com.esotericsoftware.kryo.io.Output Scala Examples

package com.lightbend.modelserving.spark

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import com.lightbend.model.winerecord.WineRecord
import com.lightbend.modelserving.model.ModelFactoryResolver
import org.apache.spark.serializer.KryoRegistrator


  override def write(kryo: Kryo, output: Output, value: ModelState): Unit = {
    val start = System.currentTimeMillis()
    output.writeLong(value.name.length)
    output.write(value.name.getBytes)
    output.writeLong(value.model.getType.value.toLong)
    val bytes = value.model.toBytes
    output.writeLong(bytes.length)
    output.write(bytes)
    println(s"KRYO serialization in ${System.currentTimeMillis() - start} ms")
  }
}

object ModelStateSerializerKryo{

  // Model Factory resolver
  private var resolver : ModelFactoryResolver[WineRecord, Double] = _

  // This method has to be invoked before execution starts
  def setResolver(res : ModelFactoryResolver[WineRecord, Double]) : Unit = resolver = res
  // Ensure that resolver is set
  private def validateResolver() : Unit = if(resolver == null) throw new Exception("Model factory resolver is not set")
}

class ModelStateRegistrator extends KryoRegistrator {
  override def registerClasses(kryo: Kryo) {
    kryo.register(classOf[ModelState], new ModelStateSerializerKryo())
  }
} 

package com.cloudera.sparkts

import com.esotericsoftware.kryo.{Serializer, Kryo}
import com.esotericsoftware.kryo.io.{Output, Input}

import org.apache.spark.SparkConf
import org.apache.spark.serializer.{KryoRegistrator, KryoSerializer}
import com.cloudera.sparkts.TimeSeriesUtils._

import java.time._

class TimeSeriesKryoRegistrator extends KryoRegistrator {
  def registerClasses(kryo: Kryo): Unit = {
    kryo.register(classOf[TimeSeries[_]])
    kryo.register(classOf[UniformDateTimeIndex])
    kryo.register(classOf[IrregularDateTimeIndex])
    kryo.register(classOf[BusinessDayFrequency])
    kryo.register(classOf[DayFrequency])
    kryo.register(classOf[ZonedDateTime], new DateTimeSerializer)
  }
}

class DateTimeSerializer extends Serializer[ZonedDateTime] {
  def write(kryo: Kryo, out: Output, dt: ZonedDateTime): Unit = {
    out.writeLong(zonedDateTimeToLong(dt), true)
  }

  def read(kryo: Kryo, in: Input, clazz: Class[ZonedDateTime]): ZonedDateTime = {
    longToZonedDateTime(in.readLong(true), ZoneId.systemDefault())
  }
}

object TimeSeriesKryoRegistrator {
  def registerKryoClasses(conf: SparkConf): Unit = {
    conf.set("spark.serializer", classOf[KryoSerializer].getName)
    conf.set("spark.kryo.registrator", classOf[TimeSeriesKryoRegistrator].getName)
  }
} 

package org.apache.spark.serializer

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.nio.ByteBuffer

import com.esotericsoftware.kryo.io.{Input, Output}
import org.apache.avro.{Schema, SchemaBuilder}
import org.apache.avro.generic.GenericData.Record

import org.apache.spark.{SharedSparkContext, SparkFunSuite}

class GenericAvroSerializerSuite extends SparkFunSuite with SharedSparkContext {
  conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer")

  val schema : Schema = SchemaBuilder
    .record("testRecord").fields()
    .requiredString("data")
    .endRecord()
  val record = new Record(schema)
  record.put("data", "test data")

  test("schema compression and decompression") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    assert(schema === genericSer.decompress(ByteBuffer.wrap(genericSer.compress(schema))))
  }

  test("record serialization and deserialization") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)

    val outputStream = new ByteArrayOutputStream()
    val output = new Output(outputStream)
    genericSer.serializeDatum(record, output)
    output.flush()
    output.close()

    val input = new Input(new ByteArrayInputStream(outputStream.toByteArray))
    assert(genericSer.deserializeDatum(input) === record)
  }

  test("uses schema fingerprint to decrease message size") {
    val genericSerFull = new GenericAvroSerializer(conf.getAvroSchema)

    val output = new Output(new ByteArrayOutputStream())

    val beginningNormalPosition = output.total()
    genericSerFull.serializeDatum(record, output)
    output.flush()
    val normalLength = output.total - beginningNormalPosition

    conf.registerAvroSchemas(schema)
    val genericSerFinger = new GenericAvroSerializer(conf.getAvroSchema)
    val beginningFingerprintPosition = output.total()
    genericSerFinger.serializeDatum(record, output)
    val fingerprintLength = output.total - beginningFingerprintPosition

    assert(fingerprintLength < normalLength)
  }

  test("caches previously seen schemas") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    val compressedSchema = genericSer.compress(schema)
    val decompressedSchema = genericSer.decompress(ByteBuffer.wrap(compressedSchema))

    assert(compressedSchema.eq(genericSer.compress(schema)))
    assert(decompressedSchema.eq(genericSer.decompress(ByteBuffer.wrap(compressedSchema))))
  }
} 

package org.apache.spark.serializer

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.nio.ByteBuffer

import com.esotericsoftware.kryo.io.{Output, Input}
import org.apache.avro.{SchemaBuilder, Schema}
import org.apache.avro.generic.GenericData.Record

import org.apache.spark.{SparkFunSuite, SharedSparkContext}

class GenericAvroSerializerSuite extends SparkFunSuite with SharedSparkContext {
  conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer")

  val schema : Schema = SchemaBuilder
    .record("testRecord").fields()
    .requiredString("data")
    .endRecord()
  val record = new Record(schema)
  record.put("data", "test data")

  test("schema compression and decompression") {//模式压缩与解压缩
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    assert(schema === genericSer.decompress(ByteBuffer.wrap(genericSer.compress(schema))))
  }

  test("record serialization and deserialization") {//记录序列化和反序列化
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)

    val outputStream = new ByteArrayOutputStream()
    val output = new Output(outputStream)
    genericSer.serializeDatum(record, output)
    output.flush()
    output.close()

    val input = new Input(new ByteArrayInputStream(outputStream.toByteArray))
    assert(genericSer.deserializeDatum(input) === record)
  }
  //使用模式指纹以减少信息大小
  test("uses schema fingerprint to decrease message size") {
    val genericSerFull = new GenericAvroSerializer(conf.getAvroSchema)

    val output = new Output(new ByteArrayOutputStream())

    val beginningNormalPosition = output.total()
    genericSerFull.serializeDatum(record, output)
    output.flush()
    val normalLength = output.total - beginningNormalPosition

    conf.registerAvroSchemas(schema)
    val genericSerFinger = new GenericAvroSerializer(conf.getAvroSchema)
    val beginningFingerprintPosition = output.total()
    genericSerFinger.serializeDatum(record, output)
    val fingerprintLength = output.total - beginningFingerprintPosition

    assert(fingerprintLength < normalLength)
  }

  test("caches previously seen schemas") {//缓存之前模式
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    val compressedSchema = genericSer.compress(schema)
    val decompressedScheam = genericSer.decompress(ByteBuffer.wrap(compressedSchema))

    assert(compressedSchema.eq(genericSer.compress(schema)))
    assert(decompressedScheam.eq(genericSer.decompress(ByteBuffer.wrap(compressedSchema))))
  }
} 

package org.apache.spark.serializer

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.nio.ByteBuffer

import com.esotericsoftware.kryo.io.{Input, Output}
import org.apache.avro.{Schema, SchemaBuilder}
import org.apache.avro.generic.GenericData.Record

import org.apache.spark.{SharedSparkContext, SparkFunSuite}

class GenericAvroSerializerSuite extends SparkFunSuite with SharedSparkContext {
  conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer")

  val schema : Schema = SchemaBuilder
    .record("testRecord").fields()
    .requiredString("data")
    .endRecord()
  val record = new Record(schema)
  record.put("data", "test data")

  test("schema compression and decompression") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    assert(schema === genericSer.decompress(ByteBuffer.wrap(genericSer.compress(schema))))
  }

  test("record serialization and deserialization") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)

    val outputStream = new ByteArrayOutputStream()
    val output = new Output(outputStream)
    genericSer.serializeDatum(record, output)
    output.flush()
    output.close()

    val input = new Input(new ByteArrayInputStream(outputStream.toByteArray))
    assert(genericSer.deserializeDatum(input) === record)
  }

  test("uses schema fingerprint to decrease message size") {
    val genericSerFull = new GenericAvroSerializer(conf.getAvroSchema)

    val output = new Output(new ByteArrayOutputStream())

    val beginningNormalPosition = output.total()
    genericSerFull.serializeDatum(record, output)
    output.flush()
    val normalLength = output.total - beginningNormalPosition

    conf.registerAvroSchemas(schema)
    val genericSerFinger = new GenericAvroSerializer(conf.getAvroSchema)
    val beginningFingerprintPosition = output.total()
    genericSerFinger.serializeDatum(record, output)
    val fingerprintLength = output.total - beginningFingerprintPosition

    assert(fingerprintLength < normalLength)
  }

  test("caches previously seen schemas") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    val compressedSchema = genericSer.compress(schema)
    val decompressedSchema = genericSer.decompress(ByteBuffer.wrap(compressedSchema))

    assert(compressedSchema.eq(genericSer.compress(schema)))
    assert(decompressedSchema.eq(genericSer.decompress(ByteBuffer.wrap(compressedSchema))))
  }
} 

package org.apache.spark.sql.execution

import java.nio.ByteBuffer
import java.util.{HashMap => JavaHashMap}

import scala.reflect.ClassTag
import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import com.twitter.chill.ResourcePool
import org.apache.spark.serializer.{KryoSerializer, SerializerInstance}
import org.apache.spark.sql.types.{Decimal, StructField, StructType}
import org.apache.spark.util.MutablePair
import org.apache.spark.{SparkConf, SparkEnv}


//private[sql]
class SparkSqlSerializer(conf: SparkConf) extends KryoSerializer(conf) {
  override def newKryo(): Kryo = {
    val kryo = super.newKryo()
    kryo.setRegistrationRequired(false)
    kryo.register(classOf[MutablePair[_, _]])
    kryo.register(classOf[org.apache.spark.sql.catalyst.expressions.GenericRow])
    kryo.register(classOf[org.apache.spark.sql.catalyst.expressions.GenericInternalRow])
    kryo.register(classOf[org.apache.spark.sql.catalyst.expressions.GenericMutableRow])
    kryo.register(classOf[java.math.BigDecimal], new JavaBigDecimalSerializer)
    kryo.register(classOf[BigDecimal], new ScalaBigDecimalSerializer)

    kryo.register(classOf[Decimal])
    kryo.register(classOf[JavaHashMap[_, _]])

