## What changes were proposed in this pull request?
This PR proposes three things as below:
- Use casting rules to a timestamp in `to_timestamp` by default (it was `yyyy-MM-dd HH:mm:ss`).
- Support single argument for `to_timestamp` similarly with APIs in other languages.
For example, the one below works
```
import org.apache.spark.sql.functions._
Seq("2016-12-31 00:12:00.00").toDF("a").select(to_timestamp(col("a"))).show()
```
prints
```
+----------------------------------------+
|to_timestamp(`a`, 'yyyy-MM-dd HH:mm:ss')|
+----------------------------------------+
| 2016-12-31 00:12:00|
+----------------------------------------+
```
whereas this does not work in SQL.
**Before**
```
spark-sql> SELECT to_timestamp('2016-12-31 00:12:00');
Error in query: Invalid number of arguments for function to_timestamp; line 1 pos 7
```
**After**
```
spark-sql> SELECT to_timestamp('2016-12-31 00:12:00');
2016-12-31 00:12:00
```
- Related document improvement for SQL function descriptions and other API descriptions accordingly.
**Before**
```
spark-sql> DESCRIBE FUNCTION extended to_date;
...
Usage: to_date(date_str, fmt) - Parses the `left` expression with the `fmt` expression. Returns null with invalid input.
Extended Usage:
Examples:
> SELECT to_date('2016-12-31', 'yyyy-MM-dd');
2016-12-31
```
```
spark-sql> DESCRIBE FUNCTION extended to_timestamp;
...
Usage: to_timestamp(timestamp, fmt) - Parses the `left` expression with the `format` expression to a timestamp. Returns null with invalid input.
Extended Usage:
Examples:
> SELECT to_timestamp('2016-12-31', 'yyyy-MM-dd');
2016-12-31 00:00:00.0
```
**After**
```
spark-sql> DESCRIBE FUNCTION extended to_date;
...
Usage:
to_date(date_str[, fmt]) - Parses the `date_str` expression with the `fmt` expression to
a date. Returns null with invalid input. By default, it follows casting rules to a date if
the `fmt` is omitted.
Extended Usage:
Examples:
> SELECT to_date('2009-07-30 04:17:52');
2009-07-30
> SELECT to_date('2016-12-31', 'yyyy-MM-dd');
2016-12-31
```
```
spark-sql> DESCRIBE FUNCTION extended to_timestamp;
...
Usage:
to_timestamp(timestamp[, fmt]) - Parses the `timestamp` expression with the `fmt` expression to
a timestamp. Returns null with invalid input. By default, it follows casting rules to
a timestamp if the `fmt` is omitted.
Extended Usage:
Examples:
> SELECT to_timestamp('2016-12-31 00:12:00');
2016-12-31 00:12:00
> SELECT to_timestamp('2016-12-31', 'yyyy-MM-dd');
2016-12-31 00:00:00
```
## How was this patch tested?
Added tests in `datetime.sql`.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17901 from HyukjinKwon/to_timestamp_arg.
## What changes were proposed in this pull request?
- [x] need to test by running R CMD check --as-cran
- [x] sanity check vignettes
## How was this patch tested?
Jenkins
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17945 from felixcheung/rchangesforpackage.
## What changes were proposed in this pull request?
Change it to check for relative count like in this test https://github.com/apache/spark/blame/master/R/pkg/inst/tests/testthat/test_sparkSQL.R#L3355 for catalog APIs
## How was this patch tested?
unit tests, this needs to combine with another commit with SQL change to check
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17905 from felixcheung/rtabletests.
## What changes were proposed in this pull request?
Cleaning existing temp tables before running tableNames tests
## How was this patch tested?
SparkR Unit tests
Author: Hossein <hossein@databricks.com>
Closes#17903 from falaki/SPARK-20661.
## What changes were proposed in this pull request?
Fix typo in vignettes
Author: Wayne Zhang <actuaryzhang@uber.com>
Closes#17884 from actuaryzhang/typo.
## What changes were proposed in this pull request?
set timezone on windows
## How was this patch tested?
unit test, AppVeyor
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17892 from felixcheung/rtimestamptest.
## What changes were proposed in this pull request?
- Add SparkR wrapper for `Dataset.alias`.
- Adjust roxygen annotations for `functions.alias` (including example usage).
## How was this patch tested?
Unit tests, `check_cran.sh`.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17825 from zero323/SPARK-20550.
## What changes were proposed in this pull request?
add environment
## How was this patch tested?
wait for appveyor run
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17878 from felixcheung/appveyorrcran.
