Merge remote-tracking branch 'upstream/master' into refreshInsertIntoHiveTable

Author: gatorsmile

R/pkg/R/SQLContext.R

@@ -184,8 +184,11 @@ getDefaultSqlSource <- function() {
 #'
 #' Converts R data.frame or list into SparkDataFrame.
 #'
-#' @param data an RDD or list or data.frame.
+#' @param data a list or data.frame.
 #' @param schema a list of column names or named list (StructType), optional.
+#' @param samplingRatio Currently not used.
+#' @param numPartitions the number of partitions of the SparkDataFrame. Defaults to 1, this is
+#'        limited by length of the list or number of rows of the data.frame
 #' @return A SparkDataFrame.
 #' @rdname createDataFrame
 #' @export
@@ -195,12 +198,14 @@ getDefaultSqlSource <- function() {
 #' df1 <- as.DataFrame(iris)
 #' df2 <- as.DataFrame(list(3,4,5,6))
 #' df3 <- createDataFrame(iris)
+#' df4 <- createDataFrame(cars, numPartitions = 2)
 #' }
 #' @name createDataFrame
 #' @method createDataFrame default
 #' @note createDataFrame since 1.4.0
 # TODO(davies): support sampling and infer type from NA
-createDataFrame.default <- function(data, schema = NULL, samplingRatio = 1.0) {
+createDataFrame.default <- function(data, schema = NULL, samplingRatio = 1.0,
+                                    numPartitions = NULL) {
   sparkSession <- getSparkSession()
 
   if (is.data.frame(data)) {
@@ -233,7 +238,11 @@ createDataFrame.default <- function(data, schema = NULL, samplingRatio = 1.0) {
 
   if (is.list(data)) {
     sc <- callJStatic("org.apache.spark.sql.api.r.SQLUtils", "getJavaSparkContext", sparkSession)
-    rdd <- parallelize(sc, data)
+    if (!is.null(numPartitions)) {
+      rdd <- parallelize(sc, data, numSlices = numToInt(numPartitions))
+    } else {
+      rdd <- parallelize(sc, data, numSlices = 1)
+    }
   } else if (inherits(data, "RDD")) {
     rdd <- data
   } else {
@@ -283,14 +292,13 @@ createDataFrame <- function(x, ...) {
   dispatchFunc("createDataFrame(data, schema = NULL)", x, ...)
 }
 
-#' @param samplingRatio Currently not used.
 #' @rdname createDataFrame
 #' @aliases createDataFrame
 #' @export
 #' @method as.DataFrame default
 #' @note as.DataFrame since 1.6.0
-as.DataFrame.default <- function(data, schema = NULL, samplingRatio = 1.0) {
-  createDataFrame(data, schema)
+as.DataFrame.default <- function(data, schema = NULL, samplingRatio = 1.0, numPartitions = NULL) {
+  createDataFrame(data, schema, samplingRatio, numPartitions)
 }
 
 #' @param ... additional argument(s).

R/pkg/R/context.R

@@ -91,6 +91,16 @@ objectFile <- function(sc, path, minPartitions = NULL) {
 #' will write it to disk and send the file name to JVM. Also to make sure each slice is not
 #' larger than that limit, number of slices may be increased.
 #'
+#' In 2.2.0 we are changing how the numSlices are used/computed to handle
+#' 1 < (length(coll) / numSlices) << length(coll) better, and to get the exact number of slices.
+#' This change affects both createDataFrame and spark.lapply.
+#' In the specific one case that it is used to convert R native object into SparkDataFrame, it has
+#' always been kept at the default of 1. In the case the object is large, we are explicitly setting
+#' the parallism to numSlices (which is still 1).
+#'
+#' Specifically, we are changing to split positions to match the calculation in positions() of
+#' ParallelCollectionRDD in Spark.
+#'
 #' @param sc SparkContext to use
 #' @param coll collection to parallelize
 #' @param numSlices number of partitions to create in the RDD
@@ -107,6 +117,8 @@ parallelize <- function(sc, coll, numSlices = 1) {
   # TODO: bound/safeguard numSlices
   # TODO: unit tests for if the split works for all primitives
   # TODO: support matrix, data frame, etc
+
+  # Note, for data.frame, createDataFrame turns it into a list before it calls here.
   # nolint start
   # suppress lintr warning: Place a space before left parenthesis, except in a function call.
   if ((!is.list(coll) && !is.vector(coll)) || is.data.frame(coll)) {
@@ -128,12 +140,29 @@ parallelize <- function(sc, coll, numSlices = 1) {
   objectSize <- object.size(coll)
 
