org.opencb.biodata.models.variant.protobuf.VcfSliceProtos Maven / Gradle / Ivy
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// Generated by the protocol buffer compiler. DO NOT EDIT!
// source: protobuf/opencb/vcf_record.proto
package org.opencb.biodata.models.variant.protobuf;
public final class VcfSliceProtos {
private VcfSliceProtos() {}
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSampleOrBuilder {
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*
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filterIndex_ = 0;
onChanged();
return this;
}
private com.google.protobuf.LazyStringList idNonDefault_ = com.google.protobuf.LazyStringArrayList.EMPTY;
private void ensureIdNonDefaultIsMutable() {
if (!((bitField0_ & 0x00000001) != 0)) {
idNonDefault_ = new com.google.protobuf.LazyStringArrayList(idNonDefault_);
bitField0_ |= 0x00000001;
}
}
/**
* repeated string id_non_default = 7;
* @return A list containing the idNonDefault.
*/
public com.google.protobuf.ProtocolStringList
getIdNonDefaultList() {
return idNonDefault_.getUnmodifiableView();
}
/**
* repeated string id_non_default = 7;
* @return The count of idNonDefault.
*/
public int getIdNonDefaultCount() {
return idNonDefault_.size();
}
/**
* repeated string id_non_default = 7;
* @param index The index of the element to return.
* @return The idNonDefault at the given index.
*/
public java.lang.String getIdNonDefault(int index) {
return idNonDefault_.get(index);
}
/**
* repeated string id_non_default = 7;
* @param index The index of the value to return.
* @return The bytes of the idNonDefault at the given index.
*/
public com.google.protobuf.ByteString
getIdNonDefaultBytes(int index) {
return idNonDefault_.getByteString(index);
}
/**
* repeated string id_non_default = 7;
* @param index The index to set the value at.
* @param value The idNonDefault to set.
* @return This builder for chaining.
*/
public Builder setIdNonDefault(
int index, java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureIdNonDefaultIsMutable();
idNonDefault_.set(index, value);
onChanged();
return this;
}
/**
* repeated string id_non_default = 7;
* @param value The idNonDefault to add.
* @return This builder for chaining.
*/
public Builder addIdNonDefault(
java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureIdNonDefaultIsMutable();
idNonDefault_.add(value);
onChanged();
return this;
}
/**
* repeated string id_non_default = 7;
* @param values The idNonDefault to add.
* @return This builder for chaining.
*/
public Builder addAllIdNonDefault(
java.lang.Iterable values) {
ensureIdNonDefaultIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, idNonDefault_);
onChanged();
return this;
}
/**
* repeated string id_non_default = 7;
* @return This builder for chaining.
*/
public Builder clearIdNonDefault() {
idNonDefault_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000001);
onChanged();
return this;
}
/**
* repeated string id_non_default = 7;
* @param value The bytes of the idNonDefault to add.
* @return This builder for chaining.
*/
public Builder addIdNonDefaultBytes(
com.google.protobuf.ByteString value) {
if (value == null) {
throw new NullPointerException();
}
checkByteStringIsUtf8(value);
ensureIdNonDefaultIsMutable();
idNonDefault_.add(value);
onChanged();
return this;
}
private com.google.protobuf.Internal.IntList infoKeyIndex_ = emptyIntList();
private void ensureInfoKeyIndexIsMutable() {
if (!((bitField0_ & 0x00000002) != 0)) {
infoKeyIndex_ = mutableCopy(infoKeyIndex_);
bitField0_ |= 0x00000002;
}
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @return A list containing the infoKeyIndex.
*/
public java.util.List
getInfoKeyIndexList() {
return ((bitField0_ & 0x00000002) != 0) ?
java.util.Collections.unmodifiableList(infoKeyIndex_) : infoKeyIndex_;
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @return The count of infoKeyIndex.
*/
public int getInfoKeyIndexCount() {
return infoKeyIndex_.size();
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @param index The index of the element to return.
* @return The infoKeyIndex at the given index.
*/
public int getInfoKeyIndex(int index) {
return infoKeyIndex_.getInt(index);
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @param index The index to set the value at.
* @param value The infoKeyIndex to set.
* @return This builder for chaining.
*/
public Builder setInfoKeyIndex(
int index, int value) {
ensureInfoKeyIndexIsMutable();
infoKeyIndex_.setInt(index, value);
onChanged();
return this;
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @param value The infoKeyIndex to add.
* @return This builder for chaining.
*/
public Builder addInfoKeyIndex(int value) {
ensureInfoKeyIndexIsMutable();
infoKeyIndex_.addInt(value);
onChanged();
return this;
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @param values The infoKeyIndex to add.
* @return This builder for chaining.
*/
public Builder addAllInfoKeyIndex(
java.lang.Iterable values) {
ensureInfoKeyIndexIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, infoKeyIndex_);
onChanged();
return this;
}
/**
* repeated uint32 info_key_index = 8 [packed = true];
* @return This builder for chaining.
*/
public Builder clearInfoKeyIndex() {
infoKeyIndex_ = emptyIntList();
bitField0_ = (bitField0_ & ~0x00000002);
onChanged();
return this;
}
private com.google.protobuf.LazyStringList infoValue_ = com.google.protobuf.LazyStringArrayList.EMPTY;
private void ensureInfoValueIsMutable() {
if (!((bitField0_ & 0x00000004) != 0)) {
infoValue_ = new com.google.protobuf.LazyStringArrayList(infoValue_);
bitField0_ |= 0x00000004;
}
}
/**
* repeated string info_value = 9;
* @return A list containing the infoValue.
*/
public com.google.protobuf.ProtocolStringList
getInfoValueList() {
return infoValue_.getUnmodifiableView();
}
/**
* repeated string info_value = 9;
* @return The count of infoValue.
*/
public int getInfoValueCount() {
return infoValue_.size();
}
/**
* repeated string info_value = 9;
* @param index The index of the element to return.
* @return The infoValue at the given index.
*/
public java.lang.String getInfoValue(int index) {
return infoValue_.get(index);
}
/**
* repeated string info_value = 9;
* @param index The index of the value to return.
* @return The bytes of the infoValue at the given index.
*/
public com.google.protobuf.ByteString
getInfoValueBytes(int index) {
return infoValue_.getByteString(index);
}
/**
* repeated string info_value = 9;
* @param index The index to set the value at.
* @param value The infoValue to set.
* @return This builder for chaining.
*/
public Builder setInfoValue(
int index, java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureInfoValueIsMutable();
infoValue_.set(index, value);
onChanged();
return this;
}
/**
* repeated string info_value = 9;
* @param value The infoValue to add.
* @return This builder for chaining.