## What changes were proposed in this pull request?
Make tests more reliable by having it till processed.
Increasing timeout value might help but ultimately the flakiness from processing delay when Jenkins is hard to account for. This isn't an actual public API supported
## How was this patch tested?
unit tests
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17857 from felixcheung/rsstestrelia.
## What changes were proposed in this pull request?
Adds wrapper for `o.a.s.sql.functions.input_file_name`
## How was this patch tested?
Existing unit tests, additional unit tests, `check-cran.sh`.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17818 from zero323/SPARK-20544.
## What changes were proposed in this pull request?
Adds support for generic hints on `SparkDataFrame`
## How was this patch tested?
Unit tests, `check-cran.sh`
Author: zero323 <zero323@users.noreply.github.com>
Closes#17851 from zero323/SPARK-20585.
## What changes were proposed in this pull request?
Add
- R vignettes
- R programming guide
- SS programming guide
- R example
Also disable spark.als in vignettes for now since it's failing (SPARK-20402)
## How was this patch tested?
manually
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17814 from felixcheung/rdocss.
## What changes were proposed in this pull request?
General rule on skip or not:
skip if
- RDD tests
- tests could run long or complicated (streaming, hivecontext)
- tests on error conditions
- tests won't likely change/break
## How was this patch tested?
unit tests, `R CMD check --as-cran`, `R CMD check`
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17817 from felixcheung/rskiptest.
## What changes were proposed in this pull request?
doc only
## How was this patch tested?
manual
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17828 from felixcheung/rnotfamily.
## What changes were proposed in this pull request?
Adds R wrappers for:
- `o.a.s.sql.functions.grouping` as `o.a.s.sql.functions.is_grouping` (to avoid shading `base::grouping`
- `o.a.s.sql.functions.grouping_id`
## How was this patch tested?
Existing unit tests, additional unit tests. `check-cran.sh`.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17807 from zero323/SPARK-20532.
## What changes were proposed in this pull request?
Add without param for timeout - will need this to submit a job that runs until stopped
Need this for 2.2
## How was this patch tested?
manually, unit test
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17815 from felixcheung/rssawaitinfinite.
## What changes were proposed in this pull request?
- Add null-safe equality operator `%<=>%` (sames as `o.a.s.sql.Column.eqNullSafe`, `o.a.s.sql.Column.<=>`)
- Add boolean negation operator `!` and function `not `.
## How was this patch tested?
Existing unit tests, additional unit tests, `check-cran.sh`.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17783 from zero323/SPARK-20490.
## What changes were proposed in this pull request?
Ad R wrappers for
- `o.a.s.sql.functions.explode_outer`
- `o.a.s.sql.functions.posexplode_outer`
## How was this patch tested?
Additional unit tests, manual testing.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17809 from zero323/SPARK-20535.
## What changes were proposed in this pull request?
It seems we are using `SQLUtils.getSQLDataType` for type string in structField. It looks we can replace this with `CatalystSqlParser.parseDataType`.
They look similar DDL-like type definitions as below:
```scala
scala> Seq(Tuple1(Tuple1("a"))).toDF.show()
```
```
+---+
| _1|
+---+
|[a]|
+---+
```
```scala
scala> Seq(Tuple1(Tuple1("a"))).toDF.select($"_1".cast("struct<_1:string>")).show()
```
```
+---+
| _1|
+---+
|[a]|
+---+
```
Such type strings looks identical when R’s one as below:
```R
> write.df(sql("SELECT named_struct('_1', 'a') as struct"), "/tmp/aa", "parquet")
> collect(read.df("/tmp/aa", "parquet", structType(structField("struct", "struct<_1:string>"))))
struct
1 a
```
R’s one is stricter because we are checking the types via regular expressions in R side ahead.
Actual logics there look a bit different but as we check it ahead in R side, it looks replacing it would not introduce (I think) no behaviour changes. To make this sure, the tests dedicated for it were added in SPARK-20105. (It looks `structField` is the only place that calls this method).
## How was this patch tested?
Existing tests - https://github.com/apache/spark/blob/master/R/pkg/inst/tests/testthat/test_sparkSQL.R#L143-L194 should cover this.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17785 from HyukjinKwon/SPARK-20493.
## What changes were proposed in this pull request?
Replace
note repeat_string 2.3.0
with
note repeat_string since 2.3.0
## How was this patch tested?
`create-docs.sh`
Author: zero323 <zero323@users.noreply.github.com>
Closes#17779 from zero323/REPEAT-NOTE.
