Github user yanboliang commented on a diff in the pull request:

    https://github.com/apache/spark/pull/15342#discussion_r82734529
  
    --- Diff: 
mllib/src/main/scala/org/apache/spark/mllib/clustering/KMeans.scala ---
    @@ -258,149 +252,106 @@ class KMeans private (
             }
         }
         val initTimeInSeconds = (System.nanoTime() - initStartTime) / 1e9
    -    logInfo(s"Initialization with $initializationMode took " + 
"%.3f".format(initTimeInSeconds) +
    -      " seconds.")
    +    logInfo(f"Initialization with $initializationMode took 
$initTimeInSeconds%.3f seconds.")
     
    -    val active = Array.fill(numRuns)(true)
    -    val costs = Array.fill(numRuns)(0.0)
    -
    -    var activeRuns = new ArrayBuffer[Int] ++ (0 until numRuns)
    +    var converged = false
    +    var cost = 0.0
         var iteration = 0
     
         val iterationStartTime = System.nanoTime()
     
    -    instr.foreach(_.logNumFeatures(centers(0)(0).vector.size))
    +    instr.foreach(_.logNumFeatures(centers.head.vector.size))
     
    -    // Execute iterations of Lloyd's algorithm until all runs have 
converged
    -    while (iteration < maxIterations && !activeRuns.isEmpty) {
    -      type WeightedPoint = (Vector, Long)
    -      def mergeContribs(x: WeightedPoint, y: WeightedPoint): WeightedPoint 
= {
    -        axpy(1.0, x._1, y._1)
    -        (y._1, x._2 + y._2)
    -      }
    -
    -      val activeCenters = activeRuns.map(r => centers(r)).toArray
    -      val costAccums = activeRuns.map(_ => sc.doubleAccumulator)
    -
    -      val bcActiveCenters = sc.broadcast(activeCenters)
    +    // Execute iterations of Lloyd's algorithm until converged
    +    while (iteration < maxIterations && !converged) {
    +      val costAccum = sc.doubleAccumulator
    +      val bcCenters = sc.broadcast(centers)
     
           // Find the sum and count of points mapping to each center
           val totalContribs = data.mapPartitions { points =>
    -        val thisActiveCenters = bcActiveCenters.value
    -        val runs = thisActiveCenters.length
    -        val k = thisActiveCenters(0).length
    -        val dims = thisActiveCenters(0)(0).vector.size
    +        val thisCenters = bcCenters.value
    +        val dims = thisCenters.head.vector.size
     
    -        val sums = Array.fill(runs, k)(Vectors.zeros(dims))
    -        val counts = Array.fill(runs, k)(0L)
    +        val sums = Array.fill(thisCenters.length)(Vectors.zeros(dims))
    +        val counts = Array.fill(thisCenters.length)(0L)
     
             points.foreach { point =>
    -          (0 until runs).foreach { i =>
    -            val (bestCenter, cost) = 
KMeans.findClosest(thisActiveCenters(i), point)
    -            costAccums(i).add(cost)
    -            val sum = sums(i)(bestCenter)
    -            axpy(1.0, point.vector, sum)
    -            counts(i)(bestCenter) += 1
    -          }
    +          val (bestCenter, cost) = KMeans.findClosest(thisCenters, point)
    +          costAccum.add(cost)
    +          val sum = sums(bestCenter)
    +          axpy(1.0, point.vector, sum)
    +          counts(bestCenter) += 1
             }
     
    -        val contribs = for (i <- 0 until runs; j <- 0 until k) yield {
    -          ((i, j), (sums(i)(j), counts(i)(j)))
    -        }
    -        contribs.iterator
    -      }.reduceByKey(mergeContribs).collectAsMap()
    -
    -      bcActiveCenters.destroy(blocking = false)
    -
    -      // Update the cluster centers and costs for each active run
    -      for ((run, i) <- activeRuns.zipWithIndex) {
    -        var changed = false
    -        var j = 0
    -        while (j < k) {
    -          val (sum, count) = totalContribs((i, j))
    -          if (count != 0) {
    -            scal(1.0 / count, sum)
    -            val newCenter = new VectorWithNorm(sum)
    -            if (KMeans.fastSquaredDistance(newCenter, centers(run)(j)) > 
epsilon * epsilon) {
    -              changed = true
    -            }
    -            centers(run)(j) = newCenter
    -          }
    -          j += 1
    -        }
    -        if (!changed) {
    -          active(run) = false
    -          logInfo("Run " + run + " finished in " + (iteration + 1) + " 
iterations")
    +        counts.indices.filter(counts(_) > 0).map(j => (j, (sums(j), 
counts(j)))).iterator
    +      }.reduceByKey { case ((sum1, count1), (sum2, count2)) =>
    +        axpy(1.0, sum2, sum1)
    +        (sum1, count1 + count2)
    +      }.collectAsMap()
    +
    +      bcCenters.destroy(blocking = false)
    +
    +      // Update the cluster centers and costs
    +      converged = true
    +      totalContribs.foreach { case (j, (sum, count)) =>
    +        scal(1.0 / count, sum)
    +        val newCenter = new VectorWithNorm(sum)
    +        if (converged && KMeans.fastSquaredDistance(newCenter, centers(j)) 
> epsilon * epsilon) {
    +          converged = false
             }
    -        costs(run) = costAccums(i).value
    +        centers(j) = newCenter
           }
     
    -      activeRuns = activeRuns.filter(active(_))
    +      cost = costAccum.value
           iteration += 1
         }
     
         val iterationTimeInSeconds = (System.nanoTime() - iterationStartTime) 
/ 1e9
    -    logInfo(s"Iterations took " + "%.3f".format(iterationTimeInSeconds) + 
" seconds.")
    +    logInfo(f"Iterations took $iterationTimeInSeconds%.3f seconds.")
     
         if (iteration == maxIterations) {
           logInfo(s"KMeans reached the max number of iterations: 
$maxIterations.")
         } else {
           logInfo(s"KMeans converged in $iteration iterations.")
         }
     
    -    val (minCost, bestRun) = costs.zipWithIndex.min
    +    logInfo(s"The cost is $cost.")
     
    -    logInfo(s"The cost for the best run is $minCost.")
    -
    -    new KMeansModel(centers(bestRun).map(_.vector))
    +    new KMeansModel(centers.map(_.vector))
       }
     
       /**
    -   * Initialize `runs` sets of cluster centers at random.
    +   * Initialize a set of cluster centers at random.
        */
    -  private def initRandom(data: RDD[VectorWithNorm])
    -  : Array[Array[VectorWithNorm]] = {
    -    // Sample all the cluster centers in one pass to avoid repeated scans
    -    val sample = data.takeSample(true, runs * k, new 
XORShiftRandom(this.seed).nextInt()).toSeq
    -    Array.tabulate(runs)(r => sample.slice(r * k, (r + 1) * k).map { v =>
    -      new VectorWithNorm(Vectors.dense(v.vector.toArray), v.norm)
    -    }.toArray)
    +  private def initRandom(data: RDD[VectorWithNorm]): Array[VectorWithNorm] 
= {
    +    data.takeSample(true, k, new 
XORShiftRandom(this.seed).nextInt()).map(_.toDense)
    --- End diff --
    
    Maybe we can optimize this issue at #14937, since it will have different 
treatment for dense and sparse vector.


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