    // APS
    kryo.register(classOf[StructType])
    kryo.register(classOf[StructField])

    kryo.setReferences(false)
    kryo
  }
}

private[execution] class KryoResourcePool(size: Int)
  extends ResourcePool[SerializerInstance](size) {

  val ser: SparkSqlSerializer = {
    val sparkConf = Option(SparkEnv.get).map(_.conf).getOrElse(new SparkConf())
    new SparkSqlSerializer(sparkConf)
  }

  def newInstance(): SerializerInstance = ser.newInstance()
}

//private[sql]
object SparkSqlSerializer {
  @transient lazy val resourcePool = new KryoResourcePool(30)

  private[this] def acquireRelease[O](fn: SerializerInstance => O): O = {
    val kryo = resourcePool.borrow
    try {
      fn(kryo)
    } finally {
      resourcePool.release(kryo)
    }
  }

  def serialize[T: ClassTag](o: T): Array[Byte] =
    acquireRelease { k =>
      k.serialize(o).array()
    }

  def deserialize[T: ClassTag](bytes: Array[Byte]): T =
    acquireRelease { k =>
      k.deserialize[T](ByteBuffer.wrap(bytes))
    }
}

private[sql] class JavaBigDecimalSerializer extends Serializer[java.math.BigDecimal] {
  def write(kryo: Kryo, output: Output, bd: java.math.BigDecimal) {
    // TODO: There are probably more efficient representations than strings...
    output.writeString(bd.toString)
  }

  def read(kryo: Kryo, input: Input, tpe: Class[java.math.BigDecimal]): java.math.BigDecimal = {
    new java.math.BigDecimal(input.readString())
  }
}

private[sql] class ScalaBigDecimalSerializer extends Serializer[BigDecimal] {
  def write(kryo: Kryo, output: Output, bd: BigDecimal) {
    // TODO: There are probably more efficient representations than strings...
    output.writeString(bd.toString)
  }

  def read(kryo: Kryo, input: Input, tpe: Class[BigDecimal]): BigDecimal = {
    new java.math.BigDecimal(input.readString())
  }
} 

package org.apache.spark.serializer

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.nio.ByteBuffer

import com.esotericsoftware.kryo.io.{Output, Input}
import org.apache.avro.{SchemaBuilder, Schema}
import org.apache.avro.generic.GenericData.Record

import org.apache.spark.{SparkFunSuite, SharedSparkContext}

class GenericAvroSerializerSuite extends SparkFunSuite with SharedSparkContext {
  conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer")

  val schema : Schema = SchemaBuilder
    .record("testRecord").fields()
    .requiredString("data")
    .endRecord()
  val record = new Record(schema)
  record.put("data", "test data")

  test("schema compression and decompression") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    assert(schema === genericSer.decompress(ByteBuffer.wrap(genericSer.compress(schema))))
  }

  test("record serialization and deserialization") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)

    val outputStream = new ByteArrayOutputStream()
    val output = new Output(outputStream)
    genericSer.serializeDatum(record, output)
    output.flush()
    output.close()

    val input = new Input(new ByteArrayInputStream(outputStream.toByteArray))
    assert(genericSer.deserializeDatum(input) === record)
  }

  test("uses schema fingerprint to decrease message size") {
    val genericSerFull = new GenericAvroSerializer(conf.getAvroSchema)

    val output = new Output(new ByteArrayOutputStream())

    val beginningNormalPosition = output.total()
    genericSerFull.serializeDatum(record, output)
    output.flush()
    val normalLength = output.total - beginningNormalPosition

    conf.registerAvroSchemas(schema)
    val genericSerFinger = new GenericAvroSerializer(conf.getAvroSchema)
    val beginningFingerprintPosition = output.total()
    genericSerFinger.serializeDatum(record, output)
    val fingerprintLength = output.total - beginningFingerprintPosition

    assert(fingerprintLength < normalLength)
  }

  test("caches previously seen schemas") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    val compressedSchema = genericSer.compress(schema)
    val decompressedSchema = genericSer.decompress(ByteBuffer.wrap(compressedSchema))

    assert(compressedSchema.eq(genericSer.compress(schema)))
    assert(decompressedSchema.eq(genericSer.decompress(ByteBuffer.wrap(compressedSchema))))
  }
} 

package com.github.nearbydelta.deepspark.network

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.github.nearbydelta.deepspark.data._
import com.github.nearbydelta.deepspark.layer.InputLayer
import org.apache.spark.SparkContext
import org.apache.spark.rdd.RDD

import scala.collection.mutable.ArrayBuffer
import scala.collection.parallel.ParSeq


class GeneralNetwork[In, Out](var inputLayer: InputLayer[In, _]) extends Network[In, Out] {
  @deprecated(message = "This is for kryo deserialization. Please use this(inputlayer)")
  def this() = this(null)

  override def NOut: Int =
    layerSeq.lastOption match {
      case Some(x) ⇒ x.NOut
      case None if inputLayer != null ⇒ inputLayer.NOut
      case None ⇒ 0
    }

  override def backward(error: ParSeq[DataVec]): ArrayBuffer[() ⇒ Unit] = {
    val (upper, fseq) = backwardSeq(error)
    val (x, f) = inputLayer backward upper
    fseq ++= f.seq
    fseq
  }

  override def broadcast(sc: SparkContext): Unit = {
    inputLayer.broadcast(sc)
    super.broadcast(sc)
  }

  override def forward(in: In) = {
    val out = inputLayer.forward(in)
    forwardSingle(out)
  }

  override def forward(in: ParSeq[In]): ParSeq[DataVec] = {
    val out = inputLayer.forward(in)
    forwardSeq(out)
  }

  override def forward(in: RDD[(Long, In)]): RDD[(Long, DataVec)] = {
    val out = inputLayer.forward(in)
    broadcast(in.context)
    forwardRDD(out)
  }

  override def initiateBy(builder: WeightBuilder): this.type = {
    inputLayer.initiateBy(builder)
    super.initiateBy(builder)
    this
  }

  override def loss: Double = super.loss + inputLayer.loss

  override def read(kryo: Kryo, input: Input): Unit = {
    inputLayer = kryo.readClassAndObject(input).asInstanceOf[InputLayer[In, _]]
    super.read(kryo, input)
  }

  override def setUpdatable(bool: Boolean): Network[In, Out] = {
    inputLayer.setUpdatable(bool)
    super.setUpdatable(bool)
  }

  override def unbroadcast(): Unit = {
    inputLayer.unbroadcast()
    super.unbroadcast()
  }

  override def write(kryo: Kryo, output: Output): Unit = {
    kryo.writeClassAndObject(output, inputLayer)
    super.write(kryo, output)
  }
} 

package com.github.nearbydelta.deepspark.word.layer

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.github.nearbydelta.deepspark.data._
import com.github.nearbydelta.deepspark.layer.InputLayer
import com.github.nearbydelta.deepspark.word._
import org.apache.spark.SparkContext
import org.apache.spark.broadcast.Broadcast

import scala.collection.parallel.ParSeq
import scala.reflect.{ClassTag, classTag}


trait FixedLedger[OutInfo] extends InputLayer[Array[Int], OutInfo] {
  @transient implicit override protected val evidenceI: ClassTag[Array[Int]] = classTag[Array[Int]]
  var bcModel: Broadcast[LedgerModel] = _
  @transient var model: LedgerModel = _
  protected var padID = -1

  def withModel(model: LedgerModel): this.type = {
    this.model = model
    this.padID = model.padID
    this
  }

  protected def pad =
    if (padID == -1) null
    else if (bcModel != null) vectorOf(bcModel.value.padID)
    else vectorOf(padID)

  protected def vectorOf(str: Int) =
    if (bcModel != null) bcModel.value.vectorAt(str)
    else model.vectorAt(str)

  override def backprop(seq: ParSeq[((Array[Int], OutInfo), DataVec)]): (ParSeq[DataVec], ParSeq[() ⇒ Unit]) =
    (null, ParSeq())

  override def broadcast(sc: SparkContext): Unit = {
    bcModel = sc.broadcast(model)
  }

  override def loss: Double = 0.0

  override def read(kryo: Kryo, input: Input): Unit = {
    val model = new LedgerModel
    model.read(kryo, input)
    withModel(model)
    super.read(kryo, input)
  }

  override def unbroadcast(): Unit = {
    bcModel.unpersist(blocking = false)
  }

  @deprecated
  override def withInput(in: Int): this.type = this

  @deprecated
  override def withOutput(out: Int): this.type = this

  override def write(kryo: Kryo, output: Output): Unit = {
    model.write(kryo, output)
    super.write(kryo, output)
  }
} 

package com.github.nearbydelta.deepspark.word.layer

import breeze.linalg.DenseVector
import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.github.nearbydelta.deepspark.data._
import com.github.nearbydelta.deepspark.layer.InputLayer
import com.github.nearbydelta.deepspark.word._
import org.apache.spark.SparkContext
import org.apache.spark.broadcast.Broadcast

import scala.reflect.{ClassTag, classTag}


trait Ledger[OutInfo] extends InputLayer[Array[Int], OutInfo] {
  @transient implicit override protected val evidenceI: ClassTag[Array[Int]] = classTag[Array[Int]]
  @transient var algorithm: LedgerAlgorithm = _
  var bcModel: Broadcast[LedgerModel] = _
  @transient var builder: LedgerBuilder = _
  var dimension: Int = 0
  @transient var model: LedgerModel = _
  protected var padID = -1

  def withModel(model: LedgerModel, builder: LedgerBuilder): this.type = {
    this.model = model
    this.builder = builder
    this.padID = model.padID
    this.dimension = model.dimension
    this.algorithm = builder.getUpdater(this.model.vectors)
    this
  }

  protected def pad =
    if (padID == -1) null
    else if (bcModel != null) vectorOf(bcModel.value.padID)
    else vectorOf(padID)

  protected def updateWord(word: Int, dx: DataVec): Unit =
    if (word != -1 && algorithm != null) {
      val vec = algorithm.delta.getOrElseUpdate(word, DenseVector.zeros[Double](dimension))
      vec += dx
    }

  protected def vectorOf(str: Int) =
    if (bcModel != null) bcModel.value.vectorAt(str)
    else model.vectorAt(str)

  override def broadcast(sc: SparkContext): Unit = {
    bcModel = sc.broadcast(model)
  }

  override def loss: Double = algorithm.loss

  override def read(kryo: Kryo, input: Input): Unit = {
    builder = kryo.readClassAndObject(input).asInstanceOf[LedgerBuilder]
    val model = new LedgerModel
    model.read(kryo, input)

    require(model.size > 0, "Model is empty!")
    withModel(model, builder)
    super.read(kryo, input)
  }

  override def unbroadcast(): Unit = {
    bcModel.unpersist(blocking = false)
  }

  @deprecated
  override def withInput(in: Int): this.type = this

  @deprecated
  override def withOutput(out: Int): this.type = this

  override def write(kryo: Kryo, output: Output): Unit = {
    kryo.writeClassAndObject(output, builder)
    model.write(kryo, output)
    super.write(kryo, output)
  }
} 

package com.github.nearbydelta.deepspark.layer

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.github.nearbydelta.deepspark.data._

import scala.collection.parallel.ParSeq


      val dGdx: DataVec = weight.value.t * dGdX

      (dGdW, dGdx)
    }.unzip

    (external, ParSeq(weight -= dW))
  }

  override def initiateBy(builder: WeightBuilder): this.type = {
    if (NIn > 0 && NOut > 0) {
      val range = act.initialize(NIn, NOut)
      builder.buildMatrix(weight, NOut, NIn, range)
    }