*/
public Builder addInfoValue(
java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureInfoValueIsMutable();
infoValue_.add(value);
onChanged();
return this;
}
/**
* repeated string info_value = 9;
* @param values The infoValue to add.
* @return This builder for chaining.
*/
public Builder addAllInfoValue(
java.lang.Iterable values) {
ensureInfoValueIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, infoValue_);
onChanged();
return this;
}
/**
* repeated string info_value = 9;
* @return This builder for chaining.
*/
public Builder clearInfoValue() {
infoValue_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000004);
onChanged();
return this;
}
/**
* repeated string info_value = 9;
* @param value The bytes of the infoValue to add.
* @return This builder for chaining.
*/
public Builder addInfoValueBytes(
com.google.protobuf.ByteString value) {
if (value == null) {
throw new NullPointerException();
}
checkByteStringIsUtf8(value);
ensureInfoValueIsMutable();
infoValue_.add(value);
onChanged();
return this;
}
private int formatIndex_ ;
/**
* uint32 formatIndex = 10;
* @return The formatIndex.
*/
public int getFormatIndex() {
return formatIndex_;
}
/**
* uint32 formatIndex = 10;
* @param value The formatIndex to set.
* @return This builder for chaining.
*/
public Builder setFormatIndex(int value) {
formatIndex_ = value;
onChanged();
return this;
}
/**
* uint32 formatIndex = 10;
* @return This builder for chaining.
*/
public Builder clearFormatIndex() {
formatIndex_ = 0;
onChanged();
return this;
}
private java.util.List samples_ =
java.util.Collections.emptyList();
private void ensureSamplesIsMutable() {
if (!((bitField0_ & 0x00000008) != 0)) {
samples_ = new java.util.ArrayList(samples_);
bitField0_ |= 0x00000008;
}
}
private com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSampleOrBuilder> samplesBuilder_;
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public java.util.List getSamplesList() {
if (samplesBuilder_ == null) {
return java.util.Collections.unmodifiableList(samples_);
} else {
return samplesBuilder_.getMessageList();
}
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public int getSamplesCount() {
if (samplesBuilder_ == null) {
return samples_.size();
} else {
return samplesBuilder_.getCount();
}
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample getSamples(int index) {
if (samplesBuilder_ == null) {
return samples_.get(index);
} else {
return samplesBuilder_.getMessage(index);
}
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder setSamples(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample value) {
if (samplesBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureSamplesIsMutable();
samples_.set(index, value);
onChanged();
} else {
samplesBuilder_.setMessage(index, value);
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder setSamples(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder builderForValue) {
if (samplesBuilder_ == null) {
ensureSamplesIsMutable();
samples_.set(index, builderForValue.build());
onChanged();
} else {
samplesBuilder_.setMessage(index, builderForValue.build());
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder addSamples(org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample value) {
if (samplesBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureSamplesIsMutable();
samples_.add(value);
onChanged();
} else {
samplesBuilder_.addMessage(value);
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder addSamples(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample value) {
if (samplesBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureSamplesIsMutable();
samples_.add(index, value);
onChanged();
} else {
samplesBuilder_.addMessage(index, value);
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder addSamples(
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder builderForValue) {
if (samplesBuilder_ == null) {
ensureSamplesIsMutable();
samples_.add(builderForValue.build());
onChanged();
} else {
samplesBuilder_.addMessage(builderForValue.build());
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder addSamples(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder builderForValue) {
if (samplesBuilder_ == null) {
ensureSamplesIsMutable();
samples_.add(index, builderForValue.build());
onChanged();
} else {
samplesBuilder_.addMessage(index, builderForValue.build());
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder addAllSamples(
java.lang.Iterable values) {
if (samplesBuilder_ == null) {
ensureSamplesIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, samples_);
onChanged();
} else {
samplesBuilder_.addAllMessages(values);
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder clearSamples() {
if (samplesBuilder_ == null) {
samples_ = java.util.Collections.emptyList();
bitField0_ = (bitField0_ & ~0x00000008);
onChanged();
} else {
samplesBuilder_.clear();
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public Builder removeSamples(int index) {
if (samplesBuilder_ == null) {
ensureSamplesIsMutable();
samples_.remove(index);
onChanged();
} else {
samplesBuilder_.remove(index);
}
return this;
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder getSamplesBuilder(
int index) {
return getSamplesFieldBuilder().getBuilder(index);
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSampleOrBuilder getSamplesOrBuilder(
int index) {
if (samplesBuilder_ == null) {
return samples_.get(index); } else {
return samplesBuilder_.getMessageOrBuilder(index);
}
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public java.util.List
getSamplesOrBuilderList() {
if (samplesBuilder_ != null) {
return samplesBuilder_.getMessageOrBuilderList();
} else {
return java.util.Collections.unmodifiableList(samples_);
}
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder addSamplesBuilder() {
return getSamplesFieldBuilder().addBuilder(
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.getDefaultInstance());
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder addSamplesBuilder(
int index) {
return getSamplesFieldBuilder().addBuilder(
index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.getDefaultInstance());
}
/**
* repeated .protobuf.opencb.VcfSample samples = 11;
*/
public java.util.List
getSamplesBuilderList() {
return getSamplesFieldBuilder().getBuilderList();
}
private com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSampleOrBuilder>
getSamplesFieldBuilder() {
if (samplesBuilder_ == null) {
samplesBuilder_ = new com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSample.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSampleOrBuilder>(
samples_,
((bitField0_ & 0x00000008) != 0),
getParentForChildren(),
isClean());
samples_ = null;
}
return samplesBuilder_;
}
private java.util.List secondaryAlternates_ =
java.util.Collections.emptyList();
private void ensureSecondaryAlternatesIsMutable() {
if (!((bitField0_ & 0x00000010) != 0)) {
secondaryAlternates_ = new java.util.ArrayList(secondaryAlternates_);
bitField0_ |= 0x00000010;
}
}
private com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinateOrBuilder> secondaryAlternatesBuilder_;
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public java.util.List getSecondaryAlternatesList() {
if (secondaryAlternatesBuilder_ == null) {
return java.util.Collections.unmodifiableList(secondaryAlternates_);
} else {
return secondaryAlternatesBuilder_.getMessageList();
}
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public int getSecondaryAlternatesCount() {
if (secondaryAlternatesBuilder_ == null) {
return secondaryAlternates_.size();
} else {
return secondaryAlternatesBuilder_.getCount();
}
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate getSecondaryAlternates(int index) {
if (secondaryAlternatesBuilder_ == null) {
return secondaryAlternates_.get(index);
