Package org.monarchinitiative.exomiser.core.proto

Class AlleleProto.ClinVar

java.lang.Object

com.google.protobuf.AbstractMessageLite

com.google.protobuf.AbstractMessage

com.google.protobuf.GeneratedMessageV3

org.monarchinitiative.exomiser.core.proto.AlleleProto.ClinVar

All Implemented Interfaces:

com.google.protobuf.Message, com.google.protobuf.MessageLite, com.google.protobuf.MessageLiteOrBuilder, com.google.protobuf.MessageOrBuilder, Serializable, AlleleProto.ClinVarOrBuilder

Enclosing class:

AlleleProto

public static final class AlleleProto.ClinVar
extends com.google.protobuf.GeneratedMessageV3
implements AlleleProto.ClinVarOrBuilder

Protobuf type ClinVar

See Also:

• Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static final class	AlleleProto.ClinVar.Builder	Protobuf type ClinVar
static enum	AlleleProto.ClinVar.ClinSig	Protobuf enum ClinVar.ClinSig

Nested classes/interfaces inherited from class com.google.protobuf.GeneratedMessageV3

com.google.protobuf.GeneratedMessageV3.BuilderParent, com.google.protobuf.GeneratedMessageV3.ExtendableBuilder<MessageType extends com.google.protobuf.GeneratedMessageV3.ExtendableMessage,BuilderType extends com.google.protobuf.GeneratedMessageV3.ExtendableBuilder<MessageType,BuilderType>>, com.google.protobuf.GeneratedMessageV3.ExtendableMessage<MessageType extends com.google.protobuf.GeneratedMessageV3.ExtendableMessage>, com.google.protobuf.GeneratedMessageV3.ExtendableMessageOrBuilder<MessageType extends com.google.protobuf.GeneratedMessageV3.ExtendableMessage>, com.google.protobuf.GeneratedMessageV3.FieldAccessorTable, com.google.protobuf.GeneratedMessageV3.UnusedPrivateParameter

Nested classes/interfaces inherited from class com.google.protobuf.AbstractMessageLite

com.google.protobuf.AbstractMessageLite.InternalOneOfEnum

Field Summary

Fields

Modifier and Type	Field	Description
static final int	ALLELEID_FIELD_NUMBER
static final int	INCLUDEDALLELES_FIELD_NUMBER
static final int	PRIMARYINTERPRETATION_FIELD_NUMBER
static final int	REVIEWSTATUS_FIELD_NUMBER
static final int	SECONDARYINTERPRETATIONS_FIELD_NUMBER