    this
  }

  override def loss: Double = weight.loss

  override def read(kryo: Kryo, input: Input): Unit = {
    act = kryo.readClassAndObject(input).asInstanceOf[Activation]
    weight.read(kryo, input)
    super.read(kryo, input)
  }

  override def write(kryo: Kryo, output: Output): Unit = {
    kryo.writeClassAndObject(output, act)
    weight.write(kryo, output)
    super.write(kryo, output)
  }
} 

package com.github.nearbydelta.deepspark.layer

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.github.nearbydelta.deepspark.data._

import scala.collection.parallel.ParSeq


      val dGdx: DataVec = weight.value.t * dGdX

      (dGdX, dGdW, dGdx)
    }.unzip3

    (external, ParSeq(bias -= dX, weight -= dW))
  }

  override def initiateBy(builder: WeightBuilder): this.type = {
    if (NIn > 0 && NOut > 0) {
      val range = act.initialize(NIn, NOut)
      builder.buildMatrix(weight, NOut, NIn, range)
      builder.buildVector(bias, NOut, range)
    }

    this
  }

  override def loss: Double = weight.loss + bias.loss

  override def read(kryo: Kryo, input: Input): Unit = {
    act = kryo.readClassAndObject(input).asInstanceOf[Activation]
    weight.read(kryo, input)
    bias.read(kryo, input)
    super.read(kryo, input)
  }

  override def write(kryo: Kryo, output: Output): Unit = {
    kryo.writeClassAndObject(output, act)
    weight.write(kryo, output)
    bias.write(kryo, output)
    super.write(kryo, output)
  }
} 

package ch.epfl.bluebrain.nexus.kg.serializers

import java.nio.file.Path

import com.esotericsoftware.kryo.{Kryo, Serializer}
import com.esotericsoftware.kryo.io.{Input, Output}
import io.altoo.akka.serialization.kryo.DefaultKryoInitializer
import io.altoo.akka.serialization.kryo.serializer.scala.ScalaKryo

class PathSerializer extends Serializer[Path] {

  override def write(kryo: Kryo, output: Output, path: Path): Unit =
    output.writeString(path.toString)

  override def read(kryo: Kryo, input: Input, `type`: Class[Path]): Path =
    Path.of(input.readString())
}

class KryoSerializerInit extends DefaultKryoInitializer {

  override def postInit(kryo: ScalaKryo): Unit = {
    super.postInit(kryo)
    kryo.addDefaultSerializer(classOf[Path], classOf[PathSerializer])
    kryo.register(classOf[Path], new PathSerializer)
    ()
  }
} 

package com.truecar.mleap.spark.benchmark.util

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.ScalaKryoInstantiator


object SparkSerializer {
  def apply(): SparkSerializer = {
    val kryoInstantiator = new ScalaKryoInstantiator()
    kryoInstantiator.setRegistrationRequired(false)
    val kryo = kryoInstantiator.newKryo()
    kryo.setClassLoader(Thread.currentThread.getContextClassLoader)

    SparkSerializer(kryo)
  }
}

case class SparkSerializer(kryo: Kryo) {
  def write[T](obj: T, output: Output) = {
    kryo.writeClassAndObject(output, obj)
  }

  def read[T](input: Input): T = {
    kryo.readClassAndObject(input).asInstanceOf[T]
  }
} 

package org.allenai.ike

import org.allenai.ike.patterns.NamedPattern

import com.esotericsoftware.kryo.io.{ Input, Output }
import com.esotericsoftware.kryo.{ Kryo, Serializer }
import org.apache.spark.serializer.KryoRegistrator


class IkeKryoRegistrator extends KryoRegistrator {
  override def registerClasses(kryo: Kryo): Unit = {
    OptionSerializers.register(kryo)
    kryo.register(Class.forName("scala.collection.immutable.Nil$"))

    val classes: Array[Class[_]] = Array(
      classOf[BlackLabResult],
      classOf[Interval],
      classOf[WordData],
      classOf[java.time.Instant],
      classOf[java.time.LocalDate],
      classOf[java.time.Year]
    )

    classes.foreach(kryo.register)
  }
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, InputChunked, Output, OutputChunked}
import com.twitter.chill.KSerializer

import scala.jdk.CollectionConverters._
import scala.collection.mutable
import scala.collection.compat._


private[coders] class JTraversableSerializer[T, C <: Traversable[T]](
  val bufferSize: Int = 64 * 1024
)(implicit cbf: Factory[T, C])
    extends KSerializer[C] {
  override def write(kser: Kryo, out: Output, obj: C): Unit = {
    val i = obj.iterator
    val chunked = new OutputChunked(out, bufferSize)
    while (i.hasNext) {
      chunked.writeBoolean(true)
      kser.writeClassAndObject(chunked, i.next())
    }
    chunked.writeBoolean(false)
    chunked.endChunks()
    chunked.flush()
  }

  override def read(kser: Kryo, in: Input, cls: Class[C]): C = {
    val b = cbf.newBuilder
    val chunked = new InputChunked(in, bufferSize)
    while (chunked.readBoolean()) {
      b += kser.readClassAndObject(chunked).asInstanceOf[T]
    }
    b.result()
  }
}

// workaround for Java Iterable/Collection missing proper equality check
abstract private[coders] class JWrapperCBF[T] extends Factory[T, Iterable[T]] {
  def asScala(xs: java.util.List[T]): Iterable[T]

  class JIterableWrapperBuilder extends mutable.Builder[T, Iterable[T]] {
    private val xs = new java.util.ArrayList[T]()

    override def addOne(elem: T): this.type = {
      xs.add(elem)
      this
    }

    override def clear(): Unit = xs.clear()
    override def result(): Iterable[T] = asScala(xs)
  }

  override def fromSpecific(it: IterableOnce[T]): Iterable[T] = {
    val b = new JIterableWrapperBuilder
    it.foreach(b += _)
    b.result()
  }

  override def newBuilder: mutable.Builder[T, Iterable[T]] = new JIterableWrapperBuilder
}

private[coders] class JIterableWrapperCBF[T] extends JWrapperCBF[T] {
  override def asScala(xs: java.util.List[T]): Iterable[T] =
    xs.asInstanceOf[java.lang.Iterable[T]].asScala
}

private[coders] class JCollectionWrapperCBF[T] extends JWrapperCBF[T] {
  override def asScala(xs: java.util.List[T]): Iterable[T] =
    xs.asInstanceOf[java.util.Collection[T]].asScala
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import org.joda.time.{DateTime, DateTimeZone, LocalDate, LocalDateTime, LocalTime}
import org.joda.time.chrono.ISOChronology

private[coders] class JodaLocalDateTimeSerializer extends Serializer[LocalDateTime] {
  setImmutable(true)

  def write(kryo: Kryo, output: Output, ldt: LocalDateTime): Unit = {
    output.writeInt(ldt.getYear,  false)
    val month = input.readByte().toInt
    val day = input.readByte().toInt

    new LocalDate(year, month, day)
  }
}

private[coders] class JodaDateTimeSerializer extends Serializer[DateTime] {
  setImmutable(true)

  def write(kryo: Kryo, output: Output, dt: DateTime): Unit = {
    output.writeLong(dt.getMillis)
    output.writeString(dt.getZone.getID)
  }

  def read(kryo: Kryo, input: Input, tpe: Class[DateTime]): DateTime = {
    val millis = input.readLong()
    val zone = DateTimeZone.forID(input.readString())
    new DateTime(millis, zone)
  }
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.google.protobuf.ByteString
import com.twitter.chill.KSerializer

private[coders] class ByteStringSerializer extends KSerializer[ByteString] {
  override def read(kryo: Kryo, input: Input, tpe: Class[ByteString]): ByteString = {
    val n = input.readInt()
    ByteString.copyFrom(input.readBytes(n))
  }

  override def write(kryo: Kryo, output: Output, byteStr: ByteString): Unit = {
    val len = byteStr.size
    output.writeInt(len)
    val bytes = byteStr.iterator
    while (bytes.hasNext) {
      output.write(bytes.nextByte())
    }
  }
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.KSerializer
import org.apache.avro.Schema
import org.apache.avro.generic.GenericRecord
import org.apache.avro.specific.SpecificRecordBase
import org.apache.beam.sdk.coders.AvroCoder

import scala.collection.mutable.{Map => MMap}
import scala.util.Try

private[coders] class GenericAvroSerializer extends KSerializer[GenericRecord] {
  private lazy val cache: MMap[String, AvroCoder[GenericRecord]] = MMap()

  private def getCoder(schemaStr: String): AvroCoder[GenericRecord] =
    cache.getOrElseUpdate(schemaStr, AvroCoder.of(new Schema.Parser().parse(schemaStr)))
  private def getCoder(schemaStr: String, schema: Schema): AvroCoder[GenericRecord] =
    cache.getOrElseUpdate(schemaStr, AvroCoder.of(schema))

  override def write(kryo: Kryo, out: Output, obj: GenericRecord): Unit = {
    val schemaStr = obj.getSchema.toString
    val coder = this.getCoder(schemaStr, obj.getSchema)
    // write schema before every record in case it's not in reader serializer's cache
    out.writeString(schemaStr)
    coder.encode(obj, out)
  }

  override def read(kryo: Kryo, in: Input, cls: Class[GenericRecord]): GenericRecord = {
    val coder = this.getCoder(in.readString())
    coder.decode(in)
  }
}

private[coders] class SpecificAvroSerializer[T <: SpecificRecordBase] extends KSerializer[T] {
  private lazy val cache: MMap[Class[T], AvroCoder[T]] = MMap()

  private def getCoder(cls: Class[T]): AvroCoder[T] =
    cache.getOrElseUpdate(
      cls,
      Try(cls.getConstructor().newInstance().getSchema)
        .map(AvroCoder.of(cls, _))
        .getOrElse(AvroCoder.of(cls))
    )

  override def write(kser: Kryo, out: Output, obj: T): Unit =
    this.getCoder(obj.getClass.asInstanceOf[Class[T]]).encode(obj, out)

  override def read(kser: Kryo, in: Input, cls: Class[T]): T =
    this.getCoder(cls).decode(in)
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.KSerializer
import org.apache.beam.sdk.values.KV

private[coders] class KVSerializer[K, V] extends KSerializer[KV[K, V]] {
  override def write(kser: Kryo, out: Output, obj: KV[K, V]): Unit = {
    kser.writeClassAndObject(out, obj.getKey)
    kser.writeClassAndObject(out, obj.getValue)
  }

  override def read(kser: Kryo, in: Input, cls: Class[KV[K, V]]): KV[K, V] = {
    val k = kser.readClassAndObject(in).asInstanceOf[K]
    val v = kser.readClassAndObject(in).asInstanceOf[V]
    KV.of(k, v)
  }
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.KSerializer
import io.grpc.{Metadata, Status, StatusRuntimeException}

private[coders] object GrpcSerializers {

  class StatusSerializer extends KSerializer[Status] {
    override def write(kryo: Kryo, output: Output, status: Status): Unit = {
      output.writeInt(status.getCode().value())
      output.writeString(status.getDescription)
      kryo.writeClassAndObject(output, status.getCause)
    }

    override def read(kryo: Kryo, input: Input, `type`: Class[Status]): Status = {
      val code = input.readInt()
      val description = input.readString()
      val cause = kryo.readClassAndObject(input).asInstanceOf[Throwable]