} else {
return secondaryAlternatesBuilder_.getMessage(index);
}
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder setSecondaryAlternates(
int index, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate value) {
if (secondaryAlternatesBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.set(index, value);
onChanged();
} else {
secondaryAlternatesBuilder_.setMessage(index, value);
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder setSecondaryAlternates(
int index, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder builderForValue) {
if (secondaryAlternatesBuilder_ == null) {
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.set(index, builderForValue.build());
onChanged();
} else {
secondaryAlternatesBuilder_.setMessage(index, builderForValue.build());
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder addSecondaryAlternates(org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate value) {
if (secondaryAlternatesBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.add(value);
onChanged();
} else {
secondaryAlternatesBuilder_.addMessage(value);
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder addSecondaryAlternates(
int index, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate value) {
if (secondaryAlternatesBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.add(index, value);
onChanged();
} else {
secondaryAlternatesBuilder_.addMessage(index, value);
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder addSecondaryAlternates(
org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder builderForValue) {
if (secondaryAlternatesBuilder_ == null) {
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.add(builderForValue.build());
onChanged();
} else {
secondaryAlternatesBuilder_.addMessage(builderForValue.build());
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder addSecondaryAlternates(
int index, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder builderForValue) {
if (secondaryAlternatesBuilder_ == null) {
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.add(index, builderForValue.build());
onChanged();
} else {
secondaryAlternatesBuilder_.addMessage(index, builderForValue.build());
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder addAllSecondaryAlternates(
java.lang.Iterable values) {
if (secondaryAlternatesBuilder_ == null) {
ensureSecondaryAlternatesIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, secondaryAlternates_);
onChanged();
} else {
secondaryAlternatesBuilder_.addAllMessages(values);
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder clearSecondaryAlternates() {
if (secondaryAlternatesBuilder_ == null) {
secondaryAlternates_ = java.util.Collections.emptyList();
bitField0_ = (bitField0_ & ~0x00000010);
onChanged();
} else {
secondaryAlternatesBuilder_.clear();
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public Builder removeSecondaryAlternates(int index) {
if (secondaryAlternatesBuilder_ == null) {
ensureSecondaryAlternatesIsMutable();
secondaryAlternates_.remove(index);
onChanged();
} else {
secondaryAlternatesBuilder_.remove(index);
}
return this;
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder getSecondaryAlternatesBuilder(
int index) {
return getSecondaryAlternatesFieldBuilder().getBuilder(index);
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinateOrBuilder getSecondaryAlternatesOrBuilder(
int index) {
if (secondaryAlternatesBuilder_ == null) {
return secondaryAlternates_.get(index); } else {
return secondaryAlternatesBuilder_.getMessageOrBuilder(index);
}
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public java.util.List
getSecondaryAlternatesOrBuilderList() {
if (secondaryAlternatesBuilder_ != null) {
return secondaryAlternatesBuilder_.getMessageOrBuilderList();
} else {
return java.util.Collections.unmodifiableList(secondaryAlternates_);
}
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder addSecondaryAlternatesBuilder() {
return getSecondaryAlternatesFieldBuilder().addBuilder(
org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.getDefaultInstance());
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder addSecondaryAlternatesBuilder(
int index) {
return getSecondaryAlternatesFieldBuilder().addBuilder(
index, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.getDefaultInstance());
}
/**
* repeated .protobuf.opencb.AlternateCoordinate secondaryAlternates = 14;
*/
public java.util.List
getSecondaryAlternatesBuilderList() {
return getSecondaryAlternatesFieldBuilder().getBuilderList();
}
private com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinateOrBuilder>
getSecondaryAlternatesFieldBuilder() {
if (secondaryAlternatesBuilder_ == null) {
secondaryAlternatesBuilder_ = new com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinate.Builder, org.opencb.biodata.models.variant.protobuf.VariantProto.AlternateCoordinateOrBuilder>(
secondaryAlternates_,
((bitField0_ & 0x00000010) != 0),
getParentForChildren(),
isClean());
secondaryAlternates_ = null;
}
return secondaryAlternatesBuilder_;
}
@java.lang.Override
public final Builder setUnknownFields(
final com.google.protobuf.UnknownFieldSet unknownFields) {
return super.setUnknownFields(unknownFields);
}
@java.lang.Override
public final Builder mergeUnknownFields(
final com.google.protobuf.UnknownFieldSet unknownFields) {
return super.mergeUnknownFields(unknownFields);
}
// @@protoc_insertion_point(builder_scope:protobuf.opencb.VcfRecord)
}
// @@protoc_insertion_point(class_scope:protobuf.opencb.VcfRecord)
private static final org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord DEFAULT_INSTANCE;
static {
DEFAULT_INSTANCE = new org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord();
}
public static org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord getDefaultInstance() {
return DEFAULT_INSTANCE;
}
private static final com.google.protobuf.Parser
PARSER = new com.google.protobuf.AbstractParser() {
@java.lang.Override
public VcfRecord parsePartialFrom(
com.google.protobuf.CodedInputStream input,
com.google.protobuf.ExtensionRegistryLite extensionRegistry)
throws com.google.protobuf.InvalidProtocolBufferException {
return new VcfRecord(input, extensionRegistry);
}
};
public static com.google.protobuf.Parser parser() {
return PARSER;
}
@java.lang.Override
public com.google.protobuf.Parser getParserForType() {
return PARSER;
}
@java.lang.Override
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord getDefaultInstanceForType() {
return DEFAULT_INSTANCE;
}
}
public interface FieldsOrBuilder extends
// @@protoc_insertion_point(interface_extends:protobuf.opencb.Fields)
com.google.protobuf.MessageOrBuilder {
/**
* repeated string info_keys = 1;
* @return A list containing the infoKeys.
*/
java.util.List
getInfoKeysList();
/**
* repeated string info_keys = 1;
* @return The count of infoKeys.
*/
int getInfoKeysCount();
/**
* repeated string info_keys = 1;
* @param index The index of the element to return.
* @return The infoKeys at the given index.
*/
java.lang.String getInfoKeys(int index);
/**
* repeated string info_keys = 1;
* @param index The index of the value to return.
* @return The bytes of the infoKeys at the given index.
*/
com.google.protobuf.ByteString
getInfoKeysBytes(int index);
/**
* repeated uint32 default_info_keys = 2;
* @return A list containing the defaultInfoKeys.
*/
java.util.List getDefaultInfoKeysList();
/**
* repeated uint32 default_info_keys = 2;
* @return The count of defaultInfoKeys.
*/
int getDefaultInfoKeysCount();
/**
* repeated uint32 default_info_keys = 2;
* @param index The index of the element to return.
* @return The defaultInfoKeys at the given index.
*/
int getDefaultInfoKeys(int index);
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return A list containing the filters.
