## What changes were proposed in this pull request?
This pr is to add pattern-matching entries for array data in `Literal.apply`.
## How was this patch tested?
Added tests in `LiteralExpressionSuite`.
Author: Takeshi YAMAMURO <linguin.m.s@gmail.com>
Closes#15257 from maropu/SPARK-17683.
## What changes were proposed in this pull request?
Simplify struct creation, especially the aspect of `CleanupAliases` which missed some aliases when handling trees created by `CreateStruct`.
This PR includes:
1. A failing test (create struct with nested aliases, some of the aliases survive `CleanupAliases`).
2. A fix that transforms `CreateStruct` into a `CreateNamedStruct` constructor, effectively eliminating `CreateStruct` from all expression trees.
3. A `NamePlaceHolder` used by `CreateStruct` when column names cannot be extracted from unresolved `NamedExpression`.
4. A new Analyzer rule that resolves `NamePlaceHolder` into a string literal once the `NamedExpression` is resolved.
5. `CleanupAliases` code was simplified as it no longer has to deal with `CreateStruct`'s top level columns.
## How was this patch tested?
Running all tests-suits in package org.apache.spark.sql, especially including the analysis suite, making sure added test initially fails, after applying suggested fix rerun the entire analysis package successfully.
Modified few tests that expected `CreateStruct` which is now transformed into `CreateNamedStruct`.
Author: eyal farago <eyal farago>
Author: Herman van Hovell <hvanhovell@databricks.com>
Author: eyal farago <eyal.farago@gmail.com>
Author: Eyal Farago <eyal.farago@actimize.com>
Author: Hyukjin Kwon <gurwls223@gmail.com>
Author: eyalfa <eyal.farago@gmail.com>
Closes#15718 from hvanhovell/SPARK-16839-2.
## What changes were proposed in this pull request?
Fix `Locale.US` for all usages of `DateFormat`, `NumberFormat`
## How was this patch tested?
Existing tests.
Author: Sean Owen <sowen@cloudera.com>
Closes#15610 from srowen/SPARK-18076.
## What changes were proposed in this pull request?
Removing `appUIAddress` attribute since it is no longer in use.
## How was this patch tested?
Local build
Author: Jacek Laskowski <jacek@japila.pl>
Closes#15603 from jaceklaskowski/sparkui-fixes.
## What changes were proposed in this pull request?
This patch uses `{% highlight lang %}...{% endhighlight %}` to highlight code snippets in the `Structured Streaming Kafka010 integration doc` and the `Spark Streaming Kafka010 integration doc`.
This patch consists of two commits:
- the first commit fixes only the leading spaces -- this is large
- the second commit adds the highlight instructions -- this is much simpler and easier to review
## How was this patch tested?
SKIP_API=1 jekyll build
## Screenshots
**Before**
**After**
Author: Liwei Lin <lwlin7@gmail.com>
Closes#15715 from lw-lin/doc-highlight-code-snippet.
## What changes were proposed in this pull request?
If my understanding is correct we should be rather looking at closed disk than the opened one.
## How was this patch tested?
Run simple comparison, of the mean squared error of approaches with closed and opened disk.
https://gist.github.com/mrydzy/1cf0e5c316ef9d6fbd91426b91f1969f
The closed one performed slightly better, but the tested sample wasn't too big, so I rely mostly on the algorithm understanding.
Author: Maria Rydzy <majrydzy+gh@gmail.com>
Closes#15687 from mrydzy/master.
## What changes were proposed in this pull request?
This adds information to the web UI thread dump page about the JVM locks
held by threads and the locks that threads are blocked waiting to
acquire. This should help find cases where lock contention is causing
Spark applications to run slowly.
## How was this patch tested?
Tested by applying this patch and viewing the change in the web UI.
Additions:
- A "Thread Locking" column with the locks held by the thread or that are blocking the thread
- Links from the a blocked thread to the thread holding the lock
- Stack frames show where threads are inside `synchronized` blocks, "holding Monitor(...)"
