};
/**
* repeated core.Gene genes = 5;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.Gene>}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getGenesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.Gene>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.Gene, 5));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.Gene>} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setGenesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 5, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.Gene=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.Gene}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.addGenes = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 5, opt_value, proto.org.phenopackets.schema.v1.core.Gene, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearGenesList = function() {
return this.setGenesList([]);
};
/**
* repeated core.Variant variants = 6;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.Variant>}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getVariantsList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.Variant>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.Variant, 6));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.Variant>} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setVariantsList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 6, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.Variant=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.Variant}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.addVariants = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 6, opt_value, proto.org.phenopackets.schema.v1.core.Variant, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearVariantsList = function() {
return this.setVariantsList([]);
};
/**
* repeated core.Disease diseases = 7;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.Disease>}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getDiseasesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.Disease>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.Disease, 7));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.Disease>} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setDiseasesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 7, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.Disease=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.Disease}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.addDiseases = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 7, opt_value, proto.org.phenopackets.schema.v1.core.Disease, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearDiseasesList = function() {
return this.setDiseasesList([]);
};
/**
* repeated core.HtsFile hts_files = 8;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getHtsFilesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.HtsFile, 8));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setHtsFilesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 8, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.HtsFile=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.HtsFile}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.addHtsFiles = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 8, opt_value, proto.org.phenopackets.schema.v1.core.HtsFile, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearHtsFilesList = function() {
return this.setHtsFilesList([]);
};
/**
* optional core.MetaData meta_data = 9;
* @return {?proto.org.phenopackets.schema.v1.core.MetaData}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.getMetaData = function() {
return /** @type{?proto.org.phenopackets.schema.v1.core.MetaData} */ (
jspb.Message.getWrapperField(this, phenopackets_schema_v1_base_pb.MetaData, 9));
};
/**
* @param {?proto.org.phenopackets.schema.v1.core.MetaData|undefined} value
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.setMetaData = function(value) {
return jspb.Message.setWrapperField(this, 9, value);
};
/**
* Clears the message field making it undefined.
* @return {!proto.org.phenopackets.schema.v1.Phenopacket} returns this
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.clearMetaData = function() {
return this.setMetaData(undefined);
};
/**
* Returns whether this field is set.
* @return {boolean}
*/
proto.org.phenopackets.schema.v1.Phenopacket.prototype.hasMetaData = function() {
return jspb.Message.getField(this, 9) != null;
};
/**
* List of repeated fields within this message type.
* @private {!Array<number>}
* @const
*/
proto.org.phenopackets.schema.v1.Family.repeatedFields_ = [3,5];
if (jspb.Message.GENERATE_TO_OBJECT) {
/**
* Creates an object representation of this proto.
* Field names that are reserved in JavaScript and will be renamed to pb_name.
* Optional fields that are not set will be set to undefined.
* To access a reserved field use, foo.pb_<name>, eg, foo.pb_default.
* For the list of reserved names please see:
* net/proto2/compiler/js/internal/generator.cc#kKeyword.
* @param {boolean=} opt_includeInstance Deprecated. whether to include the
* JSPB instance for transitional soy proto support:
* http://goto/soy-param-migration
* @return {!Object}
*/
proto.org.phenopackets.schema.v1.Family.prototype.toObject = function(opt_includeInstance) {
return proto.org.phenopackets.schema.v1.Family.toObject(opt_includeInstance, this);
};
/**
* Static version of the {@see toObject} method.
* @param {boolean|undefined} includeInstance Deprecated. Whether to include
* the JSPB instance for transitional soy proto support:
* http://goto/soy-param-migration
* @param {!proto.org.phenopackets.schema.v1.Family} msg The msg instance to transform.
* @return {!Object}
* @suppress {unusedLocalVariables} f is only used for nested messages
*/
proto.org.phenopackets.schema.v1.Family.toObject = function(includeInstance, msg) {
var f, obj = {
id: jspb.Message.getFieldWithDefault(msg, 1, ""),
proband: (f = msg.getProband()) && proto.org.phenopackets.schema.v1.Phenopacket.toObject(includeInstance, f),
relativesList: jspb.Message.toObjectList(msg.getRelativesList(),
proto.org.phenopackets.schema.v1.Phenopacket.toObject, includeInstance),
pedigree: (f = msg.getPedigree()) && phenopackets_schema_v1_base_pb.Pedigree.toObject(includeInstance, f),
htsFilesList: jspb.Message.toObjectList(msg.getHtsFilesList(),
phenopackets_schema_v1_base_pb.HtsFile.toObject, includeInstance),
metaData: (f = msg.getMetaData()) && phenopackets_schema_v1_base_pb.MetaData.toObject(includeInstance, f)
};
if (includeInstance) {
obj.$jspbMessageInstance = msg;
}
return obj;
};
}
/**
* Deserializes binary data (in protobuf wire format).
