[SPARK-19616][SPARKR] weightCol and aggregationDepth should be improved for some SparkR APIs

## What changes were proposed in this pull request?

This is a follow-up PR of #16800

When doing SPARK-19456, we found that "" should be consider a NULL column name and should not be set. aggregationDepth should be exposed as an expert parameter.

## How was this patch tested?
Existing tests.

Author: wm624@hotmail.com <wm624@hotmail.com>

Closes #16945 from wangmiao1981/svc.

4 files changed, 35 insertions, 14 deletions

diff --git a/R/pkg/R/generics.R b/R/pkg/R/generics.R
index 11940d3560..647cbbdd82 100644
--- a/R/pkg/R/generics.R
+++ b/R/pkg/R/generics.R
@@ -1406,7 +1406,7 @@ setGeneric("spark.randomForest",
 
 #' @rdname spark.survreg
 #' @export
-setGeneric("spark.survreg", function(data, formula) { standardGeneric("spark.survreg") })
+setGeneric("spark.survreg", function(data, formula, ...) { standardGeneric("spark.survreg") })
 
 #' @rdname spark.svmLinear
 #' @export
diff --git a/R/pkg/R/mllib_classification.R b/R/pkg/R/mllib_classification.R
index fa0d795faa..05bb952661 100644
--- a/R/pkg/R/mllib_classification.R
+++ b/R/pkg/R/mllib_classification.R
@@ -207,6 +207,9 @@ function(object, path, overwrite = FALSE) {
 #'                  excepting that at most one value may be 0. The class with largest value p/t is predicted, where p
 #'                  is the original probability of that class and t is the class's threshold.
 #' @param weightCol The weight column name.
+#' @param aggregationDepth The depth for treeAggregate (greater than or equal to 2). If the dimensions of features
+#'                         or the number of partitions are large, this param could be adjusted to a larger size.
+#'                         This is an expert parameter. Default value should be good for most cases.
 #' @param ... additional arguments passed to the method.
 #' @return \code{spark.logit} returns a fitted logistic regression model.
 #' @rdname spark.logit
@@ -245,11 +248,13 @@ function(object, path, overwrite = FALSE) {
 setMethod("spark.logit", signature(data = "SparkDataFrame", formula = "formula"),
           function(data, formula, regParam = 0.0, elasticNetParam = 0.0, maxIter = 100,
                    tol = 1E-6, family = "auto", standardization = TRUE,
-                   thresholds = 0.5, weightCol = NULL) {
+                   thresholds = 0.5, weightCol = NULL, aggregationDepth = 2) {
             formula <- paste(deparse(formula), collapse = "")
 
-            if (is.null(weightCol)) {
-              weightCol <- ""
+            if (!is.null(weightCol) && weightCol == "") {
+              weightCol <- NULL
+            } else if (!is.null(weightCol)) {
+              weightCol <- as.character(weightCol)
             }
 
             jobj <- callJStatic("org.apache.spark.ml.r.LogisticRegressionWrapper", "fit",
@@ -257,7 +262,7 @@ setMethod("spark.logit", signature(data = "SparkDataFrame", formula = "formula")
                                 as.numeric(elasticNetParam), as.integer(maxIter),
                                 as.numeric(tol), as.character(family),
                                 as.logical(standardization), as.array(thresholds),
-                                as.character(weightCol))
+                                weightCol, as.integer(aggregationDepth))
             new("LogisticRegressionModel", jobj = jobj)
           })
 
diff --git a/R/pkg/R/mllib_regression.R b/R/pkg/R/mllib_regression.R
index 96ee220bc4..ac0578c4ab 100644
--- a/R/pkg/R/mllib_regression.R
+++ b/R/pkg/R/mllib_regression.R
@@ -102,14 +102,16 @@ setMethod("spark.glm", signature(data = "SparkDataFrame", formula = "formula"),
             }
 
             formula <- paste(deparse(formula), collapse = "")
-            if (is.null(weightCol)) {
-              weightCol <- ""
+            if (!is.null(weightCol) && weightCol == "") {
+              weightCol <- NULL
+            } else if (!is.null(weightCol)) {
+              weightCol <- as.character(weightCol)
             }
 