Author: Ryan Blue <blue@apache.org>
Closes#15088 from rdblue/SPARK-17532-add-thread-lock-info.
## What changes were proposed in this pull request?
The PR fixes the bug that the QueryStartedEvent is not logged
the postToAll() in the original code is actually calling StreamingQueryListenerBus.postToAll() which has no listener at all....we shall post by sparkListenerBus.postToAll(s) and this.postToAll() to trigger local listeners as well as the listeners registered in LiveListenerBus
zsxwing
## How was this patch tested?
The following snapshot shows that QueryStartedEvent has been logged correctly
Author: CodingCat <zhunansjtu@gmail.com>
Closes#15675 from CodingCat/SPARK-18144.
## What changes were proposed in this pull request?
This patch adds support for all file formats in structured streaming sinks. This is actually a very small change thanks to all the previous refactoring done using the new internal commit protocol API.
## How was this patch tested?
Updated FileStreamSinkSuite to add test cases for json, text, and parquet.
Author: Reynold Xin <rxin@databricks.com>
Closes#15711 from rxin/SPARK-18192.
## What changes were proposed in this pull request?
There are a couple issues with the current 2.1 behavior when inserting into Datasource tables with partitions managed by Hive.
(1) OVERWRITE TABLE ... PARTITION will actually overwrite the entire table instead of just the specified partition.
(2) INSERT|OVERWRITE does not work with partitions that have custom locations.
This PR fixes both of these issues for Datasource tables managed by Hive. The behavior for legacy tables or when `manageFilesourcePartitions = false` is unchanged.
There is one other issue in that INSERT OVERWRITE with dynamic partitions will overwrite the entire table instead of just the updated partitions, but this behavior is pretty complicated to implement for Datasource tables. We should address that in a future release.
## How was this patch tested?
Unit tests.
Author: Eric Liang <ekl@databricks.com>
Closes#15705 from ericl/sc-4942.
## What changes were proposed in this pull request?
When the metadata logs for various parts of Structured Streaming are stored on non-HDFS filesystems such as NFS or ext4, the HDFSMetadataLog class leaves hidden HDFS-style checksum (CRC) files in the log directory, one file per batch. This PR modifies HDFSMetadataLog so that it detects the use of a filesystem that doesn't use CRC files and removes the CRC files.
## How was this patch tested?
Modified an existing test case in HDFSMetadataLogSuite to check whether HDFSMetadataLog correctly removes CRC files on the local POSIX filesystem. Ran the entire regression suite.
Author: frreiss <frreiss@us.ibm.com>
Closes#15027 from frreiss/fred-17475.
(Link to Jira issue: https://issues.apache.org/jira/browse/SPARK-17992)
## What changes were proposed in this pull request?
We recently added table partition pruning for partitioned Hive tables converted to using `TableFileCatalog`. When the Hive configuration option `hive.metastore.try.direct.sql` is set to `false`, Hive will throw an exception for unsupported filter expressions. For example, attempting to filter on an integer partition column will throw a `org.apache.hadoop.hive.metastore.api.MetaException`.
I discovered this behavior because VideoAmp uses the CDH version of Hive with a Postgresql metastore DB. In this configuration, CDH sets `hive.metastore.try.direct.sql` to `false` by default, and queries that filter on a non-string partition column will fail.
Rather than throw an exception in query planning, this patch catches this exception, logs a warning and returns all table partitions instead. Clients of this method are already expected to handle the possibility that the filters will not be honored.
## How was this patch tested?
A unit test was added.
Author: Michael Allman <michael@videoamp.com>
Closes#15673 from mallman/spark-17992-catch_hive_partition_filter_exception.
## What changes were proposed in this pull request?
This PR proposes to
- improve the R-friendly error messages rather than raw JVM exception one.
As `read.json`, `read.text`, `read.orc`, `read.parquet` and `read.jdbc` are executed in the same path with `read.df`, and `write.json`, `write.text`, `write.orc`, `write.parquet` and `write.jdbc` shares the same path with `write.df`, it seems it is safe to call `handledCallJMethod` to handle
JVM messages.