* @param {jspb.ByteSource} bytes The bytes to deserialize.
* @return {!proto.org.phenopackets.schema.v1.Family}
*/
proto.org.phenopackets.schema.v1.Family.deserializeBinary = function(bytes) {
var reader = new jspb.BinaryReader(bytes);
var msg = new proto.org.phenopackets.schema.v1.Family;
return proto.org.phenopackets.schema.v1.Family.deserializeBinaryFromReader(msg, reader);
};
/**
* Deserializes binary data (in protobuf wire format) from the
* given reader into the given message object.
* @param {!proto.org.phenopackets.schema.v1.Family} msg The message object to deserialize into.
* @param {!jspb.BinaryReader} reader The BinaryReader to use.
* @return {!proto.org.phenopackets.schema.v1.Family}
*/
proto.org.phenopackets.schema.v1.Family.deserializeBinaryFromReader = function(msg, reader) {
while (reader.nextField()) {
if (reader.isEndGroup()) {
break;
}
var field = reader.getFieldNumber();
switch (field) {
case 1:
var value = /** @type {string} */ (reader.readString());
msg.setId(value);
break;
case 2:
var value = new proto.org.phenopackets.schema.v1.Phenopacket;
reader.readMessage(value,proto.org.phenopackets.schema.v1.Phenopacket.deserializeBinaryFromReader);
msg.setProband(value);
break;
case 3:
var value = new proto.org.phenopackets.schema.v1.Phenopacket;
reader.readMessage(value,proto.org.phenopackets.schema.v1.Phenopacket.deserializeBinaryFromReader);
msg.addRelatives(value);
break;
case 4:
var value = new phenopackets_schema_v1_base_pb.Pedigree;
reader.readMessage(value,phenopackets_schema_v1_base_pb.Pedigree.deserializeBinaryFromReader);
msg.setPedigree(value);
break;
case 5:
var value = new phenopackets_schema_v1_base_pb.HtsFile;
reader.readMessage(value,phenopackets_schema_v1_base_pb.HtsFile.deserializeBinaryFromReader);
msg.addHtsFiles(value);
break;
case 6:
var value = new phenopackets_schema_v1_base_pb.MetaData;
reader.readMessage(value,phenopackets_schema_v1_base_pb.MetaData.deserializeBinaryFromReader);
msg.setMetaData(value);
break;
default:
reader.skipField();
break;
}
}
return msg;
};
/**
* Serializes the message to binary data (in protobuf wire format).
* @return {!Uint8Array}
*/
proto.org.phenopackets.schema.v1.Family.prototype.serializeBinary = function() {
var writer = new jspb.BinaryWriter();
proto.org.phenopackets.schema.v1.Family.serializeBinaryToWriter(this, writer);
return writer.getResultBuffer();
};
/**
* Serializes the given message to binary data (in protobuf wire
* format), writing to the given BinaryWriter.
* @param {!proto.org.phenopackets.schema.v1.Family} message
* @param {!jspb.BinaryWriter} writer
* @suppress {unusedLocalVariables} f is only used for nested messages
*/
proto.org.phenopackets.schema.v1.Family.serializeBinaryToWriter = function(message, writer) {
var f = undefined;
f = message.getId();
if (f.length > 0) {
writer.writeString(
1,
f
);
}
f = message.getProband();
if (f != null) {
writer.writeMessage(
2,
f,
proto.org.phenopackets.schema.v1.Phenopacket.serializeBinaryToWriter
);
}
f = message.getRelativesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
3,
f,
proto.org.phenopackets.schema.v1.Phenopacket.serializeBinaryToWriter
);
}
f = message.getPedigree();
if (f != null) {
writer.writeMessage(
4,
f,
phenopackets_schema_v1_base_pb.Pedigree.serializeBinaryToWriter
);
}
f = message.getHtsFilesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
5,
f,
phenopackets_schema_v1_base_pb.HtsFile.serializeBinaryToWriter
);
}
f = message.getMetaData();
if (f != null) {
writer.writeMessage(
6,
f,
phenopackets_schema_v1_base_pb.MetaData.serializeBinaryToWriter
);
}
};
/**
* optional string id = 1;
* @return {string}
*/
proto.org.phenopackets.schema.v1.Family.prototype.getId = function() {
return /** @type {string} */ (jspb.Message.getFieldWithDefault(this, 1, ""));
};
/**
* @param {string} value
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.setId = function(value) {
return jspb.Message.setProto3StringField(this, 1, value);
};
/**
* optional Phenopacket proband = 2;
* @return {?proto.org.phenopackets.schema.v1.Phenopacket}
*/
proto.org.phenopackets.schema.v1.Family.prototype.getProband = function() {
return /** @type{?proto.org.phenopackets.schema.v1.Phenopacket} */ (
jspb.Message.getWrapperField(this, proto.org.phenopackets.schema.v1.Phenopacket, 2));
};
/**
* @param {?proto.org.phenopackets.schema.v1.Phenopacket|undefined} value
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.setProband = function(value) {
return jspb.Message.setWrapperField(this, 2, value);
};
/**
* Clears the message field making it undefined.