             # For known families, Gamma is upper-cased
             jobj <- callJStatic("org.apache.spark.ml.r.GeneralizedLinearRegressionWrapper",
                                 "fit", formula, data@sdf, tolower(family$family), family$link,
-                                tol, as.integer(maxIter), as.character(weightCol), regParam)
+                                tol, as.integer(maxIter), weightCol, regParam)
             new("GeneralizedLinearRegressionModel", jobj = jobj)
           })
 
@@ -305,13 +307,15 @@ setMethod("spark.isoreg", signature(data = "SparkDataFrame", formula = "formula"
           function(data, formula, isotonic = TRUE, featureIndex = 0, weightCol = NULL) {
             formula <- paste(deparse(formula), collapse = "")
 
-            if (is.null(weightCol)) {
-              weightCol <- ""
+            if (!is.null(weightCol) && weightCol == "") {
+              weightCol <- NULL
+            } else if (!is.null(weightCol)) {
+              weightCol <- as.character(weightCol)
             }
 
             jobj <- callJStatic("org.apache.spark.ml.r.IsotonicRegressionWrapper", "fit",
                                 data@sdf, formula, as.logical(isotonic), as.integer(featureIndex),
-                                as.character(weightCol))
+                                weightCol)
             new("IsotonicRegressionModel", jobj = jobj)
           })
 
@@ -372,6 +376,10 @@ setMethod("write.ml", signature(object = "IsotonicRegressionModel", path = "char
 #' @param formula a symbolic description of the model to be fitted. Currently only a few formula
 #'                operators are supported, including '~', ':', '+', and '-'.
 #'                Note that operator '.' is not supported currently.
+#' @param aggregationDepth The depth for treeAggregate (greater than or equal to 2). If the dimensions of features
+#'                         or the number of partitions are large, this param could be adjusted to a larger size.
+#'                         This is an expert parameter. Default value should be good for most cases.
+#' @param ... additional arguments passed to the method.
 #' @return \code{spark.survreg} returns a fitted AFT survival regression model.
 #' @rdname spark.survreg
 #' @seealso survival: \url{https://cran.r-project.org/package=survival}
@@ -396,10 +404,10 @@ setMethod("write.ml", signature(object = "IsotonicRegressionModel", path = "char
 #' }
 #' @note spark.survreg since 2.0.0
 setMethod("spark.survreg", signature(data = "SparkDataFrame", formula = "formula"),
-          function(data, formula) {
+          function(data, formula, aggregationDepth = 2) {
             formula <- paste(deparse(formula), collapse = "")
             jobj <- callJStatic("org.apache.spark.ml.r.AFTSurvivalRegressionWrapper",
-                                "fit", formula, data@sdf)
+                                "fit", formula, data@sdf, as.integer(aggregationDepth))
             new("AFTSurvivalRegressionModel", jobj = jobj)
           })
 
diff --git a/R/pkg/inst/tests/testthat/test_mllib_classification.R b/R/pkg/inst/tests/testthat/test_mllib_classification.R
index 620f528f2e..459254d271 100644
--- a/R/pkg/inst/tests/testthat/test_mllib_classification.R
+++ b/R/pkg/inst/tests/testthat/test_mllib_classification.R
@@ -211,7 +211,15 @@ test_that("spark.logit", {
   df <- createDataFrame(data)
   model <- spark.logit(df, label ~ feature)
   prediction <- collect(select(predict(model, df), "prediction"))
-  expect_equal(prediction$prediction, c("0.0", "0.0", "1.0", "1.0", "0.0"))
+  expect_equal(sort(prediction$prediction), c("0.0", "0.0", "0.0", "1.0", "1.0"))
+
+  # Test prediction with weightCol
+  weight <- c(2.0, 2.0, 2.0, 1.0, 1.0)
+  data2 <- as.data.frame(cbind(label, feature, weight))
+  df2 <- createDataFrame(data2)
+  model2 <- spark.logit(df2, label ~ feature, weightCol = "weight")
+  prediction2 <- collect(select(predict(model2, df2), "prediction"))
+  expect_equal(sort(prediction2$prediction), c("0.0", "0.0", "0.0", "0.0", "0.0"))
 })
 
 test_that("spark.mlp", {