- prevent `zero-length variable name` and prints the ignored options as an warning message.
**Before**
``` r
> read.json("path", a = 1, 2, 3, "a")
Error in env[[name]] <- value :
zero-length variable name
```
``` r
> read.json("arbitrary_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: Path does not exist: file:/...;
at org.apache.spark.sql.execution.datasources.DataSource$$anonfun$12.apply(DataSource.scala:398)
...
> read.orc("arbitrary_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: Path does not exist: file:/...;
at org.apache.spark.sql.execution.datasources.DataSource$$anonfun$12.apply(DataSource.scala:398)
...
> read.text("arbitrary_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: Path does not exist: file:/...;
at org.apache.spark.sql.execution.datasources.DataSource$$anonfun$12.apply(DataSource.scala:398)
...
> read.parquet("arbitrary_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: Path does not exist: file:/...;
at org.apache.spark.sql.execution.datasources.DataSource$$anonfun$12.apply(DataSource.scala:398)
...
```
``` r
> write.json(df, "existing_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: path file:/... already exists.;
at org.apache.spark.sql.execution.datasources.InsertIntoHadoopFsRelationCommand.run(InsertIntoHadoopFsRelationCommand.scala:68)
> write.orc(df, "existing_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: path file:/... already exists.;
at org.apache.spark.sql.execution.datasources.InsertIntoHadoopFsRelationCommand.run(InsertIntoHadoopFsRelationCommand.scala:68)
> write.text(df, "existing_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: path file:/... already exists.;
at org.apache.spark.sql.execution.datasources.InsertIntoHadoopFsRelationCommand.run(InsertIntoHadoopFsRelationCommand.scala:68)
> write.parquet(df, "existing_path")
Error in invokeJava(isStatic = FALSE, objId$id, methodName, ...) :
org.apache.spark.sql.AnalysisException: path file:/... already exists.;
at org.apache.spark.sql.execution.datasources.InsertIntoHadoopFsRelationCommand.run(InsertIntoHadoopFsRelationCommand.scala:68)
```
**After**
``` r
read.json("arbitrary_path", a = 1, 2, 3, "a")
Unnamed arguments ignored: 2, 3, a.
```
``` r
> read.json("arbitrary_path")
Error in json : analysis error - Path does not exist: file:/...
> read.orc("arbitrary_path")
Error in orc : analysis error - Path does not exist: file:/...
> read.text("arbitrary_path")
Error in text : analysis error - Path does not exist: file:/...
> read.parquet("arbitrary_path")
Error in parquet : analysis error - Path does not exist: file:/...
```
``` r
> write.json(df, "existing_path")
Error in json : analysis error - path file:/... already exists.;
> write.orc(df, "existing_path")
Error in orc : analysis error - path file:/... already exists.;
> write.text(df, "existing_path")
Error in text : analysis error - path file:/... already exists.;
> write.parquet(df, "existing_path")
Error in parquet : analysis error - path file:/... already exists.;
```
## How was this patch tested?
Unit tests in `test_utils.R` and `test_sparkSQL.R`.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#15608 from HyukjinKwon/SPARK-17838.
## What changes were proposed in this pull request?
Column.expr is private[sql], but it's an actually really useful field to have for debugging. We should open it up, similar to how we use QueryExecution.
## How was this patch tested?
N/A - this is a simple visibility change.
Author: Reynold Xin <rxin@databricks.com>
Closes#15724 from rxin/SPARK-18216.
## What changes were proposed in this pull request?
This patch adds a new commit protocol implementation ManifestFileCommitProtocol that follows the existing streaming flow, and uses it in FileStreamSink to consolidate the write path in structured streaming with the batch mode write path.
This deletes a lot of code, and would make it trivial to support other functionalities that are currently available in batch but not in streaming, including all file formats and bucketing.
## How was this patch tested?
Should be covered by existing tests.
Author: Reynold Xin <rxin@databricks.com>
Closes#15710 from rxin/SPARK-18025.
