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[SPARK-20493][R] De-duplicate parse logics for DDL-like type strings in R #17785

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[SPARK-20493][R] De-duplicate parse logics for DDL-like type strings in R #17785

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8874de1
De-deuplicate parse logics for DDL-like type string in R
HyukjinKwon Apr 27, 2017
b802e36
Minimised fix
HyukjinKwon Apr 27, 2017
257e625
Indent mistake
HyukjinKwon Apr 28, 2017
e9d672a
Add tests for each case
HyukjinKwon Apr 28, 2017
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8 changes: 8 additions & 0 deletions R/pkg/R/utils.R
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Original file line number Diff line number Diff line change
Expand Up @@ -864,6 +864,14 @@ captureJVMException <- function(e, method) {
# Extract the first message of JVM exception.
first <- strsplit(msg[2], "\r?\n\tat")[[1]][1]
stop(paste0(rmsg, "no such table - ", first), call. = FALSE)
} else if (any(grep("org.apache.spark.sql.catalyst.parser.ParseException: ", stacktrace))) {
msg <- strsplit(stacktrace, "org.apache.spark.sql.catalyst.parser.ParseException: ",
fixed = TRUE)[[1]]
# Extract "Error in ..." message.
rmsg <- msg[1]
# Extract the first message of JVM exception.
first <- strsplit(msg[2], "\r?\n\tat")[[1]][1]
stop(paste0(rmsg, "parse error - ", first), call. = FALSE)
} else {
stop(stacktrace, call. = FALSE)
}
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6 changes: 3 additions & 3 deletions R/pkg/inst/tests/testthat/test_utils.R
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Expand Up @@ -167,13 +167,13 @@ test_that("convertToJSaveMode", {
})

test_that("captureJVMException", {
method <- "getSQLDataType"
method <- "createStructField"
expect_error(tryCatch(callJStatic("org.apache.spark.sql.api.r.SQLUtils", method,
"unknown"),
"col", "unknown", TRUE),
error = function(e) {
captureJVMException(e, method)
}),
"Error in getSQLDataType : illegal argument - Invalid type unknown")
"parse error - .*DataType unknown.*not supported.")
})

test_that("hashCode", {
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43 changes: 2 additions & 41 deletions sql/core/src/main/scala/org/apache/spark/sql/api/r/SQLUtils.scala
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Original file line number Diff line number Diff line change
Expand Up @@ -31,6 +31,7 @@ import org.apache.spark.broadcast.Broadcast
import org.apache.spark.rdd.RDD
import org.apache.spark.sql._
import org.apache.spark.sql.catalyst.expressions.GenericRowWithSchema
import org.apache.spark.sql.catalyst.parser.CatalystSqlParser
import org.apache.spark.sql.execution.command.ShowTablesCommand
import org.apache.spark.sql.internal.StaticSQLConf.CATALOG_IMPLEMENTATION
import org.apache.spark.sql.types._
Expand Down Expand Up @@ -92,48 +93,8 @@ private[sql] object SQLUtils extends Logging {
def r: Regex = new Regex(sc.parts.mkString, sc.parts.tail.map(_ => "x"): _*)
}

def getSQLDataType(dataType: String): DataType = {
dataType match {
case "byte" => org.apache.spark.sql.types.ByteType
case "integer" => org.apache.spark.sql.types.IntegerType
case "float" => org.apache.spark.sql.types.FloatType
case "double" => org.apache.spark.sql.types.DoubleType
case "numeric" => org.apache.spark.sql.types.DoubleType
case "character" => org.apache.spark.sql.types.StringType
case "string" => org.apache.spark.sql.types.StringType
case "binary" => org.apache.spark.sql.types.BinaryType
case "raw" => org.apache.spark.sql.types.BinaryType
case "logical" => org.apache.spark.sql.types.BooleanType
case "boolean" => org.apache.spark.sql.types.BooleanType
case "timestamp" => org.apache.spark.sql.types.TimestampType
case "date" => org.apache.spark.sql.types.DateType
case r"\Aarray<(.+)${elemType}>\Z" =>
org.apache.spark.sql.types.ArrayType(getSQLDataType(elemType))
case r"\Amap<(.+)${keyType},(.+)${valueType}>\Z" =>
if (keyType != "string" && keyType != "character") {
throw new IllegalArgumentException("Key type of a map must be string or character")
}
org.apache.spark.sql.types.MapType(getSQLDataType(keyType), getSQLDataType(valueType))
case r"\Astruct<(.+)${fieldsStr}>\Z" =>
if (fieldsStr(fieldsStr.length - 1) == ',') {
throw new IllegalArgumentException(s"Invalid type $dataType")
}
val fields = fieldsStr.split(",")
val structFields = fields.map { field =>
field match {
case r"\A(.+)${fieldName}:(.+)${fieldType}\Z" =>
createStructField(fieldName, fieldType, true)

case _ => throw new IllegalArgumentException(s"Invalid type $dataType")
}
}
createStructType(structFields)
case _ => throw new IllegalArgumentException(s"Invalid type $dataType")
}
}

def createStructField(name: String, dataType: String, nullable: Boolean): StructField = {
val dtObj = getSQLDataType(dataType)
val dtObj = CatalystSqlParser.parseDataType(dataType)
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haven't checked myself, what are the differences if any between getSQLDataType and CatalystSqlParser.parseDataType?

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is it

R’s one is stricter because we are checking the types via regular expressions in R side ahead.

