org.opencb.biodata.models.variant.avro.FileEntry Maven / Gradle / Ivy
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/**
* Autogenerated by Avro
*
* DO NOT EDIT DIRECTLY
*/
package org.opencb.biodata.models.variant.avro;
@SuppressWarnings("all")
@org.apache.avro.specific.AvroGenerated
public class FileEntry 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\":\"FileEntry\",\"namespace\":\"org.opencb.biodata.models.variant.avro\",\"fields\":[{\"name\":\"fileId\",\"type\":[\"null\",{\"type\":\"string\",\"avro.java.string\":\"String\"}],\"doc\":\"* Unique identifier of the source file.\"},{\"name\":\"call\",\"type\":[\"null\",{\"type\":\"record\",\"name\":\"OriginalCall\",\"fields\":[{\"name\":\"variantId\",\"type\":{\"type\":\"string\",\"avro.java.string\":\"String\"},\"doc\":\"* Original variant ID before normalization including all secondary alternates.\"},{\"name\":\"alleleIndex\",\"type\":[\"null\",\"int\"],\"doc\":\"* Alternate allele index of the original multi-allellic variant call in which was decomposed.\"}]}],\"doc\":\"* Original call position for the variant, if the file was normalized.\\n *\\n * {position}:{reference}:{alternate}(,{other_alternate})*:{allele_index}\"},{\"name\":\"data\",\"type\":{\"type\":\"map\",\"values\":{\"type\":\"string\",\"avro.java.string\":\"String\"},\"avro.java.string\":\"String\"},\"doc\":\"* Optional data that probably depend on the format of the file the\\n * variant was initially read from.\"}]}");
public static org.apache.avro.Schema getClassSchema() { return SCHEMA$; }
/** * Unique identifier of the source file. */
private java.lang.String fileId;
/** * Original call position for the variant, if the file was normalized.
*
* {position}:{reference}:{alternate}(,{other_alternate})*:{allele_index} */
private org.opencb.biodata.models.variant.avro.OriginalCall call;
/** * Optional data that probably depend on the format of the file the
* variant was initially read from. */
private java.util.Map data;
/**
* Default constructor. Note that this does not initialize fields
* to their default values from the schema. If that is desired then
* one should use newBuilder().
*/
public FileEntry() {}
/**
* All-args constructor.
*/
public FileEntry(java.lang.String fileId, org.opencb.biodata.models.variant.avro.OriginalCall call, java.util.Map data) {
this.fileId = fileId;
this.call = call;
this.data = data;
}
public org.apache.avro.Schema getSchema() { return SCHEMA$; }
// Used by DatumWriter. Applications should not call.
public java.lang.Object get(int field$) {
switch (field$) {
case 0: return fileId;
case 1: return call;
case 2: return data;
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$) {
case 0: fileId = (java.lang.String)value$; break;
case 1: call = (org.opencb.biodata.models.variant.avro.OriginalCall)value$; break;
case 2: data = (java.util.Map)value$; break;
default: throw new org.apache.avro.AvroRuntimeException("Bad index");
}
}
/**
* Gets the value of the 'fileId' field.
* * Unique identifier of the source file. */
public java.lang.String getFileId() {
return fileId;
}
/**
* Sets the value of the 'fileId' field.
* * Unique identifier of the source file. * @param value the value to set.
*/
public void setFileId(java.lang.String value) {
this.fileId = value;
}
/**
* Gets the value of the 'call' field.
* * Original call position for the variant, if the file was normalized.
*
* {position}:{reference}:{alternate}(,{other_alternate})*:{allele_index} */
public org.opencb.biodata.models.variant.avro.OriginalCall getCall() {
return call;
}
/**
* Sets the value of the 'call' field.
* * Original call position for the variant, if the file was normalized.
*
* {position}:{reference}:{alternate}(,{other_alternate})*:{allele_index} * @param value the value to set.
*/
public void setCall(org.opencb.biodata.models.variant.avro.OriginalCall value) {
this.call = value;
}
/**
* Gets the value of the 'data' field.
* * Optional data that probably depend on the format of the file the
* variant was initially read from. */
public java.util.Map getData() {
return data;
}
/**
* Sets the value of the 'data' field.
* * Optional data that probably depend on the format of the file the
* variant was initially read from. * @param value the value to set.
*/
public void setData(java.util.Map value) {
this.data = value;
}
/** Creates a new FileEntry RecordBuilder */
public static org.opencb.biodata.models.variant.avro.FileEntry.Builder newBuilder() {
return new org.opencb.biodata.models.variant.avro.FileEntry.Builder();
}
/** Creates a new FileEntry RecordBuilder by copying an existing Builder */
public static org.opencb.biodata.models.variant.avro.FileEntry.Builder newBuilder(org.opencb.biodata.models.variant.avro.FileEntry.Builder other) {
return new org.opencb.biodata.models.variant.avro.FileEntry.Builder(other);
}
/** Creates a new FileEntry RecordBuilder by copying an existing FileEntry instance */
public static org.opencb.biodata.models.variant.avro.FileEntry.Builder newBuilder(org.opencb.biodata.models.variant.avro.FileEntry other) {
return new org.opencb.biodata.models.variant.avro.FileEntry.Builder(other);
}
/**
* RecordBuilder for FileEntry instances.