*/
java.util.List
getFiltersList();
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return The count of filters.
*/
int getFiltersCount();
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index of the element to return.
* @return The filters at the given index.
*/
java.lang.String getFilters(int index);
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index of the value to return.
* @return The bytes of the filters at the given index.
*/
com.google.protobuf.ByteString
getFiltersBytes(int index);
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return A list containing the formats.
*/
java.util.List
getFormatsList();
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return The count of formats.
*/
int getFormatsCount();
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index of the element to return.
* @return The formats at the given index.
*/
java.lang.String getFormats(int index);
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index of the value to return.
* @return The bytes of the formats at the given index.
*/
com.google.protobuf.ByteString
getFormatsBytes(int index);
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return A list containing the gts.
*/
java.util.List
getGtsList();
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return The count of gts.
*/
int getGtsCount();
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index of the element to return.
* @return The gts at the given index.
*/
java.lang.String getGts(int index);
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index of the value to return.
* @return The bytes of the gts at the given index.
*/
com.google.protobuf.ByteString
getGtsBytes(int index);
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/**
* Protobuf type {@code protobuf.opencb.Fields}
*/
public static final class Fields extends
com.google.protobuf.GeneratedMessageV3 implements
// @@protoc_insertion_point(message_implements:protobuf.opencb.Fields)
FieldsOrBuilder {
private static final long serialVersionUID = 0L;
// Use Fields.newBuilder() to construct.
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this();
if (extensionRegistry == null) {
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if (((mutable_bitField0_ & 0x00000010) != 0)) {
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}
this.unknownFields = unknownFields.build();
makeExtensionsImmutable();
}
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public static final com.google.protobuf.Descriptors.Descriptor
getDescriptor() {
return org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.internal_static_protobuf_opencb_Fields_descriptor;
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protected com.google.protobuf.GeneratedMessageV3.FieldAccessorTable
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public static final int INFO_KEYS_FIELD_NUMBER = 1;
private com.google.protobuf.LazyStringList infoKeys_;
/**
* repeated string info_keys = 1;
* @return A list containing the infoKeys.
*/
public com.google.protobuf.ProtocolStringList
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/**
* repeated string info_keys = 1;
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* repeated string info_keys = 1;
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* repeated string info_keys = 1;
* @param index The index of the value to return.
* @return The bytes of the infoKeys at the given index.
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public static final int DEFAULT_INFO_KEYS_FIELD_NUMBER = 2;
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* repeated uint32 default_info_keys = 2;
* @return A list containing the defaultInfoKeys.
*/
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* repeated uint32 default_info_keys = 2;
* @return The count of defaultInfoKeys.
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* repeated uint32 default_info_keys = 2;
* @param index The index of the element to return.
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public static final int FILTERS_FIELD_NUMBER = 3;
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/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return A list containing the filters.
*/
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getFiltersList() {
return filters_;
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/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return The count of filters.
*/
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return filters_.size();
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/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index of the element to return.
* @return The filters at the given index.
*/
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/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index of the value to return.
* @return The bytes of the filters at the given index.
*/
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getFiltersBytes(int index) {
return filters_.getByteString(index);
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public static final int FORMATS_FIELD_NUMBER = 5;
private com.google.protobuf.LazyStringList formats_;
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return A list containing the formats.
*/
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getFormatsList() {
return formats_;
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return The count of formats.
*/
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return formats_.size();
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index of the element to return.
* @return The formats at the given index.
*/
public java.lang.String getFormats(int index) {
return formats_.get(index);
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index of the value to return.
* @return The bytes of the formats at the given index.
*/
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getFormatsBytes(int index) {
return formats_.getByteString(index);
}
public static final int GTS_FIELD_NUMBER = 6;
private com.google.protobuf.LazyStringList gts_;
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return A list containing the gts.
*/
public com.google.protobuf.ProtocolStringList
getGtsList() {
return gts_;
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return The count of gts.
*/
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/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index of the element to return.
* @return The gts at the given index.
*/
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/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index of the value to return.
* @return The bytes of the gts at the given index.
*/
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org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields other = (org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields) obj;
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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public Builder clear() {
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infoKeys_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000001);
defaultInfoKeys_ = emptyIntList();
bitField0_ = (bitField0_ & ~0x00000002);
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bitField0_ = (bitField0_ & ~0x00000004);
formats_ = com.google.protobuf.LazyStringArrayList.EMPTY;
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public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields build() {
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throw newUninitializedMessageException(result);
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@java.lang.Override
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields buildPartial() {
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@java.lang.Override
public Builder clone() {
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@java.lang.Override
public Builder setField(
com.google.protobuf.Descriptors.FieldDescriptor field,
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@java.lang.Override
public Builder clearField(
com.google.protobuf.Descriptors.FieldDescriptor field) {
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@java.lang.Override
public Builder clearOneof(
com.google.protobuf.Descriptors.OneofDescriptor oneof) {
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@java.lang.Override
public Builder setRepeatedField(
com.google.protobuf.Descriptors.FieldDescriptor field,
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@java.lang.Override
public Builder addRepeatedField(
com.google.protobuf.Descriptors.FieldDescriptor field,
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@java.lang.Override
public Builder mergeFrom(com.google.protobuf.Message other) {
if (other instanceof org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields) {
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super.mergeFrom(other);
return this;
}
}
public Builder mergeFrom(org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields other) {
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if (!other.defaultInfoKeys_.isEmpty()) {
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onChanged();
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if (!other.filters_.isEmpty()) {
if (filters_.isEmpty()) {
filters_ = other.filters_;
bitField0_ = (bitField0_ & ~0x00000004);
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filters_.addAll(other.filters_);
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onChanged();
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if (!other.formats_.isEmpty()) {
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formats_ = other.formats_;
bitField0_ = (bitField0_ & ~0x00000008);
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this.mergeUnknownFields(other.unknownFields);
onChanged();
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@java.lang.Override
public final boolean isInitialized() {
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@java.lang.Override
public Builder mergeFrom(
com.google.protobuf.CodedInputStream input,
com.google.protobuf.ExtensionRegistryLite extensionRegistry)
throws java.io.IOException {
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields parsedMessage = null;
try {
parsedMessage = PARSER.parsePartialFrom(input, extensionRegistry);
} catch (com.google.protobuf.InvalidProtocolBufferException e) {
parsedMessage = (org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields) e.getUnfinishedMessage();
throw e.unwrapIOException();
} finally {
if (parsedMessage != null) {
mergeFrom(parsedMessage);
}
}
return this;
}
private int bitField0_;
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private void ensureInfoKeysIsMutable() {
if (!((bitField0_ & 0x00000001) != 0)) {
infoKeys_ = new com.google.protobuf.LazyStringArrayList(infoKeys_);
bitField0_ |= 0x00000001;
}
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/**
* repeated string info_keys = 1;
* @return A list containing the infoKeys.