## What changes were proposed in this pull request?
Some PySpark & SparkR tests run with tiny dataset and tiny ```maxIter```, which means they are not converged. I don’t think checking intermediate result during iteration make sense, and these intermediate result may vulnerable and not stable, so we should switch to check the converged result. We hit this issue at #17746 when we upgrade breeze to 0.13.1.
## How was this patch tested?
Existing tests.
Author: Yanbo Liang <ybliang8@gmail.com>
Closes#17757 from yanboliang/flaky-test.
## What changes were proposed in this pull request?
- Add `rollup` and `cube` methods and corresponding generics.
- Add short description to the vignette.
## How was this patch tested?
- Existing unit tests.
- Additional unit tests covering new features.
- `check-cran.sh`.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17728 from zero323/SPARK-20437.
## What changes were proposed in this pull request?
Upgrade breeze version to 0.13.1, which fixed some critical bugs of L-BFGS-B.
## How was this patch tested?
Existing unit tests.
Author: Yanbo Liang <ybliang8@gmail.com>
Closes#17746 from yanboliang/spark-20449.
## What changes were proposed in this pull request?
Add wrappers for `o.a.s.sql.functions`:
- `split` as `split_string`
- `repeat` as `repeat_string`
## How was this patch tested?
Existing tests, additional unit tests, `check-cran.sh`
Author: zero323 <zero323@users.noreply.github.com>
Closes#17729 from zero323/SPARK-20438.
## What changes were proposed in this pull request?
Adds wrappers for `collect_list` and `collect_set`.
## How was this patch tested?
Unit tests, `check-cran.sh`
Author: zero323 <zero323@users.noreply.github.com>
Closes#17672 from zero323/SPARK-20371.
## What changes were proposed in this pull request?
Adds wrappers for `o.a.s.sql.functions.array` and `o.a.s.sql.functions.map`
## How was this patch tested?
Unit tests, `check-cran.sh`
Author: zero323 <zero323@users.noreply.github.com>
Closes#17674 from zero323/SPARK-20375.
## What changes were proposed in this pull request?
Checking a source parameter is asynchronous. When the query is created, it's not guaranteed that source has been created. This PR just increases the timeout of awaitTermination to ensure the parsing error is thrown.
## How was this patch tested?
Jenkins
Author: Shixiong Zhu <shixiong@databricks.com>
Closes#17687 from zsxwing/SPARK-20397.
## What changes were proposed in this pull request?
Document fpGrowth in:
- vignettes
- programming guide
- code example
## How was this patch tested?
Manual tests.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17557 from zero323/SPARK-20208.
## What changes were proposed in this pull request?
This was suggested to be `as.json.array` at the first place in the PR to SPARK-19828 but we could not do this as the lint check emits an error for multiple dots in the variable names.
After SPARK-20278, now we are able to use `multiple.dots.in.names`. `asJsonArray` in `from_json` function is still able to be changed as 2.2 is not released yet.
So, this PR proposes to rename `asJsonArray` to `as.json.array`.
## How was this patch tested?
Jenkins tests, local tests with `./R/run-tests.sh` and manual `./dev/lint-r`. Existing tests should cover this.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17653 from HyukjinKwon/SPARK-19828-followup.
## What changes were proposed in this pull request?
Currently, multi-dot separated variables in R is not allowed. For example,
```diff
setMethod("from_json", signature(x = "Column", schema = "structType"),
- function(x, schema, asJsonArray = FALSE, ...) {
+ function(x, schema, as.json.array = FALSE, ...) {
if (asJsonArray) {
jschema <- callJStatic("org.apache.spark.sql.types.DataTypes",
"createArrayType",
```
produces an error as below:
```
R/functions.R:2462:31: style: Words within variable and function names should be separated by '_' rather than '.'.
function(x, schema, as.json.array = FALSE, ...) {
^~~~~~~~~~~~~
```
This seems against https://google.github.io/styleguide/Rguide.xml#identifiers which says
> The preferred form for variable names is all lower case letters and words separated with dots
This looks because lintr by default https://github.com/jimhester/lintr follows http://r-pkgs.had.co.nz/style.html as written in the README.md. Few cases seems not following Google's one as "a few tweaks".
Per [SPARK-6813](https://issues.apache.org/jira/browse/SPARK-6813), we follow Google's R Style Guide with few exceptions https://google.github.io/styleguide/Rguide.xml. This is also merged into Spark's website - https://github.com/apache/spark-website/pull/43
Also, it looks we have no limit on function name. This rule also looks affecting to the name of functions as written in the README.md.
