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Posted to reviews@spark.apache.org by yanboliang <gi...@git.apache.org> on 2015/12/09 09:29:01 UTC
[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
GitHub user yanboliang opened a pull request:
https://github.com/apache/spark/pull/10222
[SPARK-11965] [ML] [Doc] Update user guide for RFormula feature interactions
Update user guide for RFormula feature interactions.
You can merge this pull request into a Git repository by running:
$ git pull https://github.com/yanboliang/spark spark-11965
Alternatively you can review and apply these changes as the patch at:
https://github.com/apache/spark/pull/10222.patch
To close this pull request, make a commit to your master/trunk branch
with (at least) the following in the commit message:
This closes #10222
----
commit b08e0636f9fa3c260b1479156838bd65587434af
Author: Yanbo Liang <yb...@gmail.com>
Date: 2015-12-09T08:26:33Z
Update user guide for RFormula feature interactions
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by AmplabJenkins <gi...@git.apache.org>.
Github user AmplabJenkins commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163651289
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173450319
**[Test build #49850 has started](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49850/consoleFull)** for PR 10222 at commit [`7def89a`](https://github.com/apache/spark/commit/7def89a93c5a533f03368923e150f1973d5ac19d).
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Posted by AmplabJenkins <gi...@git.apache.org>.
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https://github.com/apache/spark/pull/10222#issuecomment-163822295
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163822210
**[Test build #47562 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/47562/consoleFull)** for PR 10222 at commit [`b08e063`](https://github.com/apache/spark/commit/b08e0636f9fa3c260b1479156838bd65587434af).
* This patch passes all tests.
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* This patch adds no public classes.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173459397
**[Test build #49850 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49850/consoleFull)** for PR 10222 at commit [`7def89a`](https://github.com/apache/spark/commit/7def89a93c5a533f03368923e150f1973d5ac19d).
* This patch passes all tests.
* This patch merges cleanly.
* This patch adds no public classes.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163819312
**[Test build #47562 has started](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/47562/consoleFull)** for PR 10222 at commit [`b08e063`](https://github.com/apache/spark/commit/b08e0636f9fa3c260b1479156838bd65587434af).
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by yanboliang <gi...@git.apache.org>.
Github user yanboliang commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163817338
Jenkins, test this please.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by BenFradet <gi...@git.apache.org>.
Github user BenFradet commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r47506815
--- Diff: docs/ml-features.md ---
@@ -2036,7 +2036,25 @@ System.out.println(output.select("userFeatures", "features").first());
## RFormula
-`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html). It produces a vector column of features and a double column of labels. Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles. If not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
+`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html).
+Currently we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'.
+The meanings of basic operator are:
+
+* `~` separate target and terms
+* `+` concat terms, “+ 0” means removing intercept
+* `-` remove a term, “- 1” means removing intercept
+* `:` interaction (multiplication for numeric values, or binarized categorical values)
+* `.` all columns except target
+
+Suppose `a` and `b` are double columns, we use the following simple examples to illustrate the effect of `RFormula`:
+
+* `y ~ a + b` means model `y = w0 + w1 * a + w2 * b` where `w0` is the intercept and `w1, w2` are coefficients
+* `y ~ a + b + a:b - 1` means model `y = w1 * a + w2 * b + w3 * a * b` where `w1, w2, w3` are coefficients, which is the same as `y ~ (a + b)^2 + 0`
+
+`RFormula` produces a vector column of features and a double or string column of label.
+Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles.
+If the label column is string type, it will be first transformed to double label with `StringIndexer`.
--- End diff --
I'd say: "If the label column is of type string, it will be first transformed to double with `StringIndexer`."
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by AmplabJenkins <gi...@git.apache.org>.
Github user AmplabJenkins commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173241007
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Posted by AmplabJenkins <gi...@git.apache.org>.
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Posted by AmplabJenkins <gi...@git.apache.org>.
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https://github.com/apache/spark/pull/10222#issuecomment-173459488
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by BenFradet <gi...@git.apache.org>.
Github user BenFradet commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-164459703
A few remarks regarding phrasing but otherwise it lgtm.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-174638809
Merged into master. Thanks!
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173240997
**[Test build #49787 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49787/consoleFull)** for PR 10222 at commit [`feac366`](https://github.com/apache/spark/commit/feac366c012705324040766237a129c47fb1f215).
* This patch **fails Scala style tests**.
* This patch merges cleanly.
* This patch adds no public classes.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-165024211
**[Test build #47799 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/47799/consoleFull)** for PR 10222 at commit [`a98f0af`](https://github.com/apache/spark/commit/a98f0af6a22a83e44dcb8ff5a78e17a840ee64ba).
* This patch passes all tests.
* This patch merges cleanly.