## What changes were proposed in this pull request?
- Renamed kbest to numTopFeatures
- Renamed alpha to fpr
- Added missing Since annotations
- Doc cleanups
## How was this patch tested?
Added new standardized unit tests for spark.ml.
Improved existing unit test coverage a bit.
Author: Joseph K. Bradley <joseph@databricks.com>
Closes#15647 from jkbradley/chisqselector-follow-ups.
The `ReplayListenerBus.read()` method is used when implementing a custom `ApplicationHistoryProvider`. The current interface only exposes a `read()` method which takes an `InputStream` and performs stream-to-lines conversion itself, but it would also be useful to expose an overloaded method which accepts an iterator of strings, thereby enabling events to be provided from non-`InputStream` sources.
Author: Josh Rosen <joshrosen@databricks.com>
Closes#15698 from JoshRosen/replay-listener-bus-interface.
In SPARK-4761 / #3621 (December 2014) we enabled Kryo serialization by default in the Spark Thrift Server. However, I don't think that the original rationale for doing this still holds now that most Spark SQL serialization is now performed via encoders and our UnsafeRow format.
In addition, the use of Kryo as the default serializer can introduce performance problems because the creation of new KryoSerializer instances is expensive and we haven't performed instance-reuse optimizations in several code paths (including DirectTaskResult deserialization).
Given all of this, I propose to revert back to using JavaSerializer as the default serializer in the Thrift Server.
/cc liancheng
Author: Josh Rosen <joshrosen@databricks.com>
Closes#14906 from JoshRosen/disable-kryo-in-thriftserver.
## What changes were proposed in this pull request?
This PR proposes to add `to_json` function in contrast with `from_json` in Scala, Java and Python.
It'd be useful if we can convert a same column from/to json. Also, some datasources do not support nested types. If we are forced to save a dataframe into those data sources, we might be able to work around by this function.
The usage is as below:
``` scala
val df = Seq(Tuple1(Tuple1(1))).toDF("a")
df.select(to_json($"a").as("json")).show()
```
``` bash
+--------+
| json|
+--------+
|{"_1":1}|
+--------+
```
## How was this patch tested?
Unit tests in `JsonFunctionsSuite` and `JsonExpressionsSuite`.
Author: hyukjinkwon <gurwls223@gmail.com>
Closes#15354 from HyukjinKwon/SPARK-17764.
We now know it's a persistent environmental issue that is causing this test to sometimes fail. One hypothesis is that some configuration is leaked from another suite, and depending on suite ordering this can cause this test to fail.
I am planning on mining the jenkins logs to try to narrow down which suite could be causing this. For now, disable the test.
Author: Eric Liang <ekl@databricks.com>
Closes#15720 from ericl/disable-flaky-test.
## What changes were proposed in this pull request?
Aggregation Without Window/GroupBy expressions will fail in `checkAnalysis`, the error message is a bit misleading, we should generate a more specific error message for this case.
For example,
```
spark.read.load("/some-data")
.withColumn("date_dt", to_date($"date"))
.withColumn("year", year($"date_dt"))
.withColumn("week", weekofyear($"date_dt"))
.withColumn("user_count", count($"userId"))
.withColumn("daily_max_in_week", max($"user_count").over(weeklyWindow))
)
```
creates the following output:
```
org.apache.spark.sql.AnalysisException: expression '`randomColumn`' is neither present in the group by, nor is it an aggregate function. Add to group by or wrap in first() (or first_value) if you don't care which value you get.;
```
In the error message above, `randomColumn` doesn't appear in the query(acturally it's added by function `withColumn`), so the message is not enough for the user to address the problem.
