org.gel.models.report.avro.BreakPoint Maven / Gradle / Ivy
/**
* Autogenerated by Avro
*
* DO NOT EDIT DIRECTLY
*/
package org.gel.models.report.avro;
@SuppressWarnings("all")
@org.apache.avro.specific.AvroGenerated
public class BreakPoint extends org.apache.avro.specific.SpecificRecordBase implements org.apache.avro.specific.SpecificRecord {
public static final org.apache.avro.Schema SCHEMA$ = new org.apache.avro.Schema.Parser().parse("{\"type\":\"record\",\"name\":\"BreakPoint\",\"namespace\":\"org.gel.models.report.avro\",\"fields\":[{\"name\":\"coordinates\",\"type\":{\"type\":\"record\",\"name\":\"Coordinates\",\"fields\":[{\"name\":\"assembly\",\"type\":{\"type\":\"enum\",\"name\":\"Assembly\",\"doc\":\"The reference genome assembly\",\"symbols\":[\"GRCh38\",\"GRCh37\"]},\"doc\":\"The assembly to which this variant corresponds\"},{\"name\":\"chromosome\",\"type\":{\"type\":\"string\",\"avro.java.string\":\"String\"},\"doc\":\"Chromosome without \\\"chr\\\" prefix (e.g. X rather than chrX)\"},{\"name\":\"start\",\"type\":\"int\",\"doc\":\"Start genomic position for variant (1-based)\"},{\"name\":\"end\",\"type\":\"int\",\"doc\":\"End genomic position for variant\"},{\"name\":\"ciStart\",\"type\":[\"null\",{\"type\":\"record\",\"name\":\"ConfidenceInterval\",\"fields\":[{\"name\":\"left\",\"type\":\"int\"},{\"name\":\"right\",\"type\":\"int\"}]}]},{\"name\":\"ciEnd\",\"type\":[\"null\",\"ConfidenceInterval\"]}]}},{\"name\":\"reference\",\"type\":[\"null\",{\"type\":\"string\",\"avro.java.string\":\"String\"}]},{\"name\":\"alternate\",\"type\":[\"null\",{\"type\":\"string\",\"avro.java.string\":\"String\"}]},{\"name\":\"info\",\"type\":[\"null\",{\"type\":\"map\",\"values\":{\"type\":\"string\",\"avro.java.string\":\"String\"},\"avro.java.string\":\"String\"}]}]}");
public static org.apache.avro.Schema getClassSchema() { return SCHEMA$; }
private org.gel.models.report.avro.Coordinates coordinates;
private java.lang.String reference;
private java.lang.String alternate;
private java.util.Map info;
/**
* Default constructor. Note that this does not initialize fields
* to their default values from the schema. If that is desired then
* one should use newBuilder().
*/
public BreakPoint() {}
/**
* All-args constructor.
*/
public BreakPoint(org.gel.models.report.avro.Coordinates coordinates, java.lang.String reference, java.lang.String alternate, java.util.Map info) {
this.coordinates = coordinates;
this.reference = reference;
this.alternate = alternate;
this.info = info;
}
public org.apache.avro.Schema getSchema() { return SCHEMA$; }
// Used by DatumWriter. Applications should not call.
public java.lang.Object get(int field$) {
switch (field$) {
case 0: return coordinates;
case 1: return reference;
case 2: return alternate;
case 3: return info;
default: throw new org.apache.avro.AvroRuntimeException("Bad index");
}
}
// Used by DatumReader. Applications should not call.
@SuppressWarnings(value="unchecked")
public void put(int field$, java.lang.Object value$) {
switch (field$) {
case 0: coordinates = (org.gel.models.report.avro.Coordinates)value$; break;
case 1: reference = (java.lang.String)value$; break;
case 2: alternate = (java.lang.String)value$; break;
case 3: info = (java.util.Map)value$; break;
default: throw new org.apache.avro.AvroRuntimeException("Bad index");
}
}
/**
* Gets the value of the 'coordinates' field.
*/
public org.gel.models.report.avro.Coordinates getCoordinates() {
return coordinates;
}
/**
* Sets the value of the 'coordinates' field.
* @param value the value to set.
*/
public void setCoordinates(org.gel.models.report.avro.Coordinates value) {
this.coordinates = value;
}
/**
* Gets the value of the 'reference' field.
*/
public java.lang.String getReference() {
return reference;
}
/**
* Sets the value of the 'reference' field.
* @param value the value to set.
*/
public void setReference(java.lang.String value) {
this.reference = value;
}
/**
* Gets the value of the 'alternate' field.
*/
public java.lang.String getAlternate() {
return alternate;
}
/**
* Sets the value of the 'alternate' field.
* @param value the value to set.
*/
public void setAlternate(java.lang.String value) {
this.alternate = value;
}
/**
* Gets the value of the 'info' field.
*/
public java.util.Map getInfo() {
return info;
}
/**
* Sets the value of the 'info' field.
* @param value the value to set.
*/
public void setInfo(java.util.Map value) {
this.info = value;
}
/** Creates a new BreakPoint RecordBuilder */
public static org.gel.models.report.avro.BreakPoint.Builder newBuilder() {
return new org.gel.models.report.avro.BreakPoint.Builder();
}
/** Creates a new BreakPoint RecordBuilder by copying an existing Builder */
public static org.gel.models.report.avro.BreakPoint.Builder newBuilder(org.gel.models.report.avro.BreakPoint.Builder other) {
return new org.gel.models.report.avro.BreakPoint.Builder(other);
}
/** Creates a new BreakPoint RecordBuilder by copying an existing BreakPoint instance */
public static org.gel.models.report.avro.BreakPoint.Builder newBuilder(org.gel.models.report.avro.BreakPoint other) {
return new org.gel.models.report.avro.BreakPoint.Builder(other);
}
/**
* RecordBuilder for BreakPoint instances.