* This patch adds no public classes.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by BenFradet <gi...@git.apache.org>.
Github user BenFradet commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r47506120
--- Diff: docs/ml-features.md ---
@@ -2036,7 +2036,25 @@ System.out.println(output.select("userFeatures", "features").first());
## RFormula
-`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html). It produces a vector column of features and a double column of labels. Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles. If not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
+`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html).
+Currently we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'.
+The meanings of basic operator are:
+
+* `~` separate target and terms
+* `+` concat terms, “+ 0” means removing intercept
+* `-` remove a term, “- 1” means removing intercept
+* `:` interaction (multiplication for numeric values, or binarized categorical values)
+* `.` all columns except target
+
+Suppose `a` and `b` are double columns, we use the following simple examples to illustrate the effect of `RFormula`:
+
+* `y ~ a + b` means model `y = w0 + w1 * a + w2 * b` where `w0` is the intercept and `w1, w2` are coefficients
+* `y ~ a + b + a:b - 1` means model `y = w1 * a + w2 * b + w3 * a * b` where `w1, w2, w3` are coefficients, which is the same as `y ~ (a + b)^2 + 0`
+
+`RFormula` produces a vector column of features and a double or string column of label.
+Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles.
+If the label column is string type, it will be first transformed to double label with `StringIndexer`.
+If the label does not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
--- End diff --
"If the label **is** not"
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163651213
**[Test build #47520 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/47520/consoleFull)** for PR 10222 at commit [`b08e063`](https://github.com/apache/spark/commit/b08e0636f9fa3c260b1479156838bd65587434af).
* This patch **fails MiMa tests**.
* This patch merges cleanly.
* This patch adds no public classes.
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https://github.com/apache/spark/pull/10222#issuecomment-173253785
**[Test build #49790 has started](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49790/consoleFull)** for PR 10222 at commit [`bc6ed66`](https://github.com/apache/spark/commit/bc6ed66480d0cd8b5064416062b6d1ac0c2e174b).
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https://github.com/apache/spark/pull/10222#issuecomment-173240409
**[Test build #49787 has started](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49787/consoleFull)** for PR 10222 at commit [`feac366`](https://github.com/apache/spark/commit/feac366c012705324040766237a129c47fb1f215).
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173238561
**[Test build #49786 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49786/consoleFull)** for PR 10222 at commit [`3b9e886`](https://github.com/apache/spark/commit/3b9e886702bc2c20c35d93c20305ac8353fc7386).
* This patch passes all tests.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163150264
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-163152437
**[Test build #47420 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/47420/consoleFull)** for PR 10222 at commit [`b08e063`](https://github.com/apache/spark/commit/b08e0636f9fa3c260b1479156838bd65587434af).
* This patch passes all tests.
* This patch merges cleanly.
* This patch adds no public classes.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r50298757
--- Diff: mllib/src/main/scala/org/apache/spark/ml/feature/RFormula.scala ---
@@ -45,6 +45,28 @@ private[feature] trait RFormulaBase extends HasFeaturesCol with HasLabelCol {
* Implements the transforms required for fitting a dataset against an R model formula. Currently
* we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'. Also see
* the R formula docs here: http://stat.ethz.ch/R-manual/R-patched/library/stats/html/formula.html
+ *
+ * The basic operators are:
+ *
+ * `~` separate target and terms
--- End diff --
This is not the correct ScalaDoc syntax for a list. See https://wiki.scala-lang.org/display/SW/Syntax. You can run `build/sbt mllib/doc` to check the generated html API doc.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173270586
**[Test build #49790 has finished](https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/49790/consoleFull)** for PR 10222 at commit [`bc6ed66`](https://github.com/apache/spark/commit/bc6ed66480d0cd8b5064416062b6d1ac0c2e174b).
* This patch passes all tests.
* This patch merges cleanly.
* This patch adds no public classes.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173321436
LGTM except one minor issue on ScalaDoc syntax.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r50185237
--- Diff: docs/ml-features.md ---
@@ -2036,7 +2036,25 @@ System.out.println(output.select("userFeatures", "features").first());
## RFormula
-`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html). It produces a vector column of features and a double column of labels. Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles. If not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
+`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html).
+Currently we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'.
+The basic operators are:
+
+* `~` separate target and terms
+* `+` concat terms, “+ 0” means removing intercept
+* `-` remove a term, “- 1” means removing intercept
+* `:` interaction (multiplication for numeric values, or binarized categorical values)
+* `.` all columns except target
+
+Suppose `a` and `b` are double columns, we use the following simple examples to illustrate the effect of `RFormula`:
+
+* `y ~ a + b` means model `y = w0 + w1 * a + w2 * b` where `w0` is the intercept and `w1, w2` are coefficients
+* `y ~ a + b + a:b - 1` means model `y = w1 * a + w2 * b + w3 * a * b` where `w1, w2, w3` are coefficients, which is the same as `y ~ (a + b)^2 + 0`
--- End diff --
* `=` -> `~`
* We don't support `^`. Mentioning it would confuse users.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by asfgit <gi...@git.apache.org>.