*/
public com.google.protobuf.ProtocolStringList
getInfoKeysList() {
return infoKeys_.getUnmodifiableView();
}
/**
* repeated string info_keys = 1;
* @return The count of infoKeys.
*/
public int getInfoKeysCount() {
return infoKeys_.size();
}
/**
* repeated string info_keys = 1;
* @param index The index of the element to return.
* @return The infoKeys at the given index.
*/
public java.lang.String getInfoKeys(int index) {
return infoKeys_.get(index);
}
/**
* repeated string info_keys = 1;
* @param index The index of the value to return.
* @return The bytes of the infoKeys at the given index.
*/
public com.google.protobuf.ByteString
getInfoKeysBytes(int index) {
return infoKeys_.getByteString(index);
}
/**
* repeated string info_keys = 1;
* @param index The index to set the value at.
* @param value The infoKeys to set.
* @return This builder for chaining.
*/
public Builder setInfoKeys(
int index, java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureInfoKeysIsMutable();
infoKeys_.set(index, value);
onChanged();
return this;
}
/**
* repeated string info_keys = 1;
* @param value The infoKeys to add.
* @return This builder for chaining.
*/
public Builder addInfoKeys(
java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureInfoKeysIsMutable();
infoKeys_.add(value);
onChanged();
return this;
}
/**
* repeated string info_keys = 1;
* @param values The infoKeys to add.
* @return This builder for chaining.
*/
public Builder addAllInfoKeys(
java.lang.Iterable values) {
ensureInfoKeysIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, infoKeys_);
onChanged();
return this;
}
/**
* repeated string info_keys = 1;
* @return This builder for chaining.
*/
public Builder clearInfoKeys() {
infoKeys_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000001);
onChanged();
return this;
}
/**
* repeated string info_keys = 1;
* @param value The bytes of the infoKeys to add.
* @return This builder for chaining.
*/
public Builder addInfoKeysBytes(
com.google.protobuf.ByteString value) {
if (value == null) {
throw new NullPointerException();
}
checkByteStringIsUtf8(value);
ensureInfoKeysIsMutable();
infoKeys_.add(value);
onChanged();
return this;
}
private com.google.protobuf.Internal.IntList defaultInfoKeys_ = emptyIntList();
private void ensureDefaultInfoKeysIsMutable() {
if (!((bitField0_ & 0x00000002) != 0)) {
defaultInfoKeys_ = mutableCopy(defaultInfoKeys_);
bitField0_ |= 0x00000002;
}
}
/**
* repeated uint32 default_info_keys = 2;
* @return A list containing the defaultInfoKeys.
*/
public java.util.List
getDefaultInfoKeysList() {
return ((bitField0_ & 0x00000002) != 0) ?
java.util.Collections.unmodifiableList(defaultInfoKeys_) : defaultInfoKeys_;
}
/**
* repeated uint32 default_info_keys = 2;
* @return The count of defaultInfoKeys.
*/
public int getDefaultInfoKeysCount() {
return defaultInfoKeys_.size();
}
/**
* repeated uint32 default_info_keys = 2;
* @param index The index of the element to return.
* @return The defaultInfoKeys at the given index.
*/
public int getDefaultInfoKeys(int index) {
return defaultInfoKeys_.getInt(index);
}
/**
* repeated uint32 default_info_keys = 2;
* @param index The index to set the value at.
* @param value The defaultInfoKeys to set.
* @return This builder for chaining.
*/
public Builder setDefaultInfoKeys(
int index, int value) {
ensureDefaultInfoKeysIsMutable();
defaultInfoKeys_.setInt(index, value);
onChanged();
return this;
}
/**
* repeated uint32 default_info_keys = 2;
* @param value The defaultInfoKeys to add.
* @return This builder for chaining.
*/
public Builder addDefaultInfoKeys(int value) {
ensureDefaultInfoKeysIsMutable();
defaultInfoKeys_.addInt(value);
onChanged();
return this;
}
/**
* repeated uint32 default_info_keys = 2;
* @param values The defaultInfoKeys to add.
* @return This builder for chaining.
*/
public Builder addAllDefaultInfoKeys(
java.lang.Iterable values) {
ensureDefaultInfoKeysIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, defaultInfoKeys_);
onChanged();
return this;
}
/**
* repeated uint32 default_info_keys = 2;
* @return This builder for chaining.
*/
public Builder clearDefaultInfoKeys() {
defaultInfoKeys_ = emptyIntList();
bitField0_ = (bitField0_ & ~0x00000002);
onChanged();
return this;
}
private com.google.protobuf.LazyStringList filters_ = com.google.protobuf.LazyStringArrayList.EMPTY;
private void ensureFiltersIsMutable() {
if (!((bitField0_ & 0x00000004) != 0)) {
filters_ = new com.google.protobuf.LazyStringArrayList(filters_);
bitField0_ |= 0x00000004;
}
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return A list containing the filters.
*/
public com.google.protobuf.ProtocolStringList
getFiltersList() {
return filters_.getUnmodifiableView();
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return The count of filters.
*/
public int getFiltersCount() {
return filters_.size();
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index of the element to return.
* @return The filters at the given index.
*/
public java.lang.String getFilters(int index) {
return filters_.get(index);
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index of the value to return.
* @return The bytes of the filters at the given index.
*/
public com.google.protobuf.ByteString
getFiltersBytes(int index) {
return filters_.getByteString(index);
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param index The index to set the value at.
* @param value The filters to set.
* @return This builder for chaining.
*/
public Builder setFilters(
int index, java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureFiltersIsMutable();
filters_.set(index, value);
onChanged();
return this;
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param value The filters to add.
* @return This builder for chaining.
*/
public Builder addFilters(
java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureFiltersIsMutable();
filters_.add(value);
onChanged();
return this;
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param values The filters to add.
* @return This builder for chaining.
*/
public Builder addAllFilters(
java.lang.Iterable values) {
ensureFiltersIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, filters_);
onChanged();
return this;
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @return This builder for chaining.
*/
public Builder clearFilters() {
filters_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000004);
onChanged();
return this;
}
/**
*
* Possible filter compositions. Delimited by ';'
* Where the first filter is the default one
*
*
* repeated string filters = 3;
* @param value The bytes of the filters to add.
* @return This builder for chaining.