*/
public static class Builder extends org.apache.avro.specific.SpecificRecordBuilderBase
implements org.apache.avro.data.RecordBuilder {
private org.gel.models.report.avro.Coordinates coordinates;
private java.lang.String reference;
private java.lang.String alternate;
private java.util.Map info;
/** Creates a new Builder */
private Builder() {
super(org.gel.models.report.avro.BreakPoint.SCHEMA$);
}
/** Creates a Builder by copying an existing Builder */
private Builder(org.gel.models.report.avro.BreakPoint.Builder other) {
super(other);
if (isValidValue(fields()[0], other.coordinates)) {
this.coordinates = data().deepCopy(fields()[0].schema(), other.coordinates);
fieldSetFlags()[0] = true;
}
if (isValidValue(fields()[1], other.reference)) {
this.reference = data().deepCopy(fields()[1].schema(), other.reference);
fieldSetFlags()[1] = true;
}
if (isValidValue(fields()[2], other.alternate)) {
this.alternate = data().deepCopy(fields()[2].schema(), other.alternate);
fieldSetFlags()[2] = true;
}
if (isValidValue(fields()[3], other.info)) {
this.info = data().deepCopy(fields()[3].schema(), other.info);
fieldSetFlags()[3] = true;
}
}
/** Creates a Builder by copying an existing BreakPoint instance */
private Builder(org.gel.models.report.avro.BreakPoint other) {
super(org.gel.models.report.avro.BreakPoint.SCHEMA$);
if (isValidValue(fields()[0], other.coordinates)) {
this.coordinates = data().deepCopy(fields()[0].schema(), other.coordinates);
fieldSetFlags()[0] = true;
}
if (isValidValue(fields()[1], other.reference)) {
this.reference = data().deepCopy(fields()[1].schema(), other.reference);
fieldSetFlags()[1] = true;
}
if (isValidValue(fields()[2], other.alternate)) {
this.alternate = data().deepCopy(fields()[2].schema(), other.alternate);
fieldSetFlags()[2] = true;
}
if (isValidValue(fields()[3], other.info)) {
this.info = data().deepCopy(fields()[3].schema(), other.info);
fieldSetFlags()[3] = true;
}
}
/** Gets the value of the 'coordinates' field */
public org.gel.models.report.avro.Coordinates getCoordinates() {
return coordinates;
}
/** Sets the value of the 'coordinates' field */
public org.gel.models.report.avro.BreakPoint.Builder setCoordinates(org.gel.models.report.avro.Coordinates value) {
validate(fields()[0], value);
this.coordinates = value;
fieldSetFlags()[0] = true;
return this;
}
/** Checks whether the 'coordinates' field has been set */
public boolean hasCoordinates() {
return fieldSetFlags()[0];
}
/** Clears the value of the 'coordinates' field */
public org.gel.models.report.avro.BreakPoint.Builder clearCoordinates() {
coordinates = null;
fieldSetFlags()[0] = false;
return this;
}
/** Gets the value of the 'reference' field */
public java.lang.String getReference() {
return reference;
}
/** Sets the value of the 'reference' field */
public org.gel.models.report.avro.BreakPoint.Builder setReference(java.lang.String value) {
validate(fields()[1], value);
this.reference = value;
fieldSetFlags()[1] = true;
return this;
}
/** Checks whether the 'reference' field has been set */
public boolean hasReference() {
return fieldSetFlags()[1];
}
/** Clears the value of the 'reference' field */
public org.gel.models.report.avro.BreakPoint.Builder clearReference() {
reference = null;
fieldSetFlags()[1] = false;
return this;
}
/** Gets the value of the 'alternate' field */
public java.lang.String getAlternate() {
return alternate;
}
/** Sets the value of the 'alternate' field */
public org.gel.models.report.avro.BreakPoint.Builder setAlternate(java.lang.String value) {
validate(fields()[2], value);
this.alternate = value;
fieldSetFlags()[2] = true;
return this;
}
/** Checks whether the 'alternate' field has been set */
public boolean hasAlternate() {
return fieldSetFlags()[2];
}
/** Clears the value of the 'alternate' field */
public org.gel.models.report.avro.BreakPoint.Builder clearAlternate() {
alternate = null;
fieldSetFlags()[2] = false;
return this;
}
/** Gets the value of the 'info' field */
public java.util.Map getInfo() {
return info;
}
/** Sets the value of the 'info' field */
public org.gel.models.report.avro.BreakPoint.Builder setInfo(java.util.Map value) {
validate(fields()[3], value);
this.info = value;
fieldSetFlags()[3] = true;
return this;
}
/** Checks whether the 'info' field has been set */
public boolean hasInfo() {
return fieldSetFlags()[3];
}
/** Clears the value of the 'info' field */
public org.gel.models.report.avro.BreakPoint.Builder clearInfo() {
info = null;
fieldSetFlags()[3] = false;
return this;
}
@Override
public BreakPoint build() {
try {
BreakPoint record = new BreakPoint();
record.coordinates = fieldSetFlags()[0] ? this.coordinates : (org.gel.models.report.avro.Coordinates) defaultValue(fields()[0]);
record.reference = fieldSetFlags()[1] ? this.reference : (java.lang.String) defaultValue(fields()[1]);
record.alternate = fieldSetFlags()[2] ? this.alternate : (java.lang.String) defaultValue(fields()[2]);
record.info = fieldSetFlags()[3] ? this.info : (java.util.Map) defaultValue(fields()[3]);
return record;
} catch (Exception e) {
throw new org.apache.avro.AvroRuntimeException(e);
}
}
}
}
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