Github user asfgit closed the pull request at:
https://github.com/apache/spark/pull/10222
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by AmplabJenkins <gi...@git.apache.org>.
Github user AmplabJenkins commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173238729
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by AmplabJenkins <gi...@git.apache.org>.
Github user AmplabJenkins commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173459490
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by BenFradet <gi...@git.apache.org>.
Github user BenFradet commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r47506224
--- Diff: docs/ml-features.md ---
@@ -2036,7 +2036,25 @@ System.out.println(output.select("userFeatures", "features").first());
## RFormula
-`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html). It produces a vector column of features and a double column of labels. Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles. If not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
+`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html).
+Currently we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'.
+The meanings of basic operator are:
--- End diff --
I'd say "**the** basic operator**s**".
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by SparkQA <gi...@git.apache.org>.
Github user SparkQA commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173235301
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Posted by AmplabJenkins <gi...@git.apache.org>.
Github user AmplabJenkins commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-165024295
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https://github.com/apache/spark/pull/10222#issuecomment-163644538
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by AmplabJenkins <gi...@git.apache.org>.
Github user AmplabJenkins commented on the pull request:
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on the pull request:
https://github.com/apache/spark/pull/10222#issuecomment-173007349
Made some minor comments inline. We should consider copying the content to the API doc to keep the API doc and user guide in sync. It would be nice if we can define a process to update the doc. My recommendation is to keep the Scala API doc update-to-date and then make user guide and Python/R API doc derive from it.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by AmplabJenkins <gi...@git.apache.org>.
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r50185241
--- Diff: docs/ml-features.md ---
@@ -2036,7 +2036,25 @@ System.out.println(output.select("userFeatures", "features").first());
## RFormula
-`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html). It produces a vector column of features and a double column of labels. Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles. If not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
+`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html).
+Currently we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'.
+The basic operators are:
+
+* `~` separate target and terms
+* `+` concat terms, “+ 0” means removing intercept
+* `-` remove a term, “- 1” means removing intercept
+* `:` interaction (multiplication for numeric values, or binarized categorical values)
+* `.` all columns except target
+
+Suppose `a` and `b` are double columns, we use the following simple examples to illustrate the effect of `RFormula`:
+
+* `y ~ a + b` means model `y = w0 + w1 * a + w2 * b` where `w0` is the intercept and `w1, w2` are coefficients
+* `y ~ a + b + a:b - 1` means model `y = w1 * a + w2 * b + w3 * a * b` where `w1, w2, w3` are coefficients, which is the same as `y ~ (a + b)^2 + 0`
+
+`RFormula` produces a vector column of features and a double or string column of label.
+Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles.
+If the label column is of type string, it will be first transformed to double with `StringIndexer`.
+If the label is not in the DataFrame, the output label column will be created from the specified response variable in the formula.
--- End diff --
`If the label is not in the DataFrame` -> `If the label column does not exist in the DataFrame`
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[GitHub] spark pull request: [SPARK-11965] [ML] [Doc] Update user guide for...
Posted by mengxr <gi...@git.apache.org>.
Github user mengxr commented on a diff in the pull request:
https://github.com/apache/spark/pull/10222#discussion_r50185233
--- Diff: docs/ml-features.md ---
@@ -2036,7 +2036,25 @@ System.out.println(output.select("userFeatures", "features").first());
## RFormula
-`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html). It produces a vector column of features and a double column of labels. Like when formulas are used in R for linear regression, string input columns will be one-hot encoded, and numeric columns will be cast to doubles. If not already present in the DataFrame, the output label column will be created from the specified response variable in the formula.
+`RFormula` selects columns specified by an [R model formula](https://stat.ethz.ch/R-manual/R-devel/library/stats/html/formula.html).
+Currently we support a limited subset of the R operators, including '~', '.', ':', '+', and '-'.
+The basic operators are:
+
+* `~` separate target and terms
+* `+` concat terms, “+ 0” means removing intercept
+* `-` remove a term, “- 1” means removing intercept
+* `:` interaction (multiplication for numeric values, or binarized categorical values)
+* `.` all columns except target
+
+Suppose `a` and `b` are double columns, we use the following simple examples to illustrate the effect of `RFormula`:
+
+* `y ~ a + b` means model `y = w0 + w1 * a + w2 * b` where `w0` is the intercept and `w1, w2` are coefficients
--- End diff --
`=` -> `~` because the model family is not yet determined
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