> `multiple_dots_linter`: check that function and variable names are separated by _ rather than ..
## How was this patch tested?
Manually tested `./dev/lint-r`with the manual change below in `R/functions.R`:
```diff
setMethod("from_json", signature(x = "Column", schema = "structType"),
- function(x, schema, asJsonArray = FALSE, ...) {
+ function(x, schema, as.json.array = FALSE, ...) {
if (asJsonArray) {
jschema <- callJStatic("org.apache.spark.sql.types.DataTypes",
"createArrayType",
```
**Before**
```R
R/functions.R:2462:31: style: Words within variable and function names should be separated by '_' rather than '.'.
function(x, schema, as.json.array = FALSE, ...) {
^~~~~~~~~~~~~
```
**After**
```
lintr checks passed.
```
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17590 from HyukjinKwon/disable-dot-in-name.
## What changes were proposed in this pull request?
Fixed spelling of "charactor"
## How was this patch tested?
Spelling change only
Author: Brendan Dwyer <brendan.dwyer@ibm.com>
Closes#17611 from bdwyer2/SPARK-20298.
## What changes were proposed in this pull request?
Test failed because SPARK_HOME is not set before Spark is installed.
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17516 from felixcheung/rdircheckincran.
## What changes were proposed in this pull request?
Following up on #17483, add createTable (which is new in 2.2.0) and deprecate createExternalTable, plus a number of minor fixes
## How was this patch tested?
manual, unit tests
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17511 from felixcheung/rceatetable.
## What changes were proposed in this pull request?
Update doc to remove external for createTable, add refreshByPath in python
## How was this patch tested?
manual
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17512 from felixcheung/catalogdoc.
## What changes were proposed in this pull request?
minor update
zero323
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17526 from felixcheung/rfpgrowthfollowup.
## What changes were proposed in this pull request?
It seems cran check scripts corrects `R/pkg/DESCRIPTION` and follows the order in `Collate` fields.
This PR proposes to fix `catalog.R`'s order so that running this script does not show up a small diff in this file every time.
## How was this patch tested?
Manually via `./R/check-cran.sh`.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17528 from HyukjinKwon/minor-reorder-description.
## What changes were proposed in this pull request?
Adds SparkR API for FPGrowth: [SPARK-19825](https://issues.apache.org/jira/browse/SPARK-19825):
- `spark.fpGrowth` -model training.
- `freqItemsets` and `associationRules` methods with new corresponding generics.
- Scala helper: `org.apache.spark.ml.r. FPGrowthWrapper`
- unit tests.
## How was this patch tested?
Feature specific unit tests.
Author: zero323 <zero323@users.noreply.github.com>
Closes#17170 from zero323/SPARK-19825.
## What changes were proposed in this pull request?
Add a set of catalog API in R
```
"currentDatabase",
"listColumns",
"listDatabases",
"listFunctions",
"listTables",
"recoverPartitions",
"refreshByPath",
"refreshTable",
"setCurrentDatabase",
```
https://github.com/apache/spark/pull/17483/files#diff-6929e6c5e59017ff954e110df20ed7ff
## How was this patch tested?
manual tests, unit tests
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17483 from felixcheung/rcatalog.
JIRA Issue: https://issues.apache.org/jira/browse/SPARK-20123
## What changes were proposed in this pull request?
If $SPARK_HOME or $FWDIR variable contains spaces, then use "./dev/make-distribution.sh --name custom-spark --tgz -Psparkr -Phadoop-2.7 -Phive -Phive-thriftserver -Pmesos -Pyarn" build spark will failed.
## How was this patch tested?
manual tests
Author: zuotingbing <zuo.tingbing9@zte.com.cn>
Closes#17452 from zuotingbing/spark-bulid.
## What changes were proposed in this pull request?
It seems `checkType` and the type string in `structField` are not being tested closely. This string format currently seems SparkR-specific (see d1f6c64c4b/sql/core/src/main/scala/org/apache/spark/sql/api/r/SQLUtils.scala (L93-L131)) but resembles SQL type definition.
Therefore, it seems nicer if we test positive/negative cases in R side.
## How was this patch tested?
Unit tests in `test_sparkSQL.R`.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17439 from HyukjinKwon/r-typestring-tests.
## What changes were proposed in this pull request?
This PR proposes to match minor documentations changes in https://github.com/apache/spark/pull/17399 and https://github.com/apache/spark/pull/17380 to R/Python.