   # For large objects we make sure the size of each slice is also smaller than sizeLimit
-  numSlices <- max(numSlices, ceiling(objectSize / sizeLimit))
-  if (numSlices > length(coll))
-    numSlices <- length(coll)
+  numSerializedSlices <- max(numSlices, ceiling(objectSize / sizeLimit))
+  if (numSerializedSlices > length(coll))
+    numSerializedSlices <- length(coll)
+
+  # Generate the slice ids to put each row
+  # For instance, for numSerializedSlices of 22, length of 50
+  #  [1]  0  0  2  2  4  4  6  6  6  9  9 11 11 13 13 15 15 15 18 18 20 20 22 22 22
+  # [26] 25 25 27 27 29 29 31 31 31 34 34 36 36 38 38 40 40 40 43 43 45 45 47 47 47
+  # Notice the slice group with 3 slices (ie. 6, 15, 22) are roughly evenly spaced.
+  # We are trying to reimplement the calculation in the positions method in ParallelCollectionRDD
+  splits <- if (numSerializedSlices > 0) {
+    unlist(lapply(0: (numSerializedSlices - 1), function(x) {
+      # nolint start
+      start <- trunc((x * length(coll)) / numSerializedSlices)
+      end <- trunc(((x + 1) * length(coll)) / numSerializedSlices)
+      # nolint end
+      rep(start, end - start)
+    }))
+  } else {
+    1
+  }
 
-  sliceLen <- ceiling(length(coll) / numSlices)
-  slices <- split(coll, rep(1: (numSlices + 1), each = sliceLen)[1:length(coll)])
+  slices <- split(coll, splits)
 
   # Serialize each slice: obtain a list of raws, or a list of lists (slices) of
   # 2-tuples of raws

R/pkg/inst/tests/testthat/test_rdd.R

@@ -381,8 +381,8 @@ test_that("aggregateRDD() on RDDs", {
 test_that("zipWithUniqueId() on RDDs", {
   rdd <- parallelize(sc, list("a", "b", "c", "d", "e"), 3L)
   actual <- collectRDD(zipWithUniqueId(rdd))
-  expected <- list(list("a", 0), list("b", 3), list("c", 1),
-                   list("d", 4), list("e", 2))
+  expected <- list(list("a", 0), list("b", 1), list("c", 4),
+                   list("d", 2), list("e", 5))
   expect_equal(actual, expected)
 
   rdd <- parallelize(sc, list("a", "b", "c", "d", "e"), 1L)

R/pkg/inst/tests/testthat/test_sparkSQL.R

@@ -196,6 +196,26 @@ test_that("create DataFrame from RDD", {
   expect_equal(dtypes(df), list(c("name", "string"), c("age", "int"), c("height", "float")))
   expect_equal(as.list(collect(where(df, df$name == "John"))),
                list(name = "John", age = 19L, height = 176.5))
+  expect_equal(getNumPartitions(toRDD(df)), 1)
+
+  df <- as.DataFrame(cars, numPartitions = 2)
+  expect_equal(getNumPartitions(toRDD(df)), 2)
+  df <- createDataFrame(cars, numPartitions = 3)
+  expect_equal(getNumPartitions(toRDD(df)), 3)
+  # validate limit by num of rows
+  df <- createDataFrame(cars, numPartitions = 60)
+  expect_equal(getNumPartitions(toRDD(df)), 50)
+  # validate when 1 < (length(coll) / numSlices) << length(coll)
+  df <- createDataFrame(cars, numPartitions = 20)
+  expect_equal(getNumPartitions(toRDD(df)), 20)
+
+  df <- as.DataFrame(data.frame(0))
+  expect_is(df, "SparkDataFrame")
+  df <- createDataFrame(list(list(1)))
+  expect_is(df, "SparkDataFrame")
+  df <- as.DataFrame(data.frame(0), numPartitions = 2)
+  # no data to partition, goes to 1
+  expect_equal(getNumPartitions(toRDD(df)), 1)
 