      Status
        .fromCodeValue(code)
        .withDescription(description)
        .withCause(cause)
    }
  }

  class StatusRuntimeExceptionSerializer extends KSerializer[StatusRuntimeException] {
    lazy val statusSer = new StatusSerializer()

    override def write(kryo: Kryo, output: Output, e: StatusRuntimeException): Unit = {
      kryo.writeObject(output, e.getStatus, statusSer)
      kryo.writeObjectOrNull(output, e.getTrailers, classOf[Metadata])
    }

    override def read(
      kryo: Kryo,
      input: Input,
      `type`: Class[StatusRuntimeException]
    ): StatusRuntimeException = {
      val status = kryo.readObject(input, classOf[Status], statusSer)
      val trailers = kryo.readObjectOrNull(input, classOf[Metadata])

      new StatusRuntimeException(status, trailers)
    }
  }
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, InputChunked, Output, OutputChunked}
import com.twitter.chill.KSerializer

import scala.jdk.CollectionConverters._
import scala.collection.generic.CanBuildFrom
import scala.collection.mutable


private[coders] class JTraversableSerializer[T, C <: Traversable[T]](
  val bufferSize: Int = 64 * 1024
)(implicit cbf: CanBuildFrom[C, T, C])
    extends KSerializer[C] {
  override def write(kser: Kryo, out: Output, obj: C): Unit = {
    val i = obj.toIterator
    val chunked = new OutputChunked(out, bufferSize)
    while (i.hasNext) {
      chunked.writeBoolean(true)
      kser.writeClassAndObject(chunked, i.next())
    }
    chunked.writeBoolean(false)
    chunked.endChunks()
    chunked.flush()
  }

  override def read(kser: Kryo, in: Input, cls: Class[C]): C = {
    val b = cbf()
    val chunked = new InputChunked(in, bufferSize)
    while (chunked.readBoolean()) {
      b += kser.readClassAndObject(chunked).asInstanceOf[T]
    }
    b.result()
  }
}

// workaround for Java Iterable/Collection missing proper equality check
abstract private[coders] class JWrapperCBF[T] extends CanBuildFrom[Iterable[T], T, Iterable[T]] {
  override def apply(from: Iterable[T]): mutable.Builder[T, Iterable[T]] = {
    val b = new JIterableWrapperBuilder
    from.foreach(b += _)
    b
  }
  override def apply(): mutable.Builder[T, Iterable[T]] =
    new JIterableWrapperBuilder
  def asScala(xs: java.util.List[T]): Iterable[T]

  class JIterableWrapperBuilder extends mutable.Builder[T, Iterable[T]] {
    private val xs = new java.util.ArrayList[T]()

    override def +=(elem: T): this.type = {
      xs.add(elem)
      this
    }

    override def clear(): Unit = xs.clear()
    override def result(): Iterable[T] = asScala(xs)
  }
}

private[coders] class JIterableWrapperCBF[T] extends JWrapperCBF[T] {
  override def asScala(xs: java.util.List[T]): Iterable[T] =
    xs.asInstanceOf[java.lang.Iterable[T]].asScala
}

private[coders] class JCollectionWrapperCBF[T] extends JWrapperCBF[T] {
  override def asScala(xs: java.util.List[T]): Iterable[T] =
    xs.asInstanceOf[java.util.Collection[T]].asScala
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.{Kryo, KryoSerializer}
import org.scalatest.flatspec.AnyFlatSpec
import org.scalatest.matchers.should.Matchers

import scala.reflect.ClassTag

class JTraversableSerializerTest extends AnyFlatSpec with Matchers {
  private def testRoundTrip[T: ClassTag, C <: Iterable[T]](
    ser: JTraversableSerializer[T, C],
    elems: C
  ): Unit = {
    val k: Kryo = KryoSerializer.registered.newKryo()
    val bufferSize: Int = 1024
    val o = new Array[Byte](bufferSize)
    ser.write(k, new Output(o), elems)
    val back = ser.read(k, new Input(o), null)
    elems.size shouldBe back.size
    (elems: Iterable[T]) should contain theSameElementsAs back
    ()
  }

  "JIterableWrapperSerializer" should "cope with the internal buffer overflow" in {
    val ser = new JTraversableSerializer[String, Seq[String]](128)
    val input = List.fill(100)("foo")
    testRoundTrip(ser, input)
  }

  it should "be able to serialize a object larger than capacity of the internal buffer" in {
    val ser = new JTraversableSerializer[String, Seq[String]](1)
    val input = Seq("o" * 3)
    testRoundTrip(ser, input)
  }
} 

package com.spotify.scio.coders.instances.kryo

import com.esotericsoftware.kryo.io.{Input, Output}
import com.google.protobuf.ByteString
import com.twitter.chill.{Kryo, KryoSerializer}
import org.scalatest.flatspec.AnyFlatSpec
import org.scalatest.matchers.should.Matchers

class ByteStringSerializerTest extends AnyFlatSpec with Matchers {
  private def testRoundTrip(ser: ByteStringSerializer, bs: ByteString): Unit = {
    val k: Kryo = KryoSerializer.registered.newKryo()
    val o = new Array[Byte](bs.size() * 2)
    ser.write(k, new Output(o), bs)
    val back = ser.read(k, new Input(o), null)
    bs shouldEqual back
    ()
  }

  "ByteStringSerializer" should "roundtrip large ByteString" in {
    val ser = new ByteStringSerializer
    testRoundTrip(ser, ByteString.copyFrom(Array.fill(1056)(7.toByte)))
  }
} 

package org.apache.spark.sql.simba

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.Input
import com.esotericsoftware.kryo.io.Output
import java.io._

import org.apache.spark.sql.simba.spatial._
import org.apache.spark.sql.simba.util.KryoShapeSerializer


object ShapeSerializer {
  private[simba] val kryo = new Kryo()

  kryo.register(classOf[Shape], new KryoShapeSerializer)
  kryo.register(classOf[Point], new KryoShapeSerializer)
  kryo.register(classOf[MBR], new KryoShapeSerializer)
  kryo.register(classOf[Polygon], new KryoShapeSerializer)
  kryo.register(classOf[Circle], new KryoShapeSerializer)
  kryo.register(classOf[LineSegment], new KryoShapeSerializer)
  kryo.addDefaultSerializer(classOf[Shape], new KryoShapeSerializer)
  kryo.setReferences(false)

  def deserialize(data: Array[Byte]): Shape = {
    val in = new ByteArrayInputStream(data)
    val input = new Input(in)
    val res = kryo.readObject(input, classOf[Shape])
    input.close()
    res
  }

  def serialize(o: Shape): Array[Byte] = {
    val out = new ByteArrayOutputStream()
    val output = new Output(out)
    kryo.writeObject(output, o)
    output.close()
    out.toByteArray
  }
}

class ShapeSerializer {

} 

package org.hammerlab.bam.check.full.error

import com.esotericsoftware.kryo.io.{ Input, Output }
import com.esotericsoftware.kryo.{ Kryo, Serializer }

import scala.collection.immutable.BitSet


class FlagsSerializer
  extends Serializer[Flags] {
  override def read(kryo: Kryo, input: Input, clz: Class[Flags]): Flags = {
    kryo
      .readClassAndObject(input)
      .asInstanceOf[(BitSet, Int)]
  }

  override def write(kryo: Kryo, output: Output, flags: Flags): Unit =
    kryo.writeClassAndObject(output, flags: (BitSet, Int))
} 

package com.esri

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, KryoSerializable}
import com.vividsolutions.jts.geom.Geometry


case class FeaturePoint(var geom: Geometry, var attr: Array[String]) extends Feature with KryoSerializable {

  def this() = this(null, null)

  override def toRowCols(cellSize: Double): Seq[(RowCol, FeaturePoint)] = {
    val coordinate = geom.getCoordinate
    val c = (coordinate.x / cellSize).floor.toInt
    val r = (coordinate.y / cellSize).floor.toInt
    Seq((RowCol(r, c), this))
  }

  override def write(kryo: Kryo, output: Output): Unit = {
    val coordinate = geom.getCoordinate
    output.writeDouble(coordinate.x)
    output.writeDouble(coordinate.y)
    output.writeInt(attr.length)
    attr.foreach(output.writeString)
  }

  override def read(kryo: Kryo, input: Input): Unit = {
    val x = input.readDouble()
    val y = input.readDouble()
    geom = GeomFact.createPoint(x, y)
    val len = input.readInt()
    attr = Array.ofDim[String](len)
    for (i <- 0 until len)
      attr(i) = input.readString()
  }
} 

package com.esri

import java.io.ByteArrayOutputStream

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import org.geotools.geometry.jts.WKTReader2
import org.scalatest._

import scala.io.Source


class FeaturePolygonTest extends FlatSpec with Matchers {

  it should "read zero area geometry" in {
    val kryo = new Kryo()
    kryo.register(classOf[FeaturePolygon])

    val reader = new WKTReader2()
    Source
      .fromFile("/tmp/world.tsv")
      .getLines()
      .foreach(line => {
        val tokens = line.split("\t")
        val geom = reader.read(tokens(14))
        FeaturePolygon(geom, Array.empty[String])
          .toRowCols(4.0)
          .foreach {
            case (rowcol, feature) => {
              feature.geom.getGeometryType should endWith("Polygon")

              val baos = new ByteArrayOutputStream(4096)
              val output = new Output(baos)
              kryo.writeObject(output, feature)
              output.flush()

              val obj = kryo.readObject[FeaturePolygon](new Input(baos.toByteArray), classOf[FeaturePolygon])
              obj.geom.equalsExact(feature.geom, 0.000001)
            }
          }
      })
  }
} 

package justin.db.kryo

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.util.UUID

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import justin.db.Data
import justin.db.consistenthashing.NodeId
import justin.db.vectorclocks.{Counter, VectorClock}
import org.scalatest.{FlatSpec, Matchers}

class DataSerializerTest extends FlatSpec with Matchers {

  behavior of "Data Serializer"

  it should "serialize/deserialize correctly" in {
    // kryo init
    val kryo = new Kryo()
    kryo.register(classOf[justin.db.Data], DataSerializer)

    // object
    val vClock         = VectorClock[NodeId](Map(NodeId(1) -> Counter(3)))
    val timestamp      = System.currentTimeMillis()
    val serializedData = Data(id = UUID.randomUUID(), value = "some value", vClock, timestamp)

    // serialization
    val bos    = new ByteArrayOutputStream()
    val output = new Output(bos)
    val _      = kryo.writeObject(output, serializedData)
    output.flush()