## How was this patch tested?
Manual tests in Python , Python tests via `./python/run-tests.py --module=pyspark-sql` and lint-checks for Python/R.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17429 from HyukjinKwon/minor-match-doc.
## What changes were proposed in this pull request?
SparkR ```spark.getSparkFiles``` fails when it was called on executors, see details at [SPARK-19925](https://issues.apache.org/jira/browse/SPARK-19925).
## How was this patch tested?
Add unit tests, and verify this fix at standalone and yarn cluster.
Author: Yanbo Liang <ybliang8@gmail.com>
Closes#17274 from yanboliang/spark-19925.
## What changes were proposed in this pull request?
When SparkR is installed as a R package there might not be any java runtime.
If it is not there SparkR's `sparkR.session()` will block waiting for the connection timeout, hanging the R IDE/shell, without any notification or message.
## How was this patch tested?
manually
- [x] need to test on Windows
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#16596 from felixcheung/rcheckjava.
## What changes were proposed in this pull request?
Update docs for NaN handling in approxQuantile.
## How was this patch tested?
existing tests.
Author: Zheng RuiFeng <ruifengz@foxmail.com>
Closes#17369 from zhengruifeng/doc_quantiles_nan.
## What changes were proposed in this pull request?
Currently JSON and CSV have exactly the same logic about handling bad records, this PR tries to abstract it and put it in a upper level to reduce code duplication.
The overall idea is, we make the JSON and CSV parser to throw a BadRecordException, then the upper level, FailureSafeParser, handles bad records according to the parse mode.
Behavior changes:
1. with PERMISSIVE mode, if the number of tokens doesn't match the schema, previously CSV parser will treat it as a legal record and parse as many tokens as possible. After this PR, we treat it as an illegal record, and put the raw record string in a special column, but we still parse as many tokens as possible.
2. all logging is removed as they are not very useful in practice.
## How was this patch tested?
existing tests
Author: Wenchen Fan <wenchen@databricks.com>
Author: hyukjinkwon <gurwls223@gmail.com>
Author: Wenchen Fan <cloud0fan@gmail.com>
Closes#17315 from cloud-fan/bad-record2.
## What changes were proposed in this pull request?
doc only change
## How was this patch tested?
manual
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17356 from felixcheung/rdfcheckpoint2.
## What changes were proposed in this pull request?
Add checkpoint, setCheckpointDir API to R
## How was this patch tested?
unit tests, manual tests
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#17351 from felixcheung/rdfcheckpoint.
## What changes were proposed in this pull request?
This PR proposes to support an array of struct type in `to_json` as below:
```scala
import org.apache.spark.sql.functions._
val df = Seq(Tuple1(Tuple1(1) :: Nil)).toDF("a")
df.select(to_json($"a").as("json")).show()
```
```
+----------+
| json|
+----------+
|[{"_1":1}]|
+----------+
```
Currently, it throws an exception as below (a newline manually inserted for readability):
```
org.apache.spark.sql.AnalysisException: cannot resolve 'structtojson(`array`)' due to data type
mismatch: structtojson requires that the expression is a struct expression.;;
```
This allows the roundtrip with `from_json` as below:
```scala
import org.apache.spark.sql.functions._
import org.apache.spark.sql.types._
val schema = ArrayType(StructType(StructField("a", IntegerType) :: Nil))
val df = Seq("""[{"a":1}, {"a":2}]""").toDF("json").select(from_json($"json", schema).as("array"))
df.show()
// Read back.
df.select(to_json($"array").as("json")).show()
```
```
+----------+
| array|
+----------+
|[[1], [2]]|
+----------+
+-----------------+
| json|
+-----------------+
|[{"a":1},{"a":2}]|
+-----------------+
```
Also, this PR proposes to rename from `StructToJson` to `StructsToJson ` and `JsonToStruct` to `JsonToStructs`.
## How was this patch tested?
Unit tests in `JsonFunctionsSuite` and `JsonExpressionsSuite` for Scala, doctest for Python and test in `test_sparkSQL.R` for R.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#17192 from HyukjinKwon/SPARK-19849.
## What changes were proposed in this pull request?
Passes R `tempdir()` (this is the R session temp dir, shared with other temp files/dirs) to JVM, set System.Property for derby home dir to move derby.log
## How was this patch tested?
Manually, unit tests
With this, these are relocated to under /tmp
```
# ls /tmp/RtmpG2M0cB/
derby.log
```
And they are removed automatically when the R session is ended.
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#16330 from felixcheung/rderby.