StatCounter on NumPy arrays [PYSPARK][SPARK-2012]

These changes allow StatCounters to work properly on NumPy arrays, to fix the issue reported here  (https://issues.apache.org/jira/browse/SPARK-2012).

If NumPy is installed, the NumPy functions ``maximum``, ``minimum``, and ``sqrt``, which work on arrays, are used to merge statistics. If not, we fall back on scalar operators, so it will work on arrays with NumPy, but will also work without NumPy.

New unit tests added, along with a check for NumPy in the tests.

Author: Jeremy Freeman <the.freeman.lab@gmail.com>

Closes #1725 from freeman-lab/numpy-max-statcounter and squashes the following commits:

fe973b1 [Jeremy Freeman] Avoid duplicate array import in tests
7f0e397 [Jeremy Freeman] Refactored check for numpy
8e764dd [Jeremy Freeman] Explicit numpy imports
875414c [Jeremy Freeman] Fixed indents
1c8a832 [Jeremy Freeman] Unit tests for StatCounter with NumPy arrays
176a127 [Jeremy Freeman] Use numpy arrays in StatCounter

python/pyspark/statcounter.py

@@ -20,6 +20,13 @@
 import copy
 import math
 
+try:
+    from numpy import maximum, minimum, sqrt
+except ImportError:
+    maximum = max
+    minimum = min
+    sqrt = math.sqrt
+
 
 class StatCounter(object):
 
@@ -39,10 +46,8 @@ class StatCounter(object):
         self.n += 1
         self.mu += delta / self.n
         self.m2 += delta * (value - self.mu)
-        if self.maxValue < value:
-            self.maxValue = value
-        if self.minValue > value:
-            self.minValue = value
+        self.maxValue = maximum(self.maxValue, value)
+        self.minValue = minimum(self.minValue, value)
 
         return self
 
@@ -70,8 +75,8 @@ class StatCounter(object):
                 else:
                     self.mu = (self.mu * self.n + other.mu * other.n) / (self.n + other.n)
 
-                    self.maxValue = max(self.maxValue, other.maxValue)
-                    self.minValue = min(self.minValue, other.minValue)
+                self.maxValue = maximum(self.maxValue, other.maxValue)
+                self.minValue = minimum(self.minValue, other.minValue)
 
                 self.m2 += other.m2 + (delta * delta * self.n * other.n) / (self.n + other.n)
                 self.n += other.n
@@ -115,14 +120,14 @@ class StatCounter(object):
 
     # Return the standard deviation of the values.
     def stdev(self):
-        return math.sqrt(self.variance())
+        return sqrt(self.variance())
 
     #
     # Return the sample standard deviation of the values, which corrects for bias in estimating the
     # variance by dividing by N-1 instead of N.
     #
     def sampleStdev(self):
-        return math.sqrt(self.sampleVariance())
+        return sqrt(self.sampleVariance())
 
     def __repr__(self):
         return ("(count: %s, mean: %s, stdev: %s, max: %s, min: %s)" %

python/pyspark/tests.py

@@ -38,12 +38,19 @@ from pyspark.serializers import read_int
 from pyspark.shuffle import Aggregator, InMemoryMerger, ExternalMerger
 
 _have_scipy = False
+_have_numpy = False
 try:
     import scipy.sparse
     _have_scipy = True
 except:
     # No SciPy, but that's okay, we'll skip those tests
     pass
+try:
+    import numpy as np
+    _have_numpy = True
+except:
+    # No NumPy, but that's okay, we'll skip those tests
+    pass
 
 
 SPARK_HOME = os.environ["SPARK_HOME"]
@@ -914,9 +921,26 @@ class SciPyTests(PySparkTestCase):
         self.assertEqual(expected, observed)
 
 
+@unittest.skipIf(not _have_numpy, "NumPy not installed")
+class NumPyTests(PySparkTestCase):
+    """General PySpark tests that depend on numpy """
+
+    def test_statcounter_array(self):
+        x = self.sc.parallelize([np.array([1.0,1.0]), np.array([2.0,2.0]), np.array([3.0,3.0])])
+        s = x.stats()
+        self.assertSequenceEqual([2.0,2.0], s.mean().tolist())
+        self.assertSequenceEqual([1.0,1.0], s.min().tolist())
+        self.assertSequenceEqual([3.0,3.0], s.max().tolist())
+        self.assertSequenceEqual([1.0,1.0], s.sampleStdev().tolist())
+
+
 if __name__ == "__main__":
     if not _have_scipy:
         print "NOTE: Skipping SciPy tests as it does not seem to be installed"
+    if not _have_numpy:
+        print "NOTE: Skipping NumPy tests as it does not seem to be installed"
     unittest.main()
     if not _have_scipy:
         print "NOTE: SciPy tests were skipped as it does not seem to be installed"
+    if not _have_numpy:
+        print "NOTE: NumPy tests were skipped as it does not seem to be installed"