Fields inherited from class com.google.protobuf.GeneratedMessageV3

alwaysUseFieldBuilders, unknownFields

Fields inherited from class com.google.protobuf.AbstractMessage

memoizedSize

Fields inherited from class com.google.protobuf.AbstractMessageLite

memoizedHashCode

Method Summary

Modifier and Type	Method	Description
boolean	containsIncludedAlleles(String key)	map<string, .ClinVar.ClinSig> includedAlleles = 5;
boolean	equals(Object obj)
String	getAlleleId()	string alleleId = 1;
com.google.protobuf.ByteString	getAlleleIdBytes()	string alleleId = 1;
static AlleleProto.ClinVar	getDefaultInstance()
AlleleProto.ClinVar	getDefaultInstanceForType()
static final com.google.protobuf.Descriptors.Descriptor	getDescriptor()
Map<String,AlleleProto.ClinVar.ClinSig>	getIncludedAlleles()	Deprecated.
int	getIncludedAllelesCount()	map<string, .ClinVar.ClinSig> includedAlleles = 5;
Map<String,AlleleProto.ClinVar.ClinSig>	getIncludedAllelesMap()	map<string, .ClinVar.ClinSig> includedAlleles = 5;
AlleleProto.ClinVar.ClinSig	getIncludedAllelesOrDefault(String key, AlleleProto.ClinVar.ClinSig defaultValue)	map<string, .ClinVar.ClinSig> includedAlleles = 5;
AlleleProto.ClinVar.ClinSig	getIncludedAllelesOrThrow(String key)	map<string, .ClinVar.ClinSig> includedAlleles = 5;
Map<String,Integer>	getIncludedAllelesValue()	Deprecated.
Map<String,Integer>	getIncludedAllelesValueMap()	map<string, .ClinVar.ClinSig> includedAlleles = 5;
int	getIncludedAllelesValueOrDefault(String key, int defaultValue)	map<string, .ClinVar.ClinSig> includedAlleles = 5;
int	getIncludedAllelesValueOrThrow(String key)	map<string, .ClinVar.ClinSig> includedAlleles = 5;
com.google.protobuf.Parser<AlleleProto.ClinVar>	getParserForType()
AlleleProto.ClinVar.ClinSig	getPrimaryInterpretation()	.ClinVar.ClinSig primaryInterpretation = 2;
int	getPrimaryInterpretationValue()	.ClinVar.ClinSig primaryInterpretation = 2;
String	getReviewStatus()	string reviewStatus = 4;
com.google.protobuf.ByteString	getReviewStatusBytes()	string reviewStatus = 4;
AlleleProto.ClinVar.ClinSig	getSecondaryInterpretations(int index)	repeated .ClinVar.ClinSig secondaryInterpretations = 3;
int	getSecondaryInterpretationsCount()	repeated .ClinVar.ClinSig secondaryInterpretations = 3;
List<AlleleProto.ClinVar.ClinSig>	getSecondaryInterpretationsList()	repeated .ClinVar.ClinSig secondaryInterpretations = 3;
int	getSecondaryInterpretationsValue(int index)	repeated .ClinVar.ClinSig secondaryInterpretations = 3;
List<Integer>	getSecondaryInterpretationsValueList()	repeated .ClinVar.ClinSig secondaryInterpretations = 3;
int	getSerializedSize()
final com.google.protobuf.UnknownFieldSet	getUnknownFields()
int	hashCode()
protected com.google.protobuf.GeneratedMessageV3.FieldAccessorTable	internalGetFieldAccessorTable()
protected com.google.protobuf.MapField	internalGetMapField(int number)
final boolean	isInitialized()
static AlleleProto.ClinVar.Builder	newBuilder()
static AlleleProto.ClinVar.Builder	newBuilder(AlleleProto.ClinVar prototype)
AlleleProto.ClinVar.Builder	newBuilderForType()
protected AlleleProto.ClinVar.Builder	newBuilderForType(com.google.protobuf.GeneratedMessageV3.BuilderParent parent)
protected Object	newInstance(com.google.protobuf.GeneratedMessageV3.UnusedPrivateParameter unused)
static AlleleProto.ClinVar	parseDelimitedFrom(InputStream input)
static AlleleProto.ClinVar	parseDelimitedFrom(InputStream input, com.google.protobuf.ExtensionRegistryLite extensionRegistry)
static AlleleProto.ClinVar	parseFrom(byte[] data)
static AlleleProto.ClinVar	parseFrom(byte[] data, com.google.protobuf.ExtensionRegistryLite extensionRegistry)
static AlleleProto.ClinVar	parseFrom(com.google.protobuf.ByteString data)
static AlleleProto.ClinVar	parseFrom(com.google.protobuf.ByteString data, com.google.protobuf.ExtensionRegistryLite extensionRegistry)
static AlleleProto.ClinVar	parseFrom(com.google.protobuf.CodedInputStream input)
static AlleleProto.ClinVar	parseFrom(com.google.protobuf.CodedInputStream input, com.google.protobuf.ExtensionRegistryLite extensionRegistry)
static AlleleProto.ClinVar	parseFrom(InputStream input)
static AlleleProto.ClinVar	parseFrom(InputStream input, com.google.protobuf.ExtensionRegistryLite extensionRegistry)
static AlleleProto.ClinVar	parseFrom(ByteBuffer data)
static AlleleProto.ClinVar	parseFrom(ByteBuffer data, com.google.protobuf.ExtensionRegistryLite extensionRegistry)
static com.google.protobuf.Parser<AlleleProto.ClinVar>	parser()
AlleleProto.ClinVar.Builder	toBuilder()
void	writeTo(com.google.protobuf.CodedOutputStream output)

Methods inherited from class com.google.protobuf.GeneratedMessageV3

canUseUnsafe, computeStringSize, computeStringSizeNoTag, emptyBooleanList, emptyDoubleList, emptyFloatList, emptyIntList, emptyLongList, getAllFields, getDescriptorForType, getField, getOneofFieldDescriptor, getRepeatedField, getRepeatedFieldCount, hasField, hasOneof, isStringEmpty, makeExtensionsImmutable, mergeFromAndMakeImmutableInternal, mutableCopy, mutableCopy, mutableCopy, mutableCopy, mutableCopy, newBooleanList, newBuilderForType, newDoubleList, newFloatList, newIntList, newLongList, parseDelimitedWithIOException, parseDelimitedWithIOException, parseUnknownField, parseUnknownFieldProto3, parseWithIOException, parseWithIOException, parseWithIOException, parseWithIOException, serializeBooleanMapTo, serializeIntegerMapTo, serializeLongMapTo, serializeStringMapTo, writeReplace, writeString, writeStringNoTag