    // deserialization
    val bis              = new ByteArrayInputStream(bos.toByteArray)
    val input            = new Input(bis)
    val deserializedData = kryo.readObject(input, classOf[Data])

    serializedData shouldBe deserializedData
  }
} 

package org.apache.spark.sql.matfast.util

import java.math.BigDecimal
import java.nio.ByteBuffer
import java.util.{HashMap => JavaHashMap}

import scala.reflect.ClassTag

import com.esotericsoftware.kryo.{Kryo, Serializer}
import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.ResourcePool

import org.apache.spark.{SparkConf, SparkEnv}
import org.apache.spark.serializer.{KryoSerializer, SerializerInstance}
import org.apache.spark.sql.matfast.matrix._
import org.apache.spark.sql.types.Decimal
import org.apache.spark.util.MutablePair


private[matfast] class MatfastSerializer(conf: SparkConf) extends KryoSerializer(conf) {
  override def newKryo(): Kryo = {
    val kryo = super.newKryo()
    kryo.setRegistrationRequired(false)
    kryo.register(classOf[MutablePair[_, _]])
    kryo.register(classOf[org.apache.spark.sql.catalyst.expressions.GenericRow])
    kryo.register(classOf[org.apache.spark.sql.catalyst.expressions.GenericInternalRow])
    kryo.register(classOf[java.math.BigDecimal], new JavaBigDecimalSerializer)
    kryo.register(classOf[BigDecimal], new ScalaBigDecimalSerializer)

    kryo.register(classOf[Decimal])
    kryo.register(classOf[JavaHashMap[_, _]])
    kryo.register(classOf[DenseMatrix])
    kryo.register(classOf[SparseMatrix])

    kryo.setReferences(false)
    kryo
  }
}

private[matfast] class KryoResourcePool(size: Int) extends ResourcePool[SerializerInstance](size) {
  val ser: MatfastSerializer = {
    val sparkConf = Option(SparkEnv.get).map(_.conf).getOrElse(new SparkConf())
    new MatfastSerializer(sparkConf)
  }

  def newInstance(): SerializerInstance = ser.newInstance()
}

private[matfast] object MatfastSerializer {
  @transient lazy val resourcePool = new KryoResourcePool(50)

  private[this] def acquireRelease[O](fn: SerializerInstance => O): O = {
    val kryo = resourcePool.borrow()
    try {
      fn(kryo)
    } finally {
      resourcePool.release(kryo)
    }
  }

  def serialize[T: ClassTag](o: T): Array[Byte] = {
    acquireRelease { k =>
      k.serialize(o).array()
    }
  }

  def deserialize[T: ClassTag](bytes: Array[Byte]): T =
    acquireRelease { k =>
      k.deserialize[T](ByteBuffer.wrap(bytes))
    }
}

private[matfast] class JavaBigDecimalSerializer extends Serializer[java.math.BigDecimal] {
  def write(kryo: Kryo, output: Output, bd: java.math.BigDecimal) {
    output.writeString(bd.toString)
  }

  def read(kryo: Kryo, input: Input, tpe: Class[java.math.BigDecimal]): java.math.BigDecimal = {
    new java.math.BigDecimal(input.readString())
  }
}

private[matfast] class ScalaBigDecimalSerializer extends Serializer[BigDecimal] {
  def write(kryo: Kryo, output: Output, bd: BigDecimal): Unit = {
    output.writeString(bd.toString)
  }

  def read(kryo: Kryo, input: Input, tpe: Class[BigDecimal]): BigDecimal = {
    new java.math.BigDecimal(input.readString())
  }
} 

package org.apache.spark.sql.matfast.util

import com.esotericsoftware.kryo.{Kryo, Serializer}
import com.esotericsoftware.kryo.io.{Input, Output}

import org.apache.spark.sql.matfast.matrix._

class KryoMLMatrixSerializer extends Serializer[MLMatrix]{

  private def getTypeInt(m: MLMatrix): Short = m match {
    case _: SparseMatrix => 0
    case _: DenseMatrix => 1
    case _ => -1
  }

   override def write(kryo: Kryo, output: Output, matrix: MLMatrix) {
    output.writeShort(getTypeInt(matrix))
    matrix match {
      case dense: DenseMatrix =>
        output.writeInt(dense.numRows, true)
        output.writeInt(dense.numCols, true)
        output.writeInt(dense.values.length, true)
        dense.values.foreach(output.writeDouble)
        output.writeBoolean(dense.isTransposed)
      case sp: SparseMatrix =>
        output.writeInt(sp.numRows, true)
        output.writeInt(sp.numCols, true)
        output.writeInt(sp.colPtrs.length, true)
        sp.colPtrs.foreach(x => output.writeInt(x, true))
        output.writeInt(sp.rowIndices.length, true)
        sp.rowIndices.foreach(x => output.writeInt(x, true))
        output.writeInt(sp.values.length, true)
        sp.values.foreach(output.writeDouble)
        output.writeBoolean(sp.isTransposed)
    }
  }

  override def read(kryo: Kryo, input: Input, typ: Class[MLMatrix]): MLMatrix = {
    val typInt = input.readShort()
    if (typInt == 1) { // DenseMatrix
      val numRows = input.readInt(true)
      val numCols = input.readInt(true)
      val dim = input.readInt(true)
      val values = Array.ofDim[Double](dim)
      for (i <- 0 until dim) values(i) = input.readDouble()
      val isTransposed = input.readBoolean()
      new DenseMatrix(numRows, numCols, values, isTransposed)
    } else if (typInt == 0) { // SparseMatrix
      val numRows = input.readInt(true)
      val numCols = input.readInt(true)
      val colPtrsDim = input.readInt(true)
      val colPtrs = Array.ofDim[Int](colPtrsDim)
      for (i <- 0 until colPtrsDim) colPtrs(i) = input.readInt(true)
      val rowIndicesDim = input.readInt(true)
      val rowIndices = Array.ofDim[Int](rowIndicesDim)
      for (i <- 0 until rowIndicesDim) rowIndices(i) = input.readInt(true)
      val valueDim = input.readInt(true)
      val values = Array.ofDim[Double](valueDim)
      for (i <- 0 until valueDim) values(i) = input.readDouble()
      val isTransposed = input.readBoolean()
      new SparseMatrix(numRows, numCols, colPtrs, rowIndices, values, isTransposed)
    } else null
  }
} 

package org.dbpedia.spotlight.db.memory

import java.util.{HashMap, Map}

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, KryoException, KryoSerializable}
import org.apache.commons.lang.NotImplementedException
import org.dbpedia.spotlight.db.model.{ContextStore, TokenTypeStore}
import org.dbpedia.spotlight.model.{DBpediaResource, TokenType}



  def calculateTotalTokenCounts(){
    var i = 0
    while(i < counts.size){

      if (counts(i).isInstanceOf[Array[Short]]){
        var j = 0

        while(j < counts(i).size ){
          totalTokenCounts(i) += qc(counts(i)(j))
          j += 1
        }

      }
      i += 1
    }
  }


  def read(kryo: Kryo, input: Input) {
    val size = input.readInt()

    tokens = new Array[Array[Int]](size)
    counts = new Array[Array[Short]](size)
    totalTokenCounts = new Array[Int](size)

    var i = 0
    var j = 0

    while(i < size) {
      val subsize = input.readInt()

      if (subsize > 0) {
        tokens(i) = new Array[Int](subsize)
        counts(i) = new Array[Short](subsize)

        j = 0
        while(j < subsize) {
          tokens(i)(j) = input.readInt()
          j += 1
        }

        j = 0
        while(j < subsize) {
          counts(i)(j) = input.readShort()
          j += 1
        }
     }

     i += 1
   }

   if(input.readChar() != '#')
     throw new KryoException("Error in deserializing context store...")

  }

} 

package hydra.core.akka

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.romix.scala.serialization.kryo.{
  EnumerationSerializer,
  ScalaImmutableAbstractMapSerializer,
  ScalaMutableMapSerializer
}
import org.scalatest.matchers.should.Matchers
import org.scalatest.flatspec.AnyFlatSpecLike

class KryoInitSpec extends Matchers with AnyFlatSpecLike {

  "The custom KryoInit" should "register serializers" in {
    val kryo = new Kryo()
    new KryoInit().customize(kryo)
    kryo.getDefaultSerializer(classOf[scala.Enumeration#Value]) shouldBe an[
      EnumerationSerializer
    ]
    kryo.getDefaultSerializer(classOf[collection.immutable.Map[_, _]]) shouldBe a[
      ScalaImmutableAbstractMapSerializer
    ]
    kryo.getDefaultSerializer(classOf[collection.immutable.Map[_, _]]) shouldBe a[
      ScalaImmutableAbstractMapSerializer
    ]
    kryo.getDefaultSerializer(classOf[collection.mutable.HashMap[_, _]]) shouldBe a[
      ScalaMutableMapSerializer
    ]
  }

  it should "serialize immutable maps" in {
    val kryo = new Kryo()
    new KryoInit().customize(kryo)
    val map1 = Map(
      "Rome" -> "Italy",
      "London" -> "England",
      "Paris" -> "France",
      "New York" -> "USA",
      "Tokyo" -> "Japan",
      "Peking" -> "China",
      "Brussels" -> "Belgium"
    )
    val map2 = map1 + ("Moscow" -> "Russia")
    val map3 = map2 + ("Berlin" -> "Germany")
    val map4 = map3 + ("Germany" -> "Berlin", "Russia" -> "Moscow")
    roundTrip(map1, kryo)
    roundTrip(map2, kryo)
    roundTrip(map3, kryo)
    roundTrip(map4, kryo)
  }

  def roundTrip[T](obj: T, kryo: Kryo): T = {
    val outStream = new ByteArrayOutputStream()
    val output = new Output(outStream, 4096)
    kryo.writeClassAndObject(output, obj)
    output.flush()

    val input = new Input(new ByteArrayInputStream(outStream.toByteArray), 4096)
    val obj1 = kryo.readClassAndObject(input)

    assert(obj == obj1)

    obj1.asInstanceOf[T]
  }

} 

package org.apache.spark.sql.types

import java.io._

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.twitter.chill.AllScalaRegistrar
import org.scalatest.FunSuite

class NodeSuite extends FunSuite {

  def isSerializable(input: Any): Boolean = {
    val byteArray = new ByteArrayOutputStream()
    val oos = new ObjectOutputStream(byteArray)
    oos.writeObject(input)
    oos.close()
    val ois = new ObjectInputStream(new ByteArrayInputStream(byteArray.toByteArray))
    val output = ois.readObject()
    ois.close()
    input == output
  }

  def isKryoSerializable(input: Any): Boolean = {
    val kryo = new Kryo()
    kryo.setRegistrationRequired(false)
    new AllScalaRegistrar().apply(kryo)
    kryo.register(input.getClass)
    kryo.setReferences(false)
    kryo.setClassLoader(input.getClass.getClassLoader)
    val byteArray = new ByteArrayOutputStream()
    val kryoOutput = new Output(byteArray)
    kryo.writeObject(kryoOutput, input)
    kryoOutput.flush()
    val kryoInput = new Input(new ByteArrayInputStream(byteArray.toByteArray))
    val output = kryo.readObject(kryoInput, input.getClass)
    kryoInput.close()
    kryoOutput.close()
    input == output
  }

  test("Node is serializable") {
    assert(isSerializable(Node(Seq(1), IntegerType)))
    assert(isSerializable(Node(Seq(1L), LongType)))
    assert(isSerializable(Node(Seq("1"), StringType)))
    assert(isSerializable(Node(Seq(1, 2), IntegerType)))
    assert(isSerializable(Node(Seq(1L, 2L), LongType)))
    // assert(isSerializable(Node(Seq("1", "2", 1))))
    assert(isSerializable(Node(Seq(1), IntegerType, 1, 1, true)))
  }

  test("Node is serializable with Kryo") {
    assert(isKryoSerializable(Node(Seq(1), IntegerType)))
    assert(isKryoSerializable(Node(Seq(1L), LongType)))
    assert(isKryoSerializable(Node(Seq("1"), StringType)))
    assert(isKryoSerializable(Node(Seq(1, 2), IntegerType)))
    assert(isKryoSerializable(Node(Seq(1L, 2L), LongType)))
    // assert(isKryoSerializable(Node(Seq("1", "2", 1))))
    assert(isKryoSerializable(Node(Seq(1), IntegerType, 1, 1, true)))
  }