   setHiveContext(sc)
   sql("CREATE TABLE people (name string, age double, height float)")
@@ -213,7 +233,8 @@ test_that("createDataFrame uses files for large objects", {
   # To simulate a large file scenario, we set spark.r.maxAllocationLimit to a smaller value
   conf <- callJMethod(sparkSession, "conf")
   callJMethod(conf, "set", "spark.r.maxAllocationLimit", "100")
-  df <- suppressWarnings(createDataFrame(iris))
+  df <- suppressWarnings(createDataFrame(iris, numPartitions = 3))
+  expect_equal(getNumPartitions(toRDD(df)), 3)
 
   # Resetting the conf back to default value
   callJMethod(conf, "set", "spark.r.maxAllocationLimit", toString(.Machine$integer.max / 10))

common/unsafe/src/main/java/org/apache/spark/unsafe/types/UTF8String.java

@@ -835,6 +835,190 @@ public UTF8String translate(Map<Character, Character> dict) {
     return fromString(sb.toString());
   }
 
+  private int getDigit(byte b) {
+    if (b >= '0' && b <= '9') {
+      return b - '0';
+    }
+    throw new NumberFormatException(toString());
+  }
+
+  /**
+   * Parses this UTF8String to long.
+   *
+   * Note that, in this method we accumulate the result in negative format, and convert it to
+   * positive format at the end, if this string is not started with '-'. This is because min value
+   * is bigger than max value in digits, e.g. Integer.MAX_VALUE is '2147483647' and
+   * Integer.MIN_VALUE is '-2147483648'.
+   *
+   * This code is mostly copied from LazyLong.parseLong in Hive.
+   */
+  public long toLong() {
+    if (numBytes == 0) {
+      throw new NumberFormatException("Empty string");
+    }
+
+    byte b = getByte(0);
+    final boolean negative = b == '-';
+    int offset = 0;
+    if (negative || b == '+') {
+      offset++;
+      if (numBytes == 1) {
+        throw new NumberFormatException(toString());
+      }
+    }
+
+    final byte separator = '.';
+    final int radix = 10;
+    final long stopValue = Long.MIN_VALUE / radix;
+    long result = 0;
+
+    while (offset < numBytes) {
+      b = getByte(offset);
+      offset++;
+      if (b == separator) {
+        // We allow decimals and will return a truncated integral in that case.
+        // Therefore we won't throw an exception here (checking the fractional
+        // part happens below.)
+        break;
+      }
+
+      int digit = getDigit(b);
+      // We are going to process the new digit and accumulate the result. However, before doing
+      // this, if the result is already smaller than the stopValue(Long.MIN_VALUE / radix), then
+      // result * 10 will definitely be smaller than minValue, and we can stop and throw exception.
+      if (result < stopValue) {
+        throw new NumberFormatException(toString());
+      }
+
+      result = result * radix - digit;
+      // Since the previous result is less than or equal to stopValue(Long.MIN_VALUE / radix), we
+      // can just use `result > 0` to check overflow. If result overflows, we should stop and throw
+      // exception.
+      if (result > 0) {
+        throw new NumberFormatException(toString());
+      }
+    }
+
+    // This is the case when we've encountered a decimal separator. The fractional
+    // part will not change the number, but we will verify that the fractional part
+    // is well formed.
+    while (offset < numBytes) {
+      if (getDigit(getByte(offset)) == -1) {
+        throw new NumberFormatException(toString());
+      }
+      offset++;
+    }
+
+    if (!negative) {
+      result = -result;
+      if (result < 0) {
+        throw new NumberFormatException(toString());
+      }
+    }
+
+    return result;
+  }
+
+  /**
+   * Parses this UTF8String to int.
+   *
+   * Note that, in this method we accumulate the result in negative format, and convert it to
+   * positive format at the end, if this string is not started with '-'. This is because min value
+   * is bigger than max value in digits, e.g. Integer.MAX_VALUE is '2147483647' and
+   * Integer.MIN_VALUE is '-2147483648'.
+   *
+   * This code is mostly copied from LazyInt.parseInt in Hive.
+   *
+   * Note that, this method is almost same as `toLong`, but we leave it duplicated for performance
+   * reasons, like Hive does.
+   */
+  public int toInt() {
+    if (numBytes == 0) {
+      throw new NumberFormatException("Empty string");
+    }
+
+    byte b = getByte(0);
+    final boolean negative = b == '-';
+    int offset = 0;
+    if (negative || b == '+') {
+      offset++;
+      if (numBytes == 1) {
+        throw new NumberFormatException(toString());
+      }
+    }
+
+    final byte separator = '.';
+    final int radix = 10;
+    final int stopValue = Integer.MIN_VALUE / radix;
+    int result = 0;
+
+    while (offset < numBytes) {
+      b = getByte(offset);
+      offset++;
+      if (b == separator) {
+        // We allow decimals and will return a truncated integral in that case.
+        // Therefore we won't throw an exception here (checking the fractional
+        // part happens below.)
+        break;
+      }
+
+      int digit = getDigit(b);
+      // We are going to process the new digit and accumulate the result. However, before doing
+      // this, if the result is already smaller than the stopValue(Integer.MIN_VALUE / radix), then
+      // result * 10 will definitely be smaller than minValue, and we can stop and throw exception.
+      if (result < stopValue) {
+        throw new NumberFormatException(toString());
+      }
+
+      result = result * radix - digit;
+      // Since the previous result is less than or equal to stopValue(Integer.MIN_VALUE / radix),
+      // we can just use `result > 0` to check overflow. If result overflows, we should stop and
+      // throw exception.
+      if (result > 0) {
+        throw new NumberFormatException(toString());
+      }
+    }
+
+    // This is the case when we've encountered a decimal separator. The fractional
+    // part will not change the number, but we will verify that the fractional part
+    // is well formed.
+    while (offset < numBytes) {
+      if (getDigit(getByte(offset)) == -1) {
+        throw new NumberFormatException(toString());
+      }
+      offset++;
+    }
+
+    if (!negative) {
+      result = -result;
+      if (result < 0) {
+        throw new NumberFormatException(toString());
+      }
+    }
+
+    return result;
+  }
+
+  public short toShort() {
+    int intValue = toInt();
+    short result = (short) intValue;
+    if (result != intValue) {
+      throw new NumberFormatException(toString());
+    }
+
+    return result;
+  }
+
+  public byte toByte() {
+    int intValue = toInt();
+    byte result = (byte) intValue;
+    if (result != intValue) {
+      throw new NumberFormatException(toString());
+    }
+
+    return result;
+  }
+
   @Override
   public String toString() {
     return new String(getBytes(), StandardCharsets.UTF_8);

