[SPARK-6705][MLLIB] Add fit intercept api to ml logisticregression

I have the fit intercept enabled by default for logistic regression, I
wonder what others think here. I understand that it enables allocation
by default which is undesirable, but one needs to have a very strong
reason for not having an intercept term enabled so it is the safer
default from a statistical sense.

Explicitly modeling the intercept by adding a column of all 1s does not
work. I believe the reason is that since the API for
LogisticRegressionWithLBFGS forces column normalization, and a column of all
1s has 0 variance so dividing by 0 kills it.

Author: Omede Firouz <ofirouz@palantir.com>

Closes #5301 from oefirouz/addIntercept and squashes the following commits:

9f1286b [Omede Firouz] [SPARK-6705][MLLIB] Add fitInterceptTerm to LogisticRegression
1d6bd6f [Omede Firouz] [SPARK-6705][MLLIB] Add a fit intercept term to ML LogisticRegression
9963509 [Omede Firouz] [MLLIB] Add fitIntercept to LogisticRegression
2257fca [Omede Firouz] [MLLIB] Add fitIntercept param to logistic regression
329c1e2 [Omede Firouz] [MLLIB] Add fit intercept term
bd9663c [Omede Firouz] [MLLIB] Add fit intercept api to ml logisticregression

mllib/src/main/scala/org/apache/spark/ml/classification/LogisticRegression.scala

@@ -31,7 +31,7 @@ import org.apache.spark.storage.StorageLevel
  * Params for logistic regression.
  */
 private[classification] trait LogisticRegressionParams extends ProbabilisticClassifierParams
-  with HasRegParam with HasMaxIter with HasThreshold
+  with HasRegParam with HasMaxIter with HasFitIntercept with HasThreshold
 
 
 /**
@@ -55,6 +55,9 @@ class LogisticRegression
   /** @group setParam */
   def setMaxIter(value: Int): this.type = set(maxIter, value)
 
+  /** @group setParam */
+  def setFitIntercept(value: Boolean): this.type = set(fitIntercept, value)
+
   /** @group setParam */
   def setThreshold(value: Double): this.type = set(threshold, value)
 
@@ -67,7 +70,8 @@ class LogisticRegression
     }
 
     // Train model
-    val lr = new LogisticRegressionWithLBFGS
+    val lr = new LogisticRegressionWithLBFGS()
+      .setIntercept(paramMap(fitIntercept))
     lr.optimizer
       .setRegParam(paramMap(regParam))
       .setNumIterations(paramMap(maxIter))

mllib/src/main/scala/org/apache/spark/ml/param/sharedParams.scala

@@ -106,6 +106,18 @@ private[ml] trait HasProbabilityCol extends Params {
   def getProbabilityCol: String = get(probabilityCol)
 }
 
+private[ml] trait HasFitIntercept extends Params {
+  /**
+   * param for fitting the intercept term, defaults to true
+   * @group param
+   */
+  val fitIntercept: BooleanParam =
+    new BooleanParam(this, "fitIntercept", "indicates whether to fit an intercept term", Some(true))
+
+  /** @group getParam */
+  def getFitIntercept: Boolean = get(fitIntercept)
+}
+
 private[ml] trait HasThreshold extends Params {
   /**
    * param for threshold in (binary) prediction

mllib/src/test/scala/org/apache/spark/ml/classification/LogisticRegressionSuite.scala

@@ -46,6 +46,7 @@ class LogisticRegressionSuite extends FunSuite with MLlibTestSparkContext {
     assert(lr.getPredictionCol == "prediction")
     assert(lr.getRawPredictionCol == "rawPrediction")
     assert(lr.getProbabilityCol == "probability")
+    assert(lr.getFitIntercept == true)
     val model = lr.fit(dataset)
     model.transform(dataset)
       .select("label", "probability", "prediction", "rawPrediction")
@@ -55,6 +56,14 @@ class LogisticRegressionSuite extends FunSuite with MLlibTestSparkContext {
     assert(model.getPredictionCol == "prediction")
     assert(model.getRawPredictionCol == "rawPrediction")
     assert(model.getProbabilityCol == "probability")
+    assert(model.intercept !== 0.0)
+  }
+
+  test("logistic regression doesn't fit intercept when fitIntercept is off") {
+    val lr = new LogisticRegression
+    lr.setFitIntercept(false)
+    val model = lr.fit(dataset)
+    assert(model.intercept === 0.0)
   }
 
   test("logistic regression with setters") {