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.clearProband = function() {
return this.setProband(undefined);
};
/**
* Returns whether this field is set.
* @return {boolean}
*/
proto.org.phenopackets.schema.v1.Family.prototype.hasProband = function() {
return jspb.Message.getField(this, 2) != null;
};
/**
* repeated Phenopacket relatives = 3;
* @return {!Array<!proto.org.phenopackets.schema.v1.Phenopacket>}
*/
proto.org.phenopackets.schema.v1.Family.prototype.getRelativesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.Phenopacket>} */ (
jspb.Message.getRepeatedWrapperField(this, proto.org.phenopackets.schema.v1.Phenopacket, 3));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.Phenopacket>} value
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.setRelativesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 3, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.Phenopacket=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.Phenopacket}
*/
proto.org.phenopackets.schema.v1.Family.prototype.addRelatives = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 3, opt_value, proto.org.phenopackets.schema.v1.Phenopacket, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.clearRelativesList = function() {
return this.setRelativesList([]);
};
/**
* optional core.Pedigree pedigree = 4;
* @return {?proto.org.phenopackets.schema.v1.core.Pedigree}
*/
proto.org.phenopackets.schema.v1.Family.prototype.getPedigree = function() {
return /** @type{?proto.org.phenopackets.schema.v1.core.Pedigree} */ (
jspb.Message.getWrapperField(this, phenopackets_schema_v1_base_pb.Pedigree, 4));
};
/**
* @param {?proto.org.phenopackets.schema.v1.core.Pedigree|undefined} value
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.setPedigree = function(value) {
return jspb.Message.setWrapperField(this, 4, value);
};
/**
* Clears the message field making it undefined.
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.clearPedigree = function() {
return this.setPedigree(undefined);
};
/**
* Returns whether this field is set.
* @return {boolean}
*/
proto.org.phenopackets.schema.v1.Family.prototype.hasPedigree = function() {
return jspb.Message.getField(this, 4) != null;
};
/**
* repeated core.HtsFile hts_files = 5;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>}
*/
proto.org.phenopackets.schema.v1.Family.prototype.getHtsFilesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.HtsFile, 5));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>} value
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.setHtsFilesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 5, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.HtsFile=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.HtsFile}
*/
proto.org.phenopackets.schema.v1.Family.prototype.addHtsFiles = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 5, opt_value, proto.org.phenopackets.schema.v1.core.HtsFile, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.clearHtsFilesList = function() {
return this.setHtsFilesList([]);
};
/**
* optional core.MetaData meta_data = 6;
* @return {?proto.org.phenopackets.schema.v1.core.MetaData}
*/
proto.org.phenopackets.schema.v1.Family.prototype.getMetaData = function() {
return /** @type{?proto.org.phenopackets.schema.v1.core.MetaData} */ (
jspb.Message.getWrapperField(this, phenopackets_schema_v1_base_pb.MetaData, 6));
};
/**
* @param {?proto.org.phenopackets.schema.v1.core.MetaData|undefined} value
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.setMetaData = function(value) {
return jspb.Message.setWrapperField(this, 6, value);
};
/**
* Clears the message field making it undefined.
* @return {!proto.org.phenopackets.schema.v1.Family} returns this
*/
proto.org.phenopackets.schema.v1.Family.prototype.clearMetaData = function() {
return this.setMetaData(undefined);
};
/**
* Returns whether this field is set.
* @return {boolean}
*/
proto.org.phenopackets.schema.v1.Family.prototype.hasMetaData = function() {
return jspb.Message.getField(this, 6) != null;
};
/**
* List of repeated fields within this message type.