Methods inherited from class com.google.protobuf.AbstractMessage

findInitializationErrors, getInitializationErrorString, hashBoolean, hashEnum, hashEnumList, hashFields, hashLong, toString

Methods inherited from class com.google.protobuf.AbstractMessageLite

addAll, addAll, checkByteStringIsUtf8, toByteArray, toByteString, writeDelimitedTo, writeTo

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface com.google.protobuf.MessageLite

toByteArray, toByteString, writeDelimitedTo, writeTo

Methods inherited from interface com.google.protobuf.MessageOrBuilder

findInitializationErrors, getAllFields, getDescriptorForType, getField, getInitializationErrorString, getOneofFieldDescriptor, getRepeatedField, getRepeatedFieldCount, hasField, hasOneof

Field Details

ALLELEID_FIELD_NUMBER

public static final int ALLELEID_FIELD_NUMBER

See Also:

• Constant Field Values

PRIMARYINTERPRETATION_FIELD_NUMBER

public static final int PRIMARYINTERPRETATION_FIELD_NUMBER

See Also:

• Constant Field Values

SECONDARYINTERPRETATIONS_FIELD_NUMBER

public static final int SECONDARYINTERPRETATIONS_FIELD_NUMBER

See Also:

• Constant Field Values

REVIEWSTATUS_FIELD_NUMBER

public static final int REVIEWSTATUS_FIELD_NUMBER

See Also:

• Constant Field Values

INCLUDEDALLELES_FIELD_NUMBER

public static final int INCLUDEDALLELES_FIELD_NUMBER

See Also:

• Constant Field Values

Method Details

newInstance

protected Object newInstance(com.google.protobuf.GeneratedMessageV3.UnusedPrivateParameter unused)

Overrides:

newInstance in class com.google.protobuf.GeneratedMessageV3

getUnknownFields

public final com.google.protobuf.UnknownFieldSet getUnknownFields()

Specified by:

getUnknownFields in interface com.google.protobuf.MessageOrBuilder

Overrides:

getUnknownFields in class com.google.protobuf.GeneratedMessageV3

getDescriptor

public static final com.google.protobuf.Descriptors.Descriptor getDescriptor()

internalGetMapField

protected com.google.protobuf.MapField internalGetMapField(int number)

Overrides:

internalGetMapField in class com.google.protobuf.GeneratedMessageV3

internalGetFieldAccessorTable

protected com.google.protobuf.GeneratedMessageV3.FieldAccessorTable internalGetFieldAccessorTable()

Specified by:

internalGetFieldAccessorTable in class com.google.protobuf.GeneratedMessageV3

getAlleleId

public String getAlleleId()

string alleleId = 1;

Specified by:

getAlleleId in interface AlleleProto.ClinVarOrBuilder

Returns:

The alleleId.

getAlleleIdBytes

public com.google.protobuf.ByteString getAlleleIdBytes()

string alleleId = 1;

Specified by:

getAlleleIdBytes in interface AlleleProto.ClinVarOrBuilder

Returns:

The bytes for alleleId.

getPrimaryInterpretationValue

public int getPrimaryInterpretationValue()

.ClinVar.ClinSig primaryInterpretation = 2;

Specified by:

getPrimaryInterpretationValue in interface AlleleProto.ClinVarOrBuilder

Returns:

The enum numeric value on the wire for primaryInterpretation.

getPrimaryInterpretation

public AlleleProto.ClinVar.ClinSig getPrimaryInterpretation()

.ClinVar.ClinSig primaryInterpretation = 2;

Specified by:

getPrimaryInterpretation in interface AlleleProto.ClinVarOrBuilder

Returns:

The primaryInterpretation.

getSecondaryInterpretationsList

public List<AlleleProto.ClinVar.ClinSig> getSecondaryInterpretationsList()

repeated .ClinVar.ClinSig secondaryInterpretations = 3;

Specified by:

getSecondaryInterpretationsList in interface AlleleProto.ClinVarOrBuilder

Returns:

A list containing the secondaryInterpretations.

getSecondaryInterpretationsCount

public int getSecondaryInterpretationsCount()

repeated .ClinVar.ClinSig secondaryInterpretations = 3;

Specified by:

getSecondaryInterpretationsCount in interface AlleleProto.ClinVarOrBuilder

Returns:

The count of secondaryInterpretations.

getSecondaryInterpretations

public AlleleProto.ClinVar.ClinSig getSecondaryInterpretations(int index)

repeated .ClinVar.ClinSig secondaryInterpretations = 3;

Specified by:

getSecondaryInterpretations in interface AlleleProto.ClinVarOrBuilder

Parameters:

index - The index of the element to return.