*/
public Builder addFiltersBytes(
com.google.protobuf.ByteString value) {
if (value == null) {
throw new NullPointerException();
}
checkByteStringIsUtf8(value);
ensureFiltersIsMutable();
filters_.add(value);
onChanged();
return this;
}
private com.google.protobuf.LazyStringList formats_ = com.google.protobuf.LazyStringArrayList.EMPTY;
private void ensureFormatsIsMutable() {
if (!((bitField0_ & 0x00000008) != 0)) {
formats_ = new com.google.protobuf.LazyStringArrayList(formats_);
bitField0_ |= 0x00000008;
}
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return A list containing the formats.
*/
public com.google.protobuf.ProtocolStringList
getFormatsList() {
return formats_.getUnmodifiableView();
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return The count of formats.
*/
public int getFormatsCount() {
return formats_.size();
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index of the element to return.
* @return The formats at the given index.
*/
public java.lang.String getFormats(int index) {
return formats_.get(index);
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index of the value to return.
* @return The bytes of the formats at the given index.
*/
public com.google.protobuf.ByteString
getFormatsBytes(int index) {
return formats_.getByteString(index);
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param index The index to set the value at.
* @param value The formats to set.
* @return This builder for chaining.
*/
public Builder setFormats(
int index, java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureFormatsIsMutable();
formats_.set(index, value);
onChanged();
return this;
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param value The formats to add.
* @return This builder for chaining.
*/
public Builder addFormats(
java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureFormatsIsMutable();
formats_.add(value);
onChanged();
return this;
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param values The formats to add.
* @return This builder for chaining.
*/
public Builder addAllFormats(
java.lang.Iterable values) {
ensureFormatsIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, formats_);
onChanged();
return this;
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @return This builder for chaining.
*/
public Builder clearFormats() {
formats_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000008);
onChanged();
return this;
}
/**
*
* Possible formats compositions. Delimited by ':'
* Where the first format is the default one
*
*
* repeated string formats = 5;
* @param value The bytes of the formats to add.
* @return This builder for chaining.
*/
public Builder addFormatsBytes(
com.google.protobuf.ByteString value) {
if (value == null) {
throw new NullPointerException();
}
checkByteStringIsUtf8(value);
ensureFormatsIsMutable();
formats_.add(value);
onChanged();
return this;
}
private com.google.protobuf.LazyStringList gts_ = com.google.protobuf.LazyStringArrayList.EMPTY;
private void ensureGtsIsMutable() {
if (!((bitField0_ & 0x00000010) != 0)) {
gts_ = new com.google.protobuf.LazyStringArrayList(gts_);
bitField0_ |= 0x00000010;
}
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return A list containing the gts.
*/
public com.google.protobuf.ProtocolStringList
getGtsList() {
return gts_.getUnmodifiableView();
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return The count of gts.
*/
public int getGtsCount() {
return gts_.size();
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index of the element to return.
* @return The gts at the given index.
*/
public java.lang.String getGts(int index) {
return gts_.get(index);
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index of the value to return.
* @return The bytes of the gts at the given index.
*/
public com.google.protobuf.ByteString
getGtsBytes(int index) {
return gts_.getByteString(index);
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param index The index to set the value at.
* @param value The gts to set.
* @return This builder for chaining.
*/
public Builder setGts(
int index, java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureGtsIsMutable();
gts_.set(index, value);
onChanged();
return this;
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param value The gts to add.
* @return This builder for chaining.
*/
public Builder addGts(
java.lang.String value) {
if (value == null) {
throw new NullPointerException();
}
ensureGtsIsMutable();
gts_.add(value);
onChanged();
return this;
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param values The gts to add.
* @return This builder for chaining.
*/
public Builder addAllGts(
java.lang.Iterable values) {
ensureGtsIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, gts_);
onChanged();
return this;
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @return This builder for chaining.
*/
public Builder clearGts() {
gts_ = com.google.protobuf.LazyStringArrayList.EMPTY;
bitField0_ = (bitField0_ & ~0x00000010);
onChanged();
return this;
}
/**
*
* Possible genotypes seen on the slice.
* Where the first GT is the default one
*
*
* repeated string gts = 6;
* @param value The bytes of the gts to add.
* @return This builder for chaining.
*/
public Builder addGtsBytes(
com.google.protobuf.ByteString value) {
if (value == null) {
throw new NullPointerException();
}
checkByteStringIsUtf8(value);
ensureGtsIsMutable();
gts_.add(value);
onChanged();
return this;
}
@java.lang.Override
public final Builder setUnknownFields(
final com.google.protobuf.UnknownFieldSet unknownFields) {
return super.setUnknownFields(unknownFields);
}
@java.lang.Override
public final Builder mergeUnknownFields(
final com.google.protobuf.UnknownFieldSet unknownFields) {
return super.mergeUnknownFields(unknownFields);
}
// @@protoc_insertion_point(builder_scope:protobuf.opencb.Fields)
}
// @@protoc_insertion_point(class_scope:protobuf.opencb.Fields)
private static final org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields DEFAULT_INSTANCE;
static {
DEFAULT_INSTANCE = new org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields();
}
public static org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields getDefaultInstance() {
return DEFAULT_INSTANCE;
}
private static final com.google.protobuf.Parser
PARSER = new com.google.protobuf.AbstractParser() {
@java.lang.Override
public Fields parsePartialFrom(
com.google.protobuf.CodedInputStream input,
com.google.protobuf.ExtensionRegistryLite extensionRegistry)
throws com.google.protobuf.InvalidProtocolBufferException {
return new Fields(input, extensionRegistry);
}
};
public static com.google.protobuf.Parser parser() {
return PARSER;
}
@java.lang.Override
public com.google.protobuf.Parser getParserForType() {
return PARSER;
}
@java.lang.Override
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields getDefaultInstanceForType() {
return DEFAULT_INSTANCE;
}
}
public interface VcfSliceOrBuilder extends
// @@protoc_insertion_point(interface_extends:protobuf.opencb.VcfSlice)
com.google.protobuf.MessageOrBuilder {
/**
* string chromosome = 1;
* @return The chromosome.
*/
java.lang.String getChromosome();
/**
* string chromosome = 1;
* @return The bytes for chromosome.
*/
com.google.protobuf.ByteString
getChromosomeBytes();
/**
* uint32 position = 2;
* @return The position.