* @private {!Array<number>}
* @const
*/
proto.org.phenopackets.schema.v1.Cohort.repeatedFields_ = [3,4];
if (jspb.Message.GENERATE_TO_OBJECT) {
/**
* Creates an object representation of this proto.
* Field names that are reserved in JavaScript and will be renamed to pb_name.
* Optional fields that are not set will be set to undefined.
* To access a reserved field use, foo.pb_<name>, eg, foo.pb_default.
* For the list of reserved names please see:
* net/proto2/compiler/js/internal/generator.cc#kKeyword.
* @param {boolean=} opt_includeInstance Deprecated. whether to include the
* JSPB instance for transitional soy proto support:
* http://goto/soy-param-migration
* @return {!Object}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.toObject = function(opt_includeInstance) {
return proto.org.phenopackets.schema.v1.Cohort.toObject(opt_includeInstance, this);
};
/**
* Static version of the {@see toObject} method.
* @param {boolean|undefined} includeInstance Deprecated. Whether to include
* the JSPB instance for transitional soy proto support:
* http://goto/soy-param-migration
* @param {!proto.org.phenopackets.schema.v1.Cohort} msg The msg instance to transform.
* @return {!Object}
* @suppress {unusedLocalVariables} f is only used for nested messages
*/
proto.org.phenopackets.schema.v1.Cohort.toObject = function(includeInstance, msg) {
var f, obj = {
id: jspb.Message.getFieldWithDefault(msg, 1, ""),
description: jspb.Message.getFieldWithDefault(msg, 2, ""),
membersList: jspb.Message.toObjectList(msg.getMembersList(),
proto.org.phenopackets.schema.v1.Phenopacket.toObject, includeInstance),
htsFilesList: jspb.Message.toObjectList(msg.getHtsFilesList(),
phenopackets_schema_v1_base_pb.HtsFile.toObject, includeInstance),
metaData: (f = msg.getMetaData()) && phenopackets_schema_v1_base_pb.MetaData.toObject(includeInstance, f)
};
if (includeInstance) {
obj.$jspbMessageInstance = msg;
}
return obj;
};
}
/**
* Deserializes binary data (in protobuf wire format).
* @param {jspb.ByteSource} bytes The bytes to deserialize.
* @return {!proto.org.phenopackets.schema.v1.Cohort}
*/
proto.org.phenopackets.schema.v1.Cohort.deserializeBinary = function(bytes) {
var reader = new jspb.BinaryReader(bytes);
var msg = new proto.org.phenopackets.schema.v1.Cohort;
return proto.org.phenopackets.schema.v1.Cohort.deserializeBinaryFromReader(msg, reader);
};
/**
* Deserializes binary data (in protobuf wire format) from the
* given reader into the given message object.
* @param {!proto.org.phenopackets.schema.v1.Cohort} msg The message object to deserialize into.
* @param {!jspb.BinaryReader} reader The BinaryReader to use.
* @return {!proto.org.phenopackets.schema.v1.Cohort}
*/
proto.org.phenopackets.schema.v1.Cohort.deserializeBinaryFromReader = function(msg, reader) {
while (reader.nextField()) {
if (reader.isEndGroup()) {
break;
}
var field = reader.getFieldNumber();
switch (field) {
case 1:
var value = /** @type {string} */ (reader.readString());
msg.setId(value);
break;
case 2:
var value = /** @type {string} */ (reader.readString());
msg.setDescription(value);
break;
case 3:
var value = new proto.org.phenopackets.schema.v1.Phenopacket;
reader.readMessage(value,proto.org.phenopackets.schema.v1.Phenopacket.deserializeBinaryFromReader);
msg.addMembers(value);
break;
case 4:
var value = new phenopackets_schema_v1_base_pb.HtsFile;
reader.readMessage(value,phenopackets_schema_v1_base_pb.HtsFile.deserializeBinaryFromReader);
msg.addHtsFiles(value);
break;
case 5:
var value = new phenopackets_schema_v1_base_pb.MetaData;
reader.readMessage(value,phenopackets_schema_v1_base_pb.MetaData.deserializeBinaryFromReader);
msg.setMetaData(value);
break;
default:
reader.skipField();
break;
}
}
return msg;
};
/**
* Serializes the message to binary data (in protobuf wire format).
* @return {!Uint8Array}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.serializeBinary = function() {
var writer = new jspb.BinaryWriter();
proto.org.phenopackets.schema.v1.Cohort.serializeBinaryToWriter(this, writer);
return writer.getResultBuffer();
};
/**
* Serializes the given message to binary data (in protobuf wire
* format), writing to the given BinaryWriter.