## How was this patch tested?
Manually test
Before:
```
scala> spark.sql("select col, count(col) from tbl")
org.apache.spark.sql.AnalysisException: expression 'tbl.`col`' is neither present in the group by, nor is it an aggregate function. Add to group by or wrap in first() (or first_value) if you don't care which value you get.;;
```
After:
```
scala> spark.sql("select col, count(col) from tbl")
org.apache.spark.sql.AnalysisException: grouping expressions sequence is empty, and 'tbl.`col`' is not an aggregate function. Wrap '(count(col#231L) AS count(col)#239L)' in windowing function(s) or wrap 'tbl.`col`' in first() (or first_value) if you don't care which value you get.;;
```
Also add new test sqls in `group-by.sql`.
Author: jiangxingbo <jiangxb1987@gmail.com>
Closes#15672 from jiangxb1987/groupBy-empty.
## What changes were proposed in this pull request?
Likewise [DataSet.scala](https://github.com/apache/spark/blob/master/sql/core/src/main/scala/org/apache/spark/sql/Dataset.scala#L156) KeyValueGroupedDataset should mark the queryExecution as transient.
As mentioned in the Jira ticket, without transient we saw serialization issues like
```
Caused by: java.io.NotSerializableException: org.apache.spark.sql.execution.QueryExecution
Serialization stack:
- object not serializable (class: org.apache.spark.sql.execution.QueryExecution, value: ==
```
## How was this patch tested?
Run the query which is specified in the Jira ticket before and after:
```
val a = spark.createDataFrame(sc.parallelize(Seq((1,2),(3,4)))).as[(Int,Int)]
val grouped = a.groupByKey(
{x:(Int,Int)=>x._1}
)
val mappedGroups = grouped.mapGroups((k,x)=>
{(k,1)}
)
val yyy = sc.broadcast(1)
val last = mappedGroups.rdd.map(xx=>
{ val simpley = yyy.value 1 }
)
```
Author: Ergin Seyfe <eseyfe@fb.com>
Closes#15706 from seyfe/keyvaluegrouped_serialization.
## What changes were proposed in this pull request?
This is a follow-up to https://github.com/apache/spark/pull/15634.
## How was this patch tested?
N/A
Author: Liwei Lin <lwlin7@gmail.com>
Closes#15712 from lw-lin/18103.
## What changes were proposed in this pull request?
1, move cast to `Predictor`
2, and then, remove unnecessary cast
## How was this patch tested?
existing tests
Author: Zheng RuiFeng <ruifengz@foxmail.com>
Closes#15414 from zhengruifeng/move_cast.
## What changes were proposed in this pull request?
Simplify struct creation, especially the aspect of `CleanupAliases` which missed some aliases when handling trees created by `CreateStruct`.
This PR includes:
1. A failing test (create struct with nested aliases, some of the aliases survive `CleanupAliases`).
2. A fix that transforms `CreateStruct` into a `CreateNamedStruct` constructor, effectively eliminating `CreateStruct` from all expression trees.
3. A `NamePlaceHolder` used by `CreateStruct` when column names cannot be extracted from unresolved `NamedExpression`.
4. A new Analyzer rule that resolves `NamePlaceHolder` into a string literal once the `NamedExpression` is resolved.
5. `CleanupAliases` code was simplified as it no longer has to deal with `CreateStruct`'s top level columns.
## How was this patch tested?
running all tests-suits in package org.apache.spark.sql, especially including the analysis suite, making sure added test initially fails, after applying suggested fix rerun the entire analysis package successfully.
modified few tests that expected `CreateStruct` which is now transformed into `CreateNamedStruct`.
Credit goes to hvanhovell for assisting with this PR.
Author: eyal farago <eyal farago>
Author: eyal farago <eyal.farago@gmail.com>
Author: Herman van Hovell <hvanhovell@databricks.com>
Author: Eyal Farago <eyal.farago@actimize.com>
Author: Hyukjin Kwon <gurwls223@gmail.com>
Author: eyalfa <eyal.farago@gmail.com>
Closes#14444 from eyalfa/SPARK-16839_redundant_aliases_after_cleanupAliases.