} 

// Copyright 2017, Yahoo Holdings Inc.
// Licensed under the terms of the Apache License 2.0. Please see LICENSE file in project root for terms.
package com.yahoo.maha.log

import com.esotericsoftware.kryo.{Kryo, Serializer}
import com.esotericsoftware.kryo.io.{Input, Output}
import com.yahoo.maha.data.StringEventBatch
import org.slf4j.{Logger, LoggerFactory}


object KryoStringEventBatch {
  private val logger: Logger = LoggerFactory.getLogger(classOf[KryoStringEventBatch])
}

class KryoStringEventBatch extends Serializer[StringEventBatch] {
  KryoStringEventBatch.logger.info("Created instance of " + this.getClass.getSimpleName)

  override def write(kryo: Kryo, output: Output, stringEventBatch: StringEventBatch): Unit = {
    val size: Int = stringEventBatch.getEvents.size
    output.writeInt(size)
    stringEventBatch.getEvents.stream().forEach(output.writeString(_))
  }

  override def read(kryo: Kryo, input: Input, `type`: Class[StringEventBatch]): StringEventBatch = {
    val size: Int = input.readInt
    val builder: StringEventBatch.Builder = new StringEventBatch.Builder(size)
    var i: Int = 0
    while ( i < size) {
      builder.add(input.readString)
      i += 1
    }
    builder.build.asInstanceOf[StringEventBatch]
  }
} 

// Copyright 2017, Yahoo Holdings Inc.
// Licensed under the terms of the Apache License 2.0. Please see LICENSE file in project root for terms.
package com.yahoo.maha.log



import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import com.yahoo.maha.data.StringEventBatch
import org.junit.{Assert, Test}

class KryoStringEventBatchTest {
  @Test
  @throws[Exception]
  def test(): Unit = {
    val kryo = new Kryo
    kryo.register(classOf[StringEventBatch], new KryoStringEventBatch)
    val builder = new StringEventBatch.Builder(3)
    builder.add("one")
    builder.add("two")
    builder.add("three")
    val recordList = builder.build.asInstanceOf[StringEventBatch]
    val output = new Output(new Array[Byte](1024 * 1024 + 1))
    kryo.writeObject(output, recordList)
    System.out.println("output.position=" + output.position)
    val input = new Input(output.getBuffer, 0, output.total.toInt)
    val resultRecordList = kryo.readObject(input, classOf[StringEventBatch])
    Assert.assertEquals(resultRecordList.getEvents.get(0), "one")
    Assert.assertEquals(resultRecordList.getEvents.get(1), "two")
    Assert.assertEquals(resultRecordList.getEvents.get(2), "three")
    val output2 = new Output(new Array[Byte](1024 * 1024 + 1))
    kryo.writeObject(output2, resultRecordList)
  }
} 

package justin.db.kryo

import java.util.UUID

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import justin.db.Data
import justin.db.actors.protocol.StorageNodeWriteDataLocal
import justin.db.versioning.NodeIdVectorClockBase64

object StorageNodeWriteDataLocalSerializer extends Serializer[StorageNodeWriteDataLocal] {
  override def write(kryo: Kryo, output: Output, local: StorageNodeWriteDataLocal): Unit = {
    output.writeString(local.data.id.toString) // UUID
    output.writeString(local.data.value)       // Value
    output.writeString(new NodeIdVectorClockBase64().encode(local.data.vclock).get)  // Vector Clock
    output.writeLong(local.data.timestamp)     // Timestamp
  }

  override def read(kryo: Kryo, input: Input, `type`: Class[StorageNodeWriteDataLocal]): StorageNodeWriteDataLocal = {
    val id = UUID.fromString(input.readString()) // UUID
    val value = input.readString()               // Value
    val vectorClock = new NodeIdVectorClockBase64().decode(input.readString()).get // Vector Clock
    val timestamp = input.readLong()             // Timestamp

    StorageNodeWriteDataLocal(Data(id, value, vectorClock, timestamp))
  }
} 

package justin.db.kryo

import java.util.UUID

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import justin.db.Data
import justin.db.actors.protocol.{StorageNodeConflictedWrite, StorageNodeFailedWrite, StorageNodeSuccessfulWrite, StorageNodeWriteResponse}

object StorageNodeWriteResponseSerializer extends Serializer[StorageNodeWriteResponse] {

  private object Discriminator {
    val SuccessfulWrite = 1
    val FailedWrite     = 2
    val ConflictedWrite = 3
  }

  override def write(kryo: Kryo, output: Output, response: StorageNodeWriteResponse): Unit = response match {
    case StorageNodeSuccessfulWrite(id)               =>
      output.writeInt(Discriminator.SuccessfulWrite)
      output.writeString(id.toString) // UUID
    case StorageNodeFailedWrite(id)                   =>
      output.writeInt(Discriminator.FailedWrite)
      output.writeString(id.toString) // UUID
    case StorageNodeConflictedWrite(oldData, newData) =>
      output.writeInt(Discriminator.ConflictedWrite)
      DataSerializer.write(kryo, output, oldData)
      DataSerializer.write(kryo, output, newData)
  }

  override def read(kryo: Kryo, input: Input, `type`: Class[StorageNodeWriteResponse]): StorageNodeWriteResponse = input.readInt() match {
    case Discriminator.SuccessfulWrite =>
      StorageNodeSuccessfulWrite(UUID.fromString(input.readString()))
    case Discriminator.FailedWrite     =>
      StorageNodeFailedWrite(UUID.fromString(input.readString()))
    case Discriminator.ConflictedWrite =>
      StorageNodeConflictedWrite(
        oldData = DataSerializer.read(kryo, input, classOf[Data]),
        newData = DataSerializer.read(kryo, input, classOf[Data])
      )
  }
} 

package justin.db.kryo

import java.util.UUID

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import justin.db.Data
import justin.db.versioning.NodeIdVectorClockBase64

object DataSerializer extends Serializer[Data] {
  override def write(kryo: Kryo, output: Output, data: Data): Unit = {
    output.writeString(data.id.toString) // UUID
    output.writeString(data.value)       // Value
    output.writeString(new NodeIdVectorClockBase64().encode(data.vclock).get) // Vector Clock
    output.writeLong(data.timestamp)    // Timestamp
  }

  override def read(kryo: Kryo, input: Input, `type`: Class[Data]): Data = {
    Data(
      id        = UUID.fromString(input.readString()), // UUID
      value     = input.readString(),                  // Value
      vclock    = new NodeIdVectorClockBase64().decode(input.readString()).get, // Vector Clock
      timestamp = input.readLong()                     // Timestamp
    )
  }
} 

package justin.db.kryo

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import justin.db.Data

object ListOfDataSerializer extends Serializer[List[Data]] {
  override def write(kryo: Kryo, output: Output, listOfData: List[Data]): Unit = {
    val length = listOfData.size
    output.writeInt(length, true)
    if(length != 0) {
      val it = listOfData.iterator
      while(it.hasNext)
        DataSerializer.write(kryo, output, it.next())
    }
  }

  override def read(kryo: Kryo, input: Input, `type`: Class[List[Data]]): List[Data] = {
    var length = input.readInt(true)
    var result = List.empty[Data]

    while(length > 0) {
      result = result :+ DataSerializer.read(kryo, input, classOf[Data])
      length -= 1
    }
    result
  }
} 

package justin.db.kryo

import java.util.UUID

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import justin.db.Data
import justin.db.actors.protocol._

object StorageNodeReadResponseSerializer extends Serializer[StorageNodeReadResponse] {

  private object Discriminator {
    val Found      = 1
    val Conflicted = 2
    val NotFound   = 3
    val Failed     = 4
  }

  override def write(kryo: Kryo, output: Output, readResponse: StorageNodeReadResponse): Unit = readResponse match {
    case StorageNodeFoundRead(data)           =>
      output.writeInt(Discriminator.Found)
      DataSerializer.write(kryo, output, data)
    case StorageNodeConflictedRead(conflicts) =>
      output.writeInt(Discriminator.Conflicted)
      ListOfDataSerializer.write(kryo, output, conflicts)
    case StorageNodeNotFoundRead(id)          =>
      output.writeInt(Discriminator.NotFound)
      output.writeString(id.toString)
    case StorageNodeFailedRead(id)            =>
      output.writeInt(Discriminator.Failed)
      output.writeString(id.toString)
  }

  override def read(kryo: Kryo, input: Input, `type`: Class[StorageNodeReadResponse]): StorageNodeReadResponse = {
    input.readInt() match {
      case Discriminator.Found      => StorageNodeFoundRead(DataSerializer.read(kryo, input, classOf[Data]))
      case Discriminator.Conflicted => StorageNodeConflictedRead(ListOfDataSerializer.read(kryo, input, classOf[List[Data]]))
      case Discriminator.NotFound   => StorageNodeNotFoundRead(UUID.fromString(input.readString()))
      case Discriminator.Failed     => StorageNodeFailedRead(UUID.fromString(input.readString()))
    }
  }
} 

package justin.db.kryo

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import justin.db.actors.protocol.RegisterNode
import justin.db.consistenthashing.NodeId
import org.scalatest.{FlatSpec, Matchers}

class RegisterNodeSerializerTest extends FlatSpec with Matchers {

  behavior of "RegisterNode Serializer"

  it should "serialize/deserialize correctly" in {
    // kryo init
    val kryo = new Kryo()
    kryo.register(classOf[RegisterNode], RegisterNodeSerializer)

    // object
    val serializedData = RegisterNode(NodeId(1))

    // serialization
    val bos    = new ByteArrayOutputStream()
    val output = new Output(bos)
    val _      = kryo.writeObject(output, serializedData)
    output.flush()