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@HyukjinKwon HyukjinKwon Apr 28, 2017 •
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Up to my knowledge, getSQLDataType supports the types below:

binary
boolean
byte
character
date
double
float
integer
logical
numeric
raw
string
timestamp
array<...>
struct<...>
map<...>

and these look required to be case-sensitive whereas parseDataType supports ...

bigint
binary
boolean
byte
char
date
decimal
double
float
int
integer
long
short
smallint
string
timestamp
tinyint
varchar
array<...>
struct<...>
map<...>

and these look case-insensitive.

I think the inital intention for getSQLDataType was to support R type string conversions
too but they look unreachable codes now because we were checking the type strings before actually calling getSQLDataType in checkType.

If the types are not in !is.null(PRIMITIVE_TYPES[[type]]) (case-sensitive), it looks throwing an error.

bigint
binary
boolean
byte
date
decimal
double
float
int
integer
smallint
string
timestamp
tinyint
array<...>
map<...>
struct<...>

In short, I think there should not be a behaviour change below types (intersection between getSQLDataType and parseDataType) ...

binary
string
double
float
boolean
timestamp
date
integer
byte
array<...>
map<...>
struct<...>

and these should be case-sensitive.

Additionally, we will support the types below (which are written in R's PREMISITVE_TYPES but getSQLDataType did not support before):

tinyint
smallint
int
bigint
decimal

Before

> structField("_col", "tinyint")
...
Error in handleErrors(returnStatus, conn) :
  java.lang.IllegalArgumentException: Invalid type tinyint
	at org.apache.spark.sql.api.r.SQLUtils$.getSQLDataType(SQLUtils.scala:131)
	at org.apache.spark.sql.api.r.SQLUtils$.createStructField(SQLUtils.scala:136)
	at org.apache.spark.sql.api.r.SQLUtils.createStructField(SQLUtils.scala)
	...
> structField("_col", "smallint")
...
Error in handleErrors(returnStatus, conn) :
  java.lang.IllegalArgumentException: Invalid type smallint
	at org.apache.spark.sql.api.r.SQLUtils$.getSQLDataType(SQLUtils.scala:131)
	at org.apache.spark.sql.api.r.SQLUtils$.createStructField(SQLUtils.scala:136)
	at org.apache.spark.sql.api.r.SQLUtils.createStructField(SQLUtils.scala)
	...

> structField("_col", "int")
...
Error in handleErrors(returnStatus, conn) :
  java.lang.IllegalArgumentException: Invalid type int
	at org.apache.spark.sql.api.r.SQLUtils$.getSQLDataType(SQLUtils.scala:131)
	at org.apache.spark.sql.api.r.SQLUtils$.createStructField(SQLUtils.scala:136)
	at org.apache.spark.sql.api.r.SQLUtils.createStructField(SQLUtils.scala)
	...

> structField("_col", "bigint")
...
Error in handleErrors(returnStatus, conn) :
  java.lang.IllegalArgumentException: Invalid type bigint
	at org.apache.spark.sql.api.r.SQLUtils$.getSQLDataType(SQLUtils.scala:131)
	at org.apache.spark.sql.api.r.SQLUtils$.createStructField(SQLUtils.scala:136)
	at org.apache.spark.sql.api.r.SQLUtils.createStructField(SQLUtils.scala)
	...
> structField("_col", "decimal")
  ...
  java.lang.IllegalArgumentException: Invalid type decimal
	at org.apache.spark.sql.api.r.SQLUtils$.getSQLDataType(SQLUtils.scala:131)
	at org.apache.spark.sql.api.r.SQLUtils$.createStructField(SQLUtils.scala:136)
	at org.apache.spark.sql.api.r.SQLUtils.createStructField(SQLUtils.scala)
	...

After

> structField("_col", "tinyint")
StructField(name = "_col", type = "ByteType", nullable = TRUE)>
> structField("_col", "smallint")
StructField(name = "_col", type = "ShortType", nullable = TRUE)>
> structField("_col", "int")
StructField(name = "_col", type = "IntegerType", nullable = TRUE)>
> structField("_col", "bigint")
StructField(name = "_col", type = "LongType", nullable = TRUE)>
> structField("_col", "decimal")
StructField(name = "_col", type = "DecimalType(10,0)", nullable = TRUE)>

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I just wrote the details about this at my best. Yes, I think this should be targeted to master not 2.2.

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thanks for looking into it. if I take the diff,

character
logical
numeric
raw

these are actually R native type names though, for which if I have to guess, is intentional that we support R native type in structField as well as Scala/Spark types.

I'm not sure how much coverage we have for something like this but is that going to still work with this change?

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@HyukjinKwon HyukjinKwon Apr 28, 2017 •
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Yea, however, for those types, we can't create that field because the check via checkType fails as it is not in the keys in PREMISITVE_TYPES as below:

> structField("_col", "character")
Error in checkType(type) : Unsupported type for SparkDataframe: character
> structField("_col", "logical")
Error in checkType(type) : Unsupported type for SparkDataframe: logical
> structField("_col", "numeric")
Error in checkType(type) : Unsupported type for SparkDataframe: numeric
> structField("_col", "raw")
Error in checkType(type) : Unsupported type for SparkDataframe: raw

I double-checked this is the only place where we called getSQLDataType and therefore they look unreachable (I hope you could double-check this when you have some time for this one just in case I missed something about this).

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I see - then I suppose this was "broken" when checkType was added / over the past 2 years or so.
I'm ok with this change then - could you please check that each of the case in checkType we have a test for in R?

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Sure, probably those 12 cases in test_sparkSQL.R#L143-L194 and 5 cases in #17785 (comment) of total 17 cases in checkType above will be covered.

Let me double check them and will leave a comment here today.

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Let me add positive cases for ...

bigint
tinyint
int
smallint
decimal

and negative cases for ...

short
varchar
long
char

StructField(name, dtObj, nullable)
}

Expand Down