Returns:

The secondaryInterpretations at the given index.

getSecondaryInterpretationsValueList

public List<Integer> getSecondaryInterpretationsValueList()

repeated .ClinVar.ClinSig secondaryInterpretations = 3;

Specified by:

getSecondaryInterpretationsValueList in interface AlleleProto.ClinVarOrBuilder

Returns:

A list containing the enum numeric values on the wire for secondaryInterpretations.

getSecondaryInterpretationsValue

public int getSecondaryInterpretationsValue(int index)

repeated .ClinVar.ClinSig secondaryInterpretations = 3;

Specified by:

getSecondaryInterpretationsValue in interface AlleleProto.ClinVarOrBuilder

Parameters:

index - The index of the value to return.

Returns:

The enum numeric value on the wire of secondaryInterpretations at the given index.

getReviewStatus

public String getReviewStatus()

string reviewStatus = 4;

Specified by:

getReviewStatus in interface AlleleProto.ClinVarOrBuilder

Returns:

The reviewStatus.

getReviewStatusBytes

public com.google.protobuf.ByteString getReviewStatusBytes()

string reviewStatus = 4;

Specified by:

getReviewStatusBytes in interface AlleleProto.ClinVarOrBuilder

Returns:

The bytes for reviewStatus.

getIncludedAllelesCount

public int getIncludedAllelesCount()

Description copied from interface: AlleleProto.ClinVarOrBuilder

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesCount in interface AlleleProto.ClinVarOrBuilder

containsIncludedAlleles

public boolean containsIncludedAlleles(String key)

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

containsIncludedAlleles in interface AlleleProto.ClinVarOrBuilder

getIncludedAlleles

@Deprecated
public Map<String,AlleleProto.ClinVar.ClinSig> getIncludedAlleles()

Deprecated.

Use getIncludedAllelesMap() instead.

Specified by:

getIncludedAlleles in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesMap

public Map<String,AlleleProto.ClinVar.ClinSig> getIncludedAllelesMap()

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesMap in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesOrDefault

public AlleleProto.ClinVar.ClinSig getIncludedAllelesOrDefault(String key,
 AlleleProto.ClinVar.ClinSig defaultValue)

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesOrDefault in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesOrThrow

public AlleleProto.ClinVar.ClinSig getIncludedAllelesOrThrow(String key)

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesOrThrow in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesValue

@Deprecated
public Map<String,Integer> getIncludedAllelesValue()

Deprecated.

Use getIncludedAllelesValueMap() instead.

Specified by:

getIncludedAllelesValue in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesValueMap

public Map<String,Integer> getIncludedAllelesValueMap()

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesValueMap in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesValueOrDefault

public int getIncludedAllelesValueOrDefault(String key,
 int defaultValue)

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesValueOrDefault in interface AlleleProto.ClinVarOrBuilder

getIncludedAllelesValueOrThrow

public int getIncludedAllelesValueOrThrow(String key)

map<string, .ClinVar.ClinSig> includedAlleles = 5;

Specified by:

getIncludedAllelesValueOrThrow in interface AlleleProto.ClinVarOrBuilder

isInitialized

public final boolean isInitialized()

Specified by:

isInitialized in interface com.google.protobuf.MessageLiteOrBuilder

Overrides:

isInitialized in class com.google.protobuf.GeneratedMessageV3

writeTo

public void writeTo(com.google.protobuf.CodedOutputStream output)
             throws IOException

Specified by:

writeTo in interface com.google.protobuf.MessageLite

Overrides:

writeTo in class com.google.protobuf.GeneratedMessageV3

Throws:

IOException

getSerializedSize

public int getSerializedSize()

Specified by:

getSerializedSize in interface com.google.protobuf.MessageLite

Overrides:

getSerializedSize in class com.google.protobuf.GeneratedMessageV3

equals

public boolean equals(Object obj)

Specified by:

equals in interface com.google.protobuf.Message

Overrides:

equals in class com.google.protobuf.AbstractMessage

hashCode

public int hashCode()