*/
public static class Builder extends org.apache.avro.specific.SpecificRecordBuilderBase
implements org.apache.avro.data.RecordBuilder {
private java.lang.String fileId;
private org.opencb.biodata.models.variant.avro.OriginalCall call;
private java.util.Map data;
/** Creates a new Builder */
private Builder() {
super(org.opencb.biodata.models.variant.avro.FileEntry.SCHEMA$);
}
/** Creates a Builder by copying an existing Builder */
private Builder(org.opencb.biodata.models.variant.avro.FileEntry.Builder other) {
super(other);
if (isValidValue(fields()[0], other.fileId)) {
this.fileId = data().deepCopy(fields()[0].schema(), other.fileId);
fieldSetFlags()[0] = true;
}
if (isValidValue(fields()[1], other.call)) {
this.call = data().deepCopy(fields()[1].schema(), other.call);
fieldSetFlags()[1] = true;
}
if (isValidValue(fields()[2], other.data)) {
this.data = data().deepCopy(fields()[2].schema(), other.data);
fieldSetFlags()[2] = true;
}
}
/** Creates a Builder by copying an existing FileEntry instance */
private Builder(org.opencb.biodata.models.variant.avro.FileEntry other) {
super(org.opencb.biodata.models.variant.avro.FileEntry.SCHEMA$);
if (isValidValue(fields()[0], other.fileId)) {
this.fileId = data().deepCopy(fields()[0].schema(), other.fileId);
fieldSetFlags()[0] = true;
}
if (isValidValue(fields()[1], other.call)) {
this.call = data().deepCopy(fields()[1].schema(), other.call);
fieldSetFlags()[1] = true;
}
if (isValidValue(fields()[2], other.data)) {
this.data = data().deepCopy(fields()[2].schema(), other.data);
fieldSetFlags()[2] = true;
}
}
/** Gets the value of the 'fileId' field */
public java.lang.String getFileId() {
return fileId;
}
/** Sets the value of the 'fileId' field */
public org.opencb.biodata.models.variant.avro.FileEntry.Builder setFileId(java.lang.String value) {
validate(fields()[0], value);
this.fileId = value;
fieldSetFlags()[0] = true;
return this;
}
/** Checks whether the 'fileId' field has been set */
public boolean hasFileId() {
return fieldSetFlags()[0];
}
/** Clears the value of the 'fileId' field */
public org.opencb.biodata.models.variant.avro.FileEntry.Builder clearFileId() {
fileId = null;
fieldSetFlags()[0] = false;
return this;
}
/** Gets the value of the 'call' field */
public org.opencb.biodata.models.variant.avro.OriginalCall getCall() {
return call;
}
/** Sets the value of the 'call' field */
public org.opencb.biodata.models.variant.avro.FileEntry.Builder setCall(org.opencb.biodata.models.variant.avro.OriginalCall value) {
validate(fields()[1], value);
this.call = value;
fieldSetFlags()[1] = true;
return this;
}
/** Checks whether the 'call' field has been set */
public boolean hasCall() {
return fieldSetFlags()[1];
}
/** Clears the value of the 'call' field */
public org.opencb.biodata.models.variant.avro.FileEntry.Builder clearCall() {
call = null;
fieldSetFlags()[1] = false;
return this;
}
/** Gets the value of the 'data' field */
public java.util.Map getData() {
return data;
}
/** Sets the value of the 'data' field */
public org.opencb.biodata.models.variant.avro.FileEntry.Builder setData(java.util.Map value) {
validate(fields()[2], value);
this.data = value;
fieldSetFlags()[2] = true;
return this;
}
/** Checks whether the 'data' field has been set */
public boolean hasData() {
return fieldSetFlags()[2];
}
/** Clears the value of the 'data' field */
public org.opencb.biodata.models.variant.avro.FileEntry.Builder clearData() {
data = null;
fieldSetFlags()[2] = false;
return this;
}
@Override
public FileEntry build() {
try {
FileEntry record = new FileEntry();
record.fileId = fieldSetFlags()[0] ? this.fileId : (java.lang.String) defaultValue(fields()[0]);
record.call = fieldSetFlags()[1] ? this.call : (org.opencb.biodata.models.variant.avro.OriginalCall) defaultValue(fields()[1]);
record.data = fieldSetFlags()[2] ? this.data : (java.util.Map) defaultValue(fields()[2]);
return record;
} catch (Exception e) {
throw new org.apache.avro.AvroRuntimeException(e);
}
}
}
}