## What changes were proposed in this pull request?
Currently an unqualified `getFunction(..)`call returns a wrong result; the returned function is shown as temporary function without a database. For example:
```
scala> sql("create function fn1 as 'org.apache.hadoop.hive.ql.udf.generic.GenericUDFAbs'")
res0: org.apache.spark.sql.DataFrame = []
scala> spark.catalog.getFunction("fn1")
res1: org.apache.spark.sql.catalog.Function = Function[name='fn1', className='org.apache.hadoop.hive.ql.udf.generic.GenericUDFAbs', isTemporary='true']
```
This PR fixes this by adding database information to ExpressionInfo (which is used to store the function information).
## How was this patch tested?
Added more thorough tests to `CatalogSuite`.
Author: Herman van Hovell <hvanhovell@databricks.com>
Closes#15542 from hvanhovell/SPARK-17996.
## What changes were proposed in this pull request?
Enclose --conf option value with "" to support multi value configs like spark.driver.extraJavaOptions, without "", driver will fail to start.
## How was this patch tested?
Jenkins Tests.
Test in our production environment, also unit tests, It is a very small change.
Author: Wang Lei <lei.wang@kongming-inc.com>
Closes#15643 from LeightonWong/messos-cluster.
## What changes were proposed in this pull request?
Migrate Mesos configs to use ConfigEntry
## How was this patch tested?
Jenkins Tests
Author: Sandeep Singh <sandeep@techaddict.me>
Closes#15654 from techaddict/SPARK-16881.
Mesos 0.23.0 introduces a Fetch Cache feature http://mesos.apache.org/documentation/latest/fetcher/ which allows caching of resources specified in command URIs.
This patch:
- Updates the Mesos shaded protobuf dependency to 0.23.0
- Allows setting `spark.mesos.fetcherCache.enable` to enable the fetch cache for all specified URIs. (URIs must be specified for the setting to have any affect)
- Updates documentation for Mesos configuration with the new setting.
This patch does NOT:
- Allow for per-URI caching configuration. The cache setting is global to ALL URIs for the command.
Author: Charles Allen <charles@allen-net.com>
Closes#13713 from drcrallen/SPARK15994.
## What changes were proposed in this pull request?
When multiple records have the minimum value, the answer of ApproximatePercentile is wrong.
## How was this patch tested?
add a test case
Author: wangzhenhua <wangzhenhua@huawei.com>
Closes#15641 from wzhfy/percentile.
## What changes were proposed in this pull request?
This PR merges multiple lines enumerating items in order to remove the redundant spaces following slashes in [Structured Streaming Programming Guide in 2.0.2-rc1](http://people.apache.org/~pwendell/spark-releases/spark-2.0.2-rc1-docs/structured-streaming-programming-guide.html).
- Before: `Scala/ Java/ Python`
- After: `Scala/Java/Python`
## How was this patch tested?
Manual by the followings because this is documentation update.
```
cd docs
SKIP_API=1 jekyll build
```
Author: Dongjoon Hyun <dongjoon@apache.org>
Closes#15686 from dongjoon-hyun/minor_doc_space.
## What changes were proposed in this pull request?
As reported on the jira, insert overwrite statement runs much slower in Spark, compared with hive-client.
It seems there is a patch [HIVE-11940](ba21806b77) which largely improves insert overwrite performance on Hive. HIVE-11940 is patched after Hive 2.0.0.
Because Spark SQL uses older Hive library, we can not benefit from such improvement.
The reporter verified that there is also a big performance gap between Hive 1.2.1 (520.037 secs) and Hive 2.0.1 (35.975 secs) on insert overwrite execution.
Instead of upgrading to Hive 2.0 in Spark SQL, which might not be a trivial task, this patch provides an approach to delete the partition before asking Hive to load data files into the partition.
Note: The case reported on the jira is insert overwrite to partition. Since `Hive.loadTable` also uses the function to replace files, insert overwrite to table should has the same issue. We can take the same approach to delete the table first. I will upgrade this to include this.
## How was this patch tested?
Jenkins tests.
There are existing tests using insert overwrite statement. Those tests should be passed. I added a new test to specially test insert overwrite into partition.