* @param {!proto.org.phenopackets.schema.v1.Cohort} message
* @param {!jspb.BinaryWriter} writer
* @suppress {unusedLocalVariables} f is only used for nested messages
*/
proto.org.phenopackets.schema.v1.Cohort.serializeBinaryToWriter = function(message, writer) {
var f = undefined;
f = message.getId();
if (f.length > 0) {
writer.writeString(
1,
f
);
}
f = message.getDescription();
if (f.length > 0) {
writer.writeString(
2,
f
);
}
f = message.getMembersList();
if (f.length > 0) {
writer.writeRepeatedMessage(
3,
f,
proto.org.phenopackets.schema.v1.Phenopacket.serializeBinaryToWriter
);
}
f = message.getHtsFilesList();
if (f.length > 0) {
writer.writeRepeatedMessage(
4,
f,
phenopackets_schema_v1_base_pb.HtsFile.serializeBinaryToWriter
);
}
f = message.getMetaData();
if (f != null) {
writer.writeMessage(
5,
f,
phenopackets_schema_v1_base_pb.MetaData.serializeBinaryToWriter
);
}
};
/**
* optional string id = 1;
* @return {string}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.getId = function() {
return /** @type {string} */ (jspb.Message.getFieldWithDefault(this, 1, ""));
};
/**
* @param {string} value
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.setId = function(value) {
return jspb.Message.setProto3StringField(this, 1, value);
};
/**
* optional string description = 2;
* @return {string}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.getDescription = function() {
return /** @type {string} */ (jspb.Message.getFieldWithDefault(this, 2, ""));
};
/**
* @param {string} value
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.setDescription = function(value) {
return jspb.Message.setProto3StringField(this, 2, value);
};
/**
* repeated Phenopacket members = 3;
* @return {!Array<!proto.org.phenopackets.schema.v1.Phenopacket>}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.getMembersList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.Phenopacket>} */ (
jspb.Message.getRepeatedWrapperField(this, proto.org.phenopackets.schema.v1.Phenopacket, 3));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.Phenopacket>} value
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.setMembersList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 3, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.Phenopacket=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.Phenopacket}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.addMembers = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 3, opt_value, proto.org.phenopackets.schema.v1.Phenopacket, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.clearMembersList = function() {
return this.setMembersList([]);
};
/**
* repeated core.HtsFile hts_files = 4;
* @return {!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.getHtsFilesList = function() {
return /** @type{!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>} */ (
jspb.Message.getRepeatedWrapperField(this, phenopackets_schema_v1_base_pb.HtsFile, 4));
};
/**
* @param {!Array<!proto.org.phenopackets.schema.v1.core.HtsFile>} value
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.setHtsFilesList = function(value) {
return jspb.Message.setRepeatedWrapperField(this, 4, value);
};
/**
* @param {!proto.org.phenopackets.schema.v1.core.HtsFile=} opt_value
* @param {number=} opt_index
* @return {!proto.org.phenopackets.schema.v1.core.HtsFile}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.addHtsFiles = function(opt_value, opt_index) {
return jspb.Message.addToRepeatedWrapperField(this, 4, opt_value, proto.org.phenopackets.schema.v1.core.HtsFile, opt_index);
};
/**
* Clears the list making it empty but non-null.
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.clearHtsFilesList = function() {
return this.setHtsFilesList([]);
};
/**
* optional core.MetaData meta_data = 5;
* @return {?proto.org.phenopackets.schema.v1.core.MetaData}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.getMetaData = function() {
return /** @type{?proto.org.phenopackets.schema.v1.core.MetaData} */ (
jspb.Message.getWrapperField(this, phenopackets_schema_v1_base_pb.MetaData, 5));
};
/**
* @param {?proto.org.phenopackets.schema.v1.core.MetaData|undefined} value
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.setMetaData = function(value) {
return jspb.Message.setWrapperField(this, 5, value);
};
/**
* Clears the message field making it undefined.
* @return {!proto.org.phenopackets.schema.v1.Cohort} returns this
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.clearMetaData = function() {
return this.setMetaData(undefined);
};
/**
* Returns whether this field is set.
* @return {boolean}
*/
proto.org.phenopackets.schema.v1.Cohort.prototype.hasMetaData = function() {
return jspb.Message.getField(this, 5) != null;
};
goog.object.extend(exports, proto.org.phenopackets.schema.v1);