Specified by:

hashCode in interface com.google.protobuf.Message

Overrides:

hashCode in class com.google.protobuf.AbstractMessage

parseFrom

public static AlleleProto.ClinVar parseFrom(ByteBuffer data)
                                     throws com.google.protobuf.InvalidProtocolBufferException

Throws:

com.google.protobuf.InvalidProtocolBufferException

parseFrom

public static AlleleProto.ClinVar parseFrom(ByteBuffer data,
 com.google.protobuf.ExtensionRegistryLite extensionRegistry)
                                     throws com.google.protobuf.InvalidProtocolBufferException

Throws:

com.google.protobuf.InvalidProtocolBufferException

parseFrom

public static AlleleProto.ClinVar parseFrom(com.google.protobuf.ByteString data)
                                     throws com.google.protobuf.InvalidProtocolBufferException

Throws:

com.google.protobuf.InvalidProtocolBufferException

parseFrom

public static AlleleProto.ClinVar parseFrom(com.google.protobuf.ByteString data,
 com.google.protobuf.ExtensionRegistryLite extensionRegistry)
                                     throws com.google.protobuf.InvalidProtocolBufferException

Throws:

com.google.protobuf.InvalidProtocolBufferException

parseFrom

public static AlleleProto.ClinVar parseFrom(byte[] data)
                                     throws com.google.protobuf.InvalidProtocolBufferException

Throws:

com.google.protobuf.InvalidProtocolBufferException

parseFrom

public static AlleleProto.ClinVar parseFrom(byte[] data,
 com.google.protobuf.ExtensionRegistryLite extensionRegistry)
                                     throws com.google.protobuf.InvalidProtocolBufferException

Throws:

com.google.protobuf.InvalidProtocolBufferException

parseFrom

public static AlleleProto.ClinVar parseFrom(InputStream input)
                                     throws IOException

Throws:

IOException

parseFrom

public static AlleleProto.ClinVar parseFrom(InputStream input,
 com.google.protobuf.ExtensionRegistryLite extensionRegistry)
                                     throws IOException

Throws:

IOException

parseDelimitedFrom

public static AlleleProto.ClinVar parseDelimitedFrom(InputStream input)
                                              throws IOException

Throws:

IOException

parseDelimitedFrom

public static AlleleProto.ClinVar parseDelimitedFrom(InputStream input,
 com.google.protobuf.ExtensionRegistryLite extensionRegistry)
                                              throws IOException

Throws:

IOException

parseFrom

public static AlleleProto.ClinVar parseFrom(com.google.protobuf.CodedInputStream input)
                                     throws IOException

Throws:

IOException

parseFrom

public static AlleleProto.ClinVar parseFrom(com.google.protobuf.CodedInputStream input,
 com.google.protobuf.ExtensionRegistryLite extensionRegistry)
                                     throws IOException

Throws:

IOException

newBuilderForType

public AlleleProto.ClinVar.Builder newBuilderForType()

Specified by:

newBuilderForType in interface com.google.protobuf.Message

Specified by:

newBuilderForType in interface com.google.protobuf.MessageLite

newBuilder

public static AlleleProto.ClinVar.Builder newBuilder()

newBuilder

public static AlleleProto.ClinVar.Builder newBuilder(AlleleProto.ClinVar prototype)

toBuilder

public AlleleProto.ClinVar.Builder toBuilder()

Specified by:

toBuilder in interface com.google.protobuf.Message

Specified by:

toBuilder in interface com.google.protobuf.MessageLite

newBuilderForType

protected AlleleProto.ClinVar.Builder newBuilderForType(com.google.protobuf.GeneratedMessageV3.BuilderParent parent)

Specified by:

newBuilderForType in class com.google.protobuf.GeneratedMessageV3

getDefaultInstance

public static AlleleProto.ClinVar getDefaultInstance()

parser

public static com.google.protobuf.Parser<AlleleProto.ClinVar> parser()

getParserForType

public com.google.protobuf.Parser<AlleleProto.ClinVar> getParserForType()

Specified by:

getParserForType in interface com.google.protobuf.Message

Specified by:

getParserForType in interface com.google.protobuf.MessageLite

Overrides:

getParserForType in class com.google.protobuf.GeneratedMessageV3

getDefaultInstanceForType

public AlleleProto.ClinVar getDefaultInstanceForType()

Specified by:

getDefaultInstanceForType in interface com.google.protobuf.MessageLiteOrBuilder

Specified by:

getDefaultInstanceForType in interface com.google.protobuf.MessageOrBuilder