*/
int getPosition();
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
java.util.List
getRecordsList();
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord getRecords(int index);
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
int getRecordsCount();
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
java.util.List
getRecordsOrBuilderList();
/**
*
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org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.FieldsOrBuilder getFieldsOrBuilder();
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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return PARSER.parseFrom(data);
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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return com.google.protobuf.GeneratedMessageV3
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com.google.protobuf.CodedInputStream input,
com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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public static Builder newBuilder() {
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public static Builder newBuilder(org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSlice prototype) {
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/**
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org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSliceOrBuilder {
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com.google.protobuf.CodedInputStream input,
com.google.protobuf.ExtensionRegistryLite extensionRegistry)
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org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSlice parsedMessage = null;
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onChanged();
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onChanged();
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onChanged();
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onChanged();
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onChanged();
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return records_.get(index);
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/**
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public Builder setRecords(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord value) {
if (recordsBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureRecordsIsMutable();
records_.set(index, value);
onChanged();
} else {
recordsBuilder_.setMessage(index, value);
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder setRecords(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder builderForValue) {
if (recordsBuilder_ == null) {
ensureRecordsIsMutable();
records_.set(index, builderForValue.build());
onChanged();
} else {
recordsBuilder_.setMessage(index, builderForValue.build());
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder addRecords(org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord value) {
if (recordsBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureRecordsIsMutable();
records_.add(value);
onChanged();
} else {
recordsBuilder_.addMessage(value);
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder addRecords(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord value) {
if (recordsBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
ensureRecordsIsMutable();
records_.add(index, value);
onChanged();
} else {
recordsBuilder_.addMessage(index, value);
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder addRecords(
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder builderForValue) {
if (recordsBuilder_ == null) {
ensureRecordsIsMutable();
records_.add(builderForValue.build());
onChanged();
} else {
recordsBuilder_.addMessage(builderForValue.build());
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder addRecords(
int index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder builderForValue) {
if (recordsBuilder_ == null) {
ensureRecordsIsMutable();
records_.add(index, builderForValue.build());
onChanged();
} else {
recordsBuilder_.addMessage(index, builderForValue.build());
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder addAllRecords(
java.lang.Iterable values) {
if (recordsBuilder_ == null) {
ensureRecordsIsMutable();
com.google.protobuf.AbstractMessageLite.Builder.addAll(
values, records_);
onChanged();
} else {
recordsBuilder_.addAllMessages(values);
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder clearRecords() {
if (recordsBuilder_ == null) {
records_ = java.util.Collections.emptyList();
bitField0_ = (bitField0_ & ~0x00000001);
onChanged();
} else {
recordsBuilder_.clear();
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public Builder removeRecords(int index) {
if (recordsBuilder_ == null) {
ensureRecordsIsMutable();
records_.remove(index);
onChanged();
} else {
recordsBuilder_.remove(index);
}
return this;
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder getRecordsBuilder(
int index) {
return getRecordsFieldBuilder().getBuilder(index);
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecordOrBuilder getRecordsOrBuilder(
int index) {
if (recordsBuilder_ == null) {
return records_.get(index); } else {
return recordsBuilder_.getMessageOrBuilder(index);
}
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public java.util.List
getRecordsOrBuilderList() {
if (recordsBuilder_ != null) {
return recordsBuilder_.getMessageOrBuilderList();
} else {
return java.util.Collections.unmodifiableList(records_);
}
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder addRecordsBuilder() {
return getRecordsFieldBuilder().addBuilder(
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.getDefaultInstance());
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder addRecordsBuilder(
int index) {
return getRecordsFieldBuilder().addBuilder(
index, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.getDefaultInstance());
}
/**
*
* List of records (lines)
*
*
* repeated .protobuf.opencb.VcfRecord records = 3;
*/
public java.util.List
getRecordsBuilderList() {
return getRecordsFieldBuilder().getBuilderList();
}
private com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecordOrBuilder>
getRecordsFieldBuilder() {
if (recordsBuilder_ == null) {
recordsBuilder_ = new com.google.protobuf.RepeatedFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecordOrBuilder>(
records_,
((bitField0_ & 0x00000001) != 0),
getParentForChildren(),
isClean());
records_ = null;
}
return recordsBuilder_;
}
private org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields fields_;
private com.google.protobuf.SingleFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.FieldsOrBuilder> fieldsBuilder_;
/**
* .protobuf.opencb.Fields fields = 4;
* @return Whether the fields field is set.
*/
public boolean hasFields() {
return fieldsBuilder_ != null || fields_ != null;
}
/**
* .protobuf.opencb.Fields fields = 4;
* @return The fields.
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields getFields() {
if (fieldsBuilder_ == null) {
return fields_ == null ? org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.getDefaultInstance() : fields_;
} else {
return fieldsBuilder_.getMessage();
}
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
public Builder setFields(org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields value) {
if (fieldsBuilder_ == null) {
if (value == null) {
throw new NullPointerException();
}
fields_ = value;
onChanged();
} else {
fieldsBuilder_.setMessage(value);
}
return this;
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
public Builder setFields(
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.Builder builderForValue) {
if (fieldsBuilder_ == null) {
fields_ = builderForValue.build();
onChanged();
} else {
fieldsBuilder_.setMessage(builderForValue.build());
}
return this;
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
public Builder mergeFields(org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields value) {
if (fieldsBuilder_ == null) {
if (fields_ != null) {
fields_ =
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.newBuilder(fields_).mergeFrom(value).buildPartial();
} else {
fields_ = value;
}
onChanged();
} else {
fieldsBuilder_.mergeFrom(value);
}
return this;
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
public Builder clearFields() {
if (fieldsBuilder_ == null) {
fields_ = null;
onChanged();
} else {
fields_ = null;
fieldsBuilder_ = null;
}
return this;
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.Builder getFieldsBuilder() {
onChanged();
return getFieldsFieldBuilder().getBuilder();
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.FieldsOrBuilder getFieldsOrBuilder() {
if (fieldsBuilder_ != null) {
return fieldsBuilder_.getMessageOrBuilder();
} else {
return fields_ == null ?