python/pyspark/sql/context.py

@@ -73,7 +73,7 @@ def __init__(self, sparkContext, sparkSession=None, jsqlContext=None):
         self._jsc = self._sc._jsc
         self._jvm = self._sc._jvm
         if sparkSession is None:
-            sparkSession = SparkSession(sparkContext)
+            sparkSession = SparkSession.builder.getOrCreate()
         if jsqlContext is None:
             jsqlContext = sparkSession._jwrapped
         self.sparkSession = sparkSession

python/pyspark/sql/tests.py

@@ -47,7 +47,7 @@
     import unittest
 
 from pyspark import SparkContext
-from pyspark.sql import SparkSession, HiveContext, Column, Row
+from pyspark.sql import SparkSession, SQLContext, HiveContext, Column, Row
 from pyspark.sql.types import *
 from pyspark.sql.types import UserDefinedType, _infer_type
 from pyspark.tests import ReusedPySparkTestCase, SparkSubmitTests
@@ -206,6 +206,11 @@ def tearDownClass(cls):
         cls.spark.stop()
         shutil.rmtree(cls.tempdir.name, ignore_errors=True)
 
+    def test_sqlcontext_reuses_sparksession(self):
+        sqlContext1 = SQLContext(self.sc)
+        sqlContext2 = SQLContext(self.sc)
+        self.assertTrue(sqlContext1.sparkSession is sqlContext2.sparkSession)
+
     def test_row_should_be_read_only(self):
         row = Row(a=1, b=2)
         self.assertEqual(1, row.a)