    // deserialization
    val bis              = new ByteArrayInputStream(bos.toByteArray)
    val input            = new Input(bis)
    val deserializedData = kryo.readObject(input, classOf[RegisterNode])

    serializedData shouldBe deserializedData
  }
} 

package org.apache.spark.serializer

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.nio.ByteBuffer

import com.esotericsoftware.kryo.io.{Input, Output}
import org.apache.avro.{Schema, SchemaBuilder}
import org.apache.avro.generic.GenericData.Record

import org.apache.spark.{SharedSparkContext, SparkFunSuite}

class GenericAvroSerializerSuite extends SparkFunSuite with SharedSparkContext {
  conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer")

  val schema : Schema = SchemaBuilder
    .record("testRecord").fields()
    .requiredString("data")
    .endRecord()
  val record = new Record(schema)
  record.put("data", "test data")

  test("schema compression and decompression") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    assert(schema === genericSer.decompress(ByteBuffer.wrap(genericSer.compress(schema))))
  }

  test("record serialization and deserialization") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)

    val outputStream = new ByteArrayOutputStream()
    val output = new Output(outputStream)
    genericSer.serializeDatum(record, output)
    output.flush()
    output.close()

    val input = new Input(new ByteArrayInputStream(outputStream.toByteArray))
    assert(genericSer.deserializeDatum(input) === record)
  }

  test("uses schema fingerprint to decrease message size") {
    val genericSerFull = new GenericAvroSerializer(conf.getAvroSchema)

    val output = new Output(new ByteArrayOutputStream())

    val beginningNormalPosition = output.total()
    genericSerFull.serializeDatum(record, output)
    output.flush()
    val normalLength = output.total - beginningNormalPosition

    conf.registerAvroSchemas(schema)
    val genericSerFinger = new GenericAvroSerializer(conf.getAvroSchema)
    val beginningFingerprintPosition = output.total()
    genericSerFinger.serializeDatum(record, output)
    val fingerprintLength = output.total - beginningFingerprintPosition

    assert(fingerprintLength < normalLength)
  }

  test("caches previously seen schemas") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    val compressedSchema = genericSer.compress(schema)
    val decompressedSchema = genericSer.decompress(ByteBuffer.wrap(compressedSchema))

    assert(compressedSchema.eq(genericSer.compress(schema)))
    assert(decompressedSchema.eq(genericSer.decompress(ByteBuffer.wrap(compressedSchema))))
  }
} 

package justin.db.kryo

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.util.UUID

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import justin.db.Data
import justin.db.actors.protocol.StorageNodeWriteDataLocal
import justin.db.consistenthashing.NodeId
import justin.db.vectorclocks.{Counter, VectorClock}
import org.scalatest.{FlatSpec, Matchers}

class StorageNodeWriteDataLocalSerializerTest extends FlatSpec with Matchers {

  behavior of "StorageNodeWriteDataLocal Serializer"

  it should "serialize/deserialize StorageNodeWriteDataLocal" in {
    // kryo init
    val kryo = new Kryo()
    kryo.register(classOf[StorageNodeWriteDataLocal], StorageNodeWriteDataLocalSerializer)

    // object
    val data = Data(
      id        = UUID.randomUUID(),
      value     = "some value",
      vclock    = VectorClock[NodeId](Map(NodeId(1) -> Counter(3))),
      timestamp = System.currentTimeMillis()
    )
    val serializedData = StorageNodeWriteDataLocal(data)

    // serialization
    val bos    = new ByteArrayOutputStream()
    val output = new Output(bos)
    val _      = kryo.writeObject(output, serializedData)
    output.flush()

    // deserialization
    val bis              = new ByteArrayInputStream(bos.toByteArray)
    val input            = new Input(bis)
    val deserializedData = kryo.readObject(input, classOf[StorageNodeWriteDataLocal])

    serializedData shouldBe deserializedData
  }
} 

package justin.db.kryo

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.util.UUID

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import justin.db.actors.protocol.StorageNodeLocalRead
import org.scalatest.{FlatSpec, Matchers}

class StorageNodeLocalReadSerializerTest extends FlatSpec with Matchers {

  behavior of "StorageNodeLocalReader Serializer"

  it should "serialize/deserialize correctly" in {
    // kryo init
    val kryo = new Kryo()
    kryo.register(classOf[StorageNodeLocalRead], StorageNodeLocalReadSerializer)

    // object
    val serializedData = StorageNodeLocalRead(UUID.randomUUID())

    // serialization
    val bos    = new ByteArrayOutputStream()
    val output = new Output(bos)
    val _      = kryo.writeObject(output, serializedData)
    output.flush()

    // deserialization
    val bis              = new ByteArrayInputStream(bos.toByteArray)
    val input            = new Input(bis)
    val deserializedData = kryo.readObject(input, classOf[StorageNodeLocalRead])

    serializedData shouldBe deserializedData
  }
} 

package justin.db.storage

import java.io.{ByteArrayInputStream, ByteArrayOutputStream, File}
import java.util.UUID

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer}
import justin.db.storage.PluggableStorageProtocol.{Ack, StorageGetData}
import org.rocksdb.{FlushOptions, Options, RocksDB}

import scala.concurrent.Future

// TODO:
// Current version store every single data under one file (totally doesn't care about data originality).
// Data should be eventually splitted by ring partitionId.
// This might be an issue during possible data movements between nodes.
final class RocksDBStorage(dir: File) extends PluggableStorageProtocol {
  import RocksDBStorage._

  {
    RocksDB.loadLibrary()
  }

  private[this] val kryo = new Kryo()

  private[this] val db: RocksDB = {
    val options: Options = new Options().setCreateIfMissing(true)
    RocksDB.open(options, dir.getPath)
  }

  override def get(id: UUID)(resolveOriginality: (UUID) => PluggableStorageProtocol.DataOriginality): Future[PluggableStorageProtocol.StorageGetData] = {
    val key: Array[Byte] = uuid2bytes(kryo, id)
    val dataBytes: Array[Byte] = db.get(key)

    val justinDataOpt = Option(dataBytes).map { dataBytes =>
      val input = new Input(new ByteArrayInputStream(dataBytes))
      JustinDataSerializer.read(kryo, input, classOf[JustinData])
    }

    Future.successful(justinDataOpt.map(StorageGetData.Single).getOrElse(StorageGetData.None))
  }

  override def put(data: JustinData)(resolveOriginality: (UUID) => PluggableStorageProtocol.DataOriginality): Future[PluggableStorageProtocol.Ack] = {
    val key: Array[Byte] = uuid2bytes(kryo, data.id)
    val dataBytes: Array[Byte] = {
      val output = new Output(new ByteArrayOutputStream())
      JustinDataSerializer.write(kryo, output, data)
      output.getBuffer
    }

    db.put(key, dataBytes)
    db.flush(new FlushOptions().setWaitForFlush(true))

    Ack.future
  }
}

object RocksDBStorage {

  def uuid2bytes(kryo: Kryo, id: UUID): Array[Byte] = {
    val output = new Output(new ByteArrayOutputStream(), 16)
    UUIDSerializer.write(kryo, output, id)
    output.getBuffer
  }

  object UUIDSerializer extends Serializer[UUID] {
    override def read(kryo: Kryo, input: Input, `type`: Class[UUID]): UUID = {
      new UUID(input.readLong, input.readLong)
    }

    override def write(kryo: Kryo, output: Output, uuid: UUID): Unit = {
      output.writeLong(uuid.getMostSignificantBits)
      output.writeLong(uuid.getLeastSignificantBits)
    }
  }

  object JustinDataSerializer extends Serializer[JustinData] {
    override def read(kryo: Kryo, input: Input, `type`: Class[JustinData]): JustinData = {
      JustinData(
        id        = UUIDSerializer.read(kryo, input, classOf[UUID]),
        value     = input.readString(),
        vclock    = input.readString(),
        timestamp = input.readLong()
      )
    }

    override def write(kryo: Kryo, output: Output, data: JustinData): Unit = {
      UUIDSerializer.write(kryo, output, data.id)
      output.writeString(data.value)
      output.writeString(data.vclock)
      output.writeLong(data.timestamp)
    }
  }
} 

package justin.db.storage

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.util.UUID

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}
import justin.db.storage.RocksDBStorage.JustinDataSerializer
import org.scalatest.{FlatSpec, Matchers}

class JustinDataSerializerTest extends FlatSpec with Matchers {

  behavior of "JustinDataSerializer"

  it should "serialize/deserialize JustinData with Kryo" in {
    val kryo = new Kryo()
    val data = JustinData(
      id        = UUID.randomUUID,
      value     = "to jest przykladowa wartość",
      vclock    = "vclock-value",
      timestamp = 1234124L
    )

    // serialize
    val output = new Output(new ByteArrayOutputStream())
    JustinDataSerializer.write(kryo, output, data)
    val dataBytes = output.getBuffer

    // deserialize
    val input = new Input(new ByteArrayInputStream(dataBytes))
    JustinDataSerializer.read(kryo, input, classOf[JustinData]) shouldBe data
  }
} 

package org.hammerlab.hadoop.kryo

import java.io.{ DataInputStream, DataOutputStream }

import com.esotericsoftware.kryo
import com.esotericsoftware.kryo.io.{ Input, Output }
import com.esotericsoftware.kryo.{ Kryo, Serializer }
import org.apache.hadoop.io.Writable


class WritableSerializer[T <: Writable](ctorArgs: Any*)
  extends kryo.Serializer[T] {
  override def read(kryo: Kryo, input: Input, clz: Class[T]): T = {
    val t = clz.newInstance()
    t.readFields(new DataInputStream(input))
    t
  }

  override def write(kryo: Kryo, output: Output, t: T): Unit = {
    t.write(new DataOutputStream(output))
  }
} 

package org.hammerlab.hadoop.kryo

import java.io.{ ObjectInputStream, ObjectOutputStream }

import com.esotericsoftware.kryo.io.{ Input, Output }
import com.esotericsoftware.kryo.{ Kryo, Serializer }


case class SerializableSerializer[T <: Serializable]()
  extends Serializer[T] {
  override def read(kryo: Kryo, input: Input, `type`: Class[T]): T =
    new ObjectInputStream(input)
      .readObject()
      .asInstanceOf[T]

  override def write(kryo: Kryo, output: Output, t: T): Unit =
    new ObjectOutputStream(output)
      .writeObject(t)
} 

package org.hammerlab.kryo

import com.esotericsoftware.kryo
import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{ Input, Output }

sealed trait Serializer[T] {
  def apply(k: Kryo): kryo.Serializer[T]
}

object Serializer {
  implicit class Kryo[T](serializer: kryo.Serializer[T]) extends Serializer[T] {
    override def apply(k: kryo.Kryo): kryo.Serializer[T] = serializer
  }
  implicit class Fn[T](fn: kryo.Kryo ⇒ kryo.Serializer[T]) extends Serializer[T] {
    override def apply(k: kryo.Kryo): kryo.Serializer[T] = fn(k)
  }

  def apply[T](r: (kryo.Kryo, Input) ⇒ T, w: (kryo.Kryo, Output, T) ⇒ Unit): Serializer[T] =
    new kryo.Serializer[T] {
      override def read(k: kryo.Kryo, input: Input, `type`: Class[T]): T = r(k, input)
      override def write(k: kryo.Kryo, output: Output, t: T): Unit = w(k, output, t)
    }

  def apply[T](fn: kryo.Kryo ⇒ kryo.Serializer[T]): Serializer[T] = fn
} 

package org.hammerlab.hadoop.kryo

import java.io.{ ByteArrayInputStream, ByteArrayOutputStream, ObjectInputStream, ObjectOutputStream }

import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{ Input, Output }
import org.hammerlab.test.Suite

class SerializableSerializerTest
  extends Suite {
  test("serde") {
    val kryo = new Kryo()
    kryo.setRegistrationRequired(true)
    val baos = new ByteArrayOutputStream()
    val output = new Output(baos)

    val foo = new Foo
    foo.n = 123
    foo.s = "abc"

    intercept[IllegalArgumentException] {
      kryo.writeClassAndObject(output, foo)
    }
    .getMessage should startWith("Class is not registered: org.hammerlab.hadoop.kryo.Foo")

    kryo.register(classOf[Foo], SerializableSerializer[Foo]())

    kryo.writeClassAndObject(output, foo)

    output.close()