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.getDefaultInstance() : fields_;
}
}
/**
* .protobuf.opencb.Fields fields = 4;
*/
private com.google.protobuf.SingleFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.FieldsOrBuilder>
getFieldsFieldBuilder() {
if (fieldsBuilder_ == null) {
fieldsBuilder_ = new com.google.protobuf.SingleFieldBuilderV3<
org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.Fields.Builder, org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.FieldsOrBuilder>(
getFields(),
getParentForChildren(),
isClean());
fields_ = null;
}
return fieldsBuilder_;
}
@java.lang.Override
public final Builder setUnknownFields(
final com.google.protobuf.UnknownFieldSet unknownFields) {
return super.setUnknownFields(unknownFields);
}
@java.lang.Override
public final Builder mergeUnknownFields(
final com.google.protobuf.UnknownFieldSet unknownFields) {
return super.mergeUnknownFields(unknownFields);
}
// @@protoc_insertion_point(builder_scope:protobuf.opencb.VcfSlice)
}
// @@protoc_insertion_point(class_scope:protobuf.opencb.VcfSlice)
private static final org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSlice DEFAULT_INSTANCE;
static {
DEFAULT_INSTANCE = new org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSlice();
}
public static org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSlice getDefaultInstance() {
return DEFAULT_INSTANCE;
}
private static final com.google.protobuf.Parser
PARSER = new com.google.protobuf.AbstractParser() {
@java.lang.Override
public VcfSlice parsePartialFrom(
com.google.protobuf.CodedInputStream input,
com.google.protobuf.ExtensionRegistryLite extensionRegistry)
throws com.google.protobuf.InvalidProtocolBufferException {
return new VcfSlice(input, extensionRegistry);
}
};
public static com.google.protobuf.Parser parser() {
return PARSER;
}
@java.lang.Override
public com.google.protobuf.Parser getParserForType() {
return PARSER;
}
@java.lang.Override
public org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfSlice getDefaultInstanceForType() {
return DEFAULT_INSTANCE;
}
}
private static final com.google.protobuf.Descriptors.Descriptor
internal_static_protobuf_opencb_VcfSample_descriptor;
private static final
com.google.protobuf.GeneratedMessageV3.FieldAccessorTable
internal_static_protobuf_opencb_VcfSample_fieldAccessorTable;
private static final com.google.protobuf.Descriptors.Descriptor
internal_static_protobuf_opencb_VcfRecord_descriptor;
private static final
com.google.protobuf.GeneratedMessageV3.FieldAccessorTable
internal_static_protobuf_opencb_VcfRecord_fieldAccessorTable;
private static final com.google.protobuf.Descriptors.Descriptor
internal_static_protobuf_opencb_Fields_descriptor;
private static final
com.google.protobuf.GeneratedMessageV3.FieldAccessorTable
internal_static_protobuf_opencb_Fields_fieldAccessorTable;
private static final com.google.protobuf.Descriptors.Descriptor
internal_static_protobuf_opencb_VcfSlice_descriptor;
private static final
com.google.protobuf.GeneratedMessageV3.FieldAccessorTable
internal_static_protobuf_opencb_VcfSlice_fieldAccessorTable;
public static com.google.protobuf.Descriptors.FileDescriptor
getDescriptor() {
return descriptor;
}
private static com.google.protobuf.Descriptors.FileDescriptor
descriptor;
static {
java.lang.String[] descriptorData = {
"\n protobuf/opencb/vcf_record.proto\022\017prot" +
"obuf.opencb\032\035protobuf/opencb/variant.pro" +
"to\"4\n\tVcfSample\022\025\n\rsample_values\030\001 \003(\t\022\020" +
"\n\010gt_index\030\002 \001(\r\"\215\003\n\tVcfRecord\022\026\n\016relati" +
"ve_start\030\001 \001(\005\022\024\n\014relative_end\030\002 \001(\005\022\021\n\t" +
"reference\030\003 \001(\t\022\021\n\talternate\030\004 \001(\t\022\017\n\007qu" +
"ality\030\005 \001(\002\022*\n\004type\030\014 \001(\0162\034.protobuf.ope" +
"ncb.VariantType\022\014\n\004call\030\r \001(\t\022\024\n\014filter_" +
"index\030\006 \001(\r\022\026\n\016id_non_default\030\007 \003(\t\022\032\n\016i" +
"nfo_key_index\030\010 \003(\rB\002\020\001\022\022\n\ninfo_value\030\t " +
"\003(\t\022\023\n\013formatIndex\030\n \001(\r\022+\n\007samples\030\013 \003(" +
"\0132\032.protobuf.opencb.VcfSample\022A\n\023seconda" +
"ryAlternates\030\016 \003(\0132$.protobuf.opencb.Alt" +
"ernateCoordinate\"e\n\006Fields\022\021\n\tinfo_keys\030" +
"\001 \003(\t\022\031\n\021default_info_keys\030\002 \003(\r\022\017\n\007filt" +
"ers\030\003 \003(\t\022\017\n\007formats\030\005 \003(\t\022\013\n\003gts\030\006 \003(\t\"" +
"\206\001\n\010VcfSlice\022\022\n\nchromosome\030\001 \001(\t\022\020\n\010posi" +
"tion\030\002 \001(\r\022+\n\007records\030\003 \003(\0132\032.protobuf.o" +
"pencb.VcfRecord\022\'\n\006fields\030\004 \001(\0132\027.protob" +
"uf.opencb.FieldsB?\n*org.opencb.biodata.m" +
"odels.variant.protobufB\016VcfSliceProtos\240\001" +
"\001b\006proto3"
};
descriptor = com.google.protobuf.Descriptors.FileDescriptor
.internalBuildGeneratedFileFrom(descriptorData,
new com.google.protobuf.Descriptors.FileDescriptor[] {
org.opencb.biodata.models.variant.protobuf.VariantProto.getDescriptor(),
});
internal_static_protobuf_opencb_VcfSample_descriptor =
getDescriptor().getMessageTypes().get(0);
internal_static_protobuf_opencb_VcfSample_fieldAccessorTable = new
com.google.protobuf.GeneratedMessageV3.FieldAccessorTable(
internal_static_protobuf_opencb_VcfSample_descriptor,
new java.lang.String[] { "SampleValues", "GtIndex", });
internal_static_protobuf_opencb_VcfRecord_descriptor =
getDescriptor().getMessageTypes().get(1);
internal_static_protobuf_opencb_VcfRecord_fieldAccessorTable = new
com.google.protobuf.GeneratedMessageV3.FieldAccessorTable(
internal_static_protobuf_opencb_VcfRecord_descriptor,
new java.lang.String[] { "RelativeStart", "RelativeEnd", "Reference", "Alternate", "Quality", "Type", "Call", "FilterIndex", "IdNonDefault", "InfoKeyIndex", "InfoValue", "FormatIndex", "Samples", "SecondaryAlternates", });
internal_static_protobuf_opencb_Fields_descriptor =
getDescriptor().getMessageTypes().get(2);
internal_static_protobuf_opencb_Fields_fieldAccessorTable = new
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internal_static_protobuf_opencb_Fields_descriptor,
new java.lang.String[] { "InfoKeys", "DefaultInfoKeys", "Filters", "Formats", "Gts", });
internal_static_protobuf_opencb_VcfSlice_descriptor =
getDescriptor().getMessageTypes().get(3);
internal_static_protobuf_opencb_VcfSlice_fieldAccessorTable = new
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internal_static_protobuf_opencb_VcfSlice_descriptor,
new java.lang.String[] { "Chromosome", "Position", "Records", "Fields", });
org.opencb.biodata.models.variant.protobuf.VariantProto.getDescriptor();
}
// @@protoc_insertion_point(outer_class_scope)
}
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