    val bytes = baos.toByteArray
    bytes.length should be(93)

    val bais = new ByteArrayInputStream(bytes)

    val input = new Input(bais)
    val after = kryo.readClassAndObject(input).asInstanceOf[Foo]

    after.n should be(foo.n)
    after.s should be(foo.s)
  }
}

class Foo
  extends Serializable {

  var n = 0
  var s = ""

  private def writeObject(out: ObjectOutputStream): Unit = {
    out.writeInt(n)
    out.writeUTF(s)
  }

  private def readObject(in: ObjectInputStream): Unit = {
    n = in.readInt()
    s = in.readUTF()
  }
} 

package org.apress.prospark

import com.esotericsoftware.kryo.{KryoSerializable,Kryo}
import com.esotericsoftware.kryo.io.{Output, Input}

class ProtonFlux(
    var year: Int,
    var bin0_57to1_78: Double,
    var bin3_40to17_6: Double,
    var bin22_0to31_0: Double,
    var bin1_894to2_605: Double,
    var bin4_200to6_240: Double,
    var bin3_256to8_132: Double,
    var bin3_276to8_097: Double,
    var bin6_343to42_03: Double,
    var bin17_88to26_81: Double,
    var bin30_29to69_47: Double,
    var bin132_8to242_0: Double
  ) extends KryoSerializable {
  
  def this(year: String, bin0_57to1_78: String, bin3_40to17_6: String, 
      bin22_0to31_0: String, bin1_894to2_605: String, bin4_200to6_240: String, 
      bin3_256to8_132: String, bin3_276to8_097: String, bin6_343to42_03: String,
      bin17_88to26_81: String, bin30_29to69_47: String, bin132_8to242_0: String) {
    this(year.toInt, bin0_57to1_78.toDouble, bin3_40to17_6.toDouble,
        bin22_0to31_0.toDouble, bin1_894to2_605.toDouble, bin4_200to6_240.toDouble, 
        bin3_256to8_132.toDouble, bin3_276to8_097.toDouble, bin6_343to42_03.toDouble,
        bin17_88to26_81.toDouble, bin30_29to69_47.toDouble, bin132_8to242_0.toDouble)
  }
  
  def isSolarStorm = (bin0_57to1_78 > 1.0 || bin3_40to17_6 > 1.0 
    || bin22_0to31_0 > 1.0 || bin1_894to2_605 > 1.0 || bin4_200to6_240 > 1.0 
    || bin3_256to8_132 > 1.0 || bin3_276to8_097 > 1.0 || bin6_343to42_03 > 1.0
    || bin17_88to26_81 > 1.0 || bin30_29to69_47 > 1.0 || bin132_8to242_0 > 1.0)

  override def write(kryo: Kryo, output: Output) {
    output.writeInt(year)
    output.writeDouble(bin0_57to1_78)
    output.writeDouble(bin3_40to17_6)
    output.writeDouble(bin22_0to31_0)
    output.writeDouble(bin1_894to2_605)
    output.writeDouble(bin4_200to6_240)
    output.writeDouble(bin3_256to8_132)
    output.writeDouble(bin3_276to8_097)
    output.writeDouble(bin6_343to42_03)
    output.writeDouble(bin17_88to26_81)
    output.writeDouble(bin30_29to69_47)
    output.writeDouble(bin132_8to242_0)
  }

  override def read(kryo: Kryo, input: Input) {
    year = input.readInt()
    bin0_57to1_78 = input.readDouble()
    bin3_40to17_6 = input.readDouble()
    bin22_0to31_0 = input.readDouble()
    bin1_894to2_605 = input.readDouble()
    bin4_200to6_240 = input.readDouble()
    bin3_256to8_132 = input.readDouble()
    bin3_276to8_097 = input.readDouble()
    bin6_343to42_03 = input.readDouble()
    bin17_88to26_81 = input.readDouble()
    bin30_29to69_47 = input.readDouble()
    bin132_8to242_0 = input.readDouble()
  }

} 

package org.apache.gearpump.experiments.storm.util

import java.lang.{Integer => JInteger}
import java.util.{Map => JMap}

import akka.actor.ExtendedActorSystem
import backtype.storm.serialization.SerializationFactory
import backtype.storm.utils.ListDelegate
import com.esotericsoftware.kryo.Kryo
import com.esotericsoftware.kryo.io.{Input, Output}

import org.apache.gearpump.cluster.UserConfig
import org.apache.gearpump.experiments.storm.topology.GearpumpTuple
import org.apache.gearpump.experiments.storm.util.StormConstants._
import org.apache.gearpump.serializer.{SerializationFramework, Serializer}

class StormSerializationFramework extends SerializationFramework {
  private var stormConfig: JMap[AnyRef, AnyRef] = null
  private var pool: ThreadLocal[Serializer] = null

  override def init(system: ExtendedActorSystem, config: UserConfig): Unit = {
    implicit val actorSystem = system
    stormConfig = config.getValue[JMap[AnyRef, AnyRef]](STORM_CONFIG).get
    pool = new ThreadLocal[Serializer]() {
      override def initialValue(): Serializer = {
        val kryo = SerializationFactory.getKryo(stormConfig)
        new StormSerializer(kryo)
      }
    }
  }

  override def get(): Serializer = {
    pool.get()
  }
}


class StormSerializer(kryo: Kryo) extends Serializer {
  // -1 means the max buffer size is 2147483647
  private val output = new Output(4096, -1)
  private val input = new Input

  override def serialize(message: Any): Array[Byte] = {
    val tuple = message.asInstanceOf[GearpumpTuple]
    output.clear()
    output.writeInt(tuple.sourceTaskId)
    output.writeString(tuple.sourceStreamId)
    val listDelegate = new ListDelegate
    listDelegate.setDelegate(tuple.values)
    kryo.writeObject(output, listDelegate)
    output.toBytes
  }

  override def deserialize(msg: Array[Byte]): Any = {
    input.setBuffer(msg)
    val sourceTaskId: JInteger = input.readInt
    val sourceStreamId: String = input.readString
    val listDelegate = kryo.readObject[ListDelegate](input, classOf[ListDelegate])
    new GearpumpTuple(listDelegate.getDelegate, sourceTaskId, sourceStreamId, null)
  }
} 

package org.apache.gearpump.serializer

import akka.actor.{ActorSystem, ExtendedActorSystem}

import com.esotericsoftware.kryo.io.{Input, Output}
import com.esotericsoftware.kryo.{Kryo, Serializer => KryoSerializer}
import com.typesafe.config.{ConfigFactory, ConfigValueFactory}

import org.apache.gearpump.cluster.TestUtil
import org.apache.gearpump.serializer.SerializerSpec._

import org.scalatest.mock.MockitoSugar
import org.scalatest.{FlatSpec, Matchers}

import scala.collection.JavaConverters._
import scala.concurrent.Await
import scala.concurrent.duration.Duration


class SerializerSpec extends FlatSpec with Matchers with MockitoSugar {
  val config = ConfigFactory.empty.withValue("gearpump.serializers",
    ConfigValueFactory.fromAnyRef(Map(classOf[ClassA].getName -> classOf[ClassASerializer].getName,
      classOf[ClassB].getName -> classOf[ClassBSerializer].getName).asJava))

  "GearpumpSerialization" should "register custom serializers" in {
    val serialization = new GearpumpSerialization(config)
    val kryo = new Kryo
    serialization.customize(kryo)

    val forB = kryo.getRegistration(classOf[ClassB])
    assert(forB.getSerializer.isInstanceOf[ClassBSerializer])

    val forA = kryo.getRegistration(classOf[ClassA])
    assert(forA.getSerializer.isInstanceOf[ClassASerializer])
  }

  "FastKryoSerializer" should "serialize correctly" in {
    val myConfig = config.withFallback(TestUtil.DEFAULT_CONFIG.withoutPath("gearpump.serializers"))
    val system = ActorSystem("my", myConfig)

    val serializer = new FastKryoSerializer(system.asInstanceOf[ExtendedActorSystem])

    val bytes = serializer.serialize(new ClassA)
    val anotherA = serializer.deserialize(bytes)

    assert(anotherA.isInstanceOf[ClassA])
    system.terminate()
    Await.result(system.whenTerminated, Duration.Inf)
  }
}

object SerializerSpec {

  class ClassA {}

  class ClassASerializer extends KryoSerializer[ClassA] {
    override def write(kryo: Kryo, output: Output, `object`: ClassA): Unit = {
      output.writeString(classOf[ClassA].getName)
    }

    override def read(kryo: Kryo, input: Input, `type`: Class[ClassA]): ClassA = {
      val className = input.readString()
      Class.forName(className).newInstance().asInstanceOf[ClassA]
    }
  }

  class ClassB {}

  class ClassBSerializer extends KryoSerializer[ClassA] {
    override def write(kryo: Kryo, output: Output, `object`: ClassA): Unit = {}

    override def read(kryo: Kryo, input: Input, `type`: Class[ClassA]): ClassA = {
      null
    }
  }
} 

package org.apache.spark.serializer

import java.io.{ByteArrayInputStream, ByteArrayOutputStream}
import java.nio.ByteBuffer

import com.esotericsoftware.kryo.io.{Input, Output}
import org.apache.avro.{Schema, SchemaBuilder}
import org.apache.avro.generic.GenericData.Record

import org.apache.spark.{SharedSparkContext, SparkFunSuite}

class GenericAvroSerializerSuite extends SparkFunSuite with SharedSparkContext {
  conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer")

  val schema : Schema = SchemaBuilder
    .record("testRecord").fields()
    .requiredString("data")
    .endRecord()
  val record = new Record(schema)
  record.put("data", "test data")

  test("schema compression and decompression") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    assert(schema === genericSer.decompress(ByteBuffer.wrap(genericSer.compress(schema))))
  }

  test("record serialization and deserialization") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)

    val outputStream = new ByteArrayOutputStream()
    val output = new Output(outputStream)
    genericSer.serializeDatum(record, output)
    output.flush()
    output.close()

    val input = new Input(new ByteArrayInputStream(outputStream.toByteArray))
    assert(genericSer.deserializeDatum(input) === record)
  }

  test("uses schema fingerprint to decrease message size") {
    val genericSerFull = new GenericAvroSerializer(conf.getAvroSchema)

    val output = new Output(new ByteArrayOutputStream())

    val beginningNormalPosition = output.total()
    genericSerFull.serializeDatum(record, output)
    output.flush()
    val normalLength = output.total - beginningNormalPosition

    conf.registerAvroSchemas(schema)
    val genericSerFinger = new GenericAvroSerializer(conf.getAvroSchema)
    val beginningFingerprintPosition = output.total()
    genericSerFinger.serializeDatum(record, output)
    val fingerprintLength = output.total - beginningFingerprintPosition

    assert(fingerprintLength < normalLength)
  }

  test("caches previously seen schemas") {
    val genericSer = new GenericAvroSerializer(conf.getAvroSchema)
    val compressedSchema = genericSer.compress(schema)
    val decompressedSchema = genericSer.decompress(ByteBuffer.wrap(compressedSchema))

    assert(compressedSchema.eq(genericSer.compress(schema)))
    assert(decompressedSchema.eq(genericSer.decompress(ByteBuffer.wrap(compressedSchema))))
  }
}