For performance issue, as I don't have Hive 2.0 environment, this needs the reporter to verify it. Please refer to the jira.
Please review https://cwiki.apache.org/confluence/display/SPARK/Contributing+to+Spark before opening a pull request.
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes#15667 from viirya/improve-hive-insertoverwrite.
## What changes were proposed in this pull request?
This patch introduces an internal commit protocol API that is used by the batch data source to do write commits. It currently has only one implementation that uses Hadoop MapReduce's OutputCommitter API. In the future, this commit API can be used to unify streaming and batch commits.
## How was this patch tested?
Should be covered by existing write tests.
Author: Reynold Xin <rxin@databricks.com>
Author: Eric Liang <ekl@databricks.com>
Closes#15707 from rxin/SPARK-18024-2.
## What changes were proposed in this pull request?
This will re-run the flaky test a few times after it fails. This will help determine if it's due to nondeterministic test setup, or because of some environment issue (e.g. leaked config from another test).
cc yhuai
Author: Eric Liang <ekl@databricks.com>
Closes#15708 from ericl/spark-18167-3.
## What changes were proposed in this pull request?
When inserting into datasource tables with partitions managed by the hive metastore, we need to notify the metastore of newly added partitions. Previously this was implemented via `msck repair table`, but this is more expensive than needed.
This optimizes the insertion path to add only the updated partitions.
## How was this patch tested?
Existing tests (I verified manually that tests fail if the repair operation is omitted).
Author: Eric Liang <ekl@databricks.com>
Closes#15633 from ericl/spark-18087.
## What changes were proposed in this pull request?
One possibility for this test flaking is that we have corrupted the partition schema somehow in the tests, which causes the cast to decimal to fail in the call. This should at least show us the actual partition values.
## How was this patch tested?
Run it locally, it prints out something like `ArrayBuffer(test(partcol=0), test(partcol=1), test(partcol=2), test(partcol=3), test(partcol=4))`.
Author: Eric Liang <ekl@databricks.com>
Closes#15701 from ericl/print-more-info.
## What changes were proposed in this pull request?
The test `when schema inference is turned on, should read partition data` should not delete files because the source maybe is listing files. This PR just removes the delete actions since they are not necessary.
## How was this patch tested?
Jenkins
Author: Shixiong Zhu <shixiong@databricks.com>
Closes#15699 from zsxwing/SPARK-18030.
## What changes were proposed in this pull request?
### Problem
Iterative ML code may easily create query plans that grow exponentially. We found that query planning time also increases exponentially even when all the sub-plan trees are cached.
The following snippet illustrates the problem:
``` scala
(0 until 6).foldLeft(Seq(1, 2, 3).toDS) { (plan, iteration) =>
println(s"== Iteration $iteration ==")
val time0 = System.currentTimeMillis()
val joined = plan.join(plan, "value").join(plan, "value").join(plan, "value").join(plan, "value")
joined.cache()
println(s"Query planning takes ${System.currentTimeMillis() - time0} ms")
joined.as[Int]
}
// == Iteration 0 ==
// Query planning takes 9 ms
// == Iteration 1 ==
// Query planning takes 26 ms
// == Iteration 2 ==
// Query planning takes 53 ms
// == Iteration 3 ==
// Query planning takes 163 ms
// == Iteration 4 ==
// Query planning takes 700 ms
// == Iteration 5 ==
// Query planning takes 3418 ms
```
This is because when building a new Dataset, the new plan is always built upon `QueryExecution.analyzed`, which doesn't leverage existing cached plans.
On the other hand, usually, doing caching every a few iterations may not be the right direction for this problem since caching is too memory consuming (imaging computing connected components over a graph with 50 billion nodes). What we really need here is to truncate both the query plan (to minimize query planning time) and the lineage of the underlying RDD (to avoid stack overflow).
### Changes introduced in this PR
This PR tries to fix this issue by introducing a `checkpoint()` method into `Dataset[T]`, which does exactly the things described above. The following snippet, which is essentially the same as the one above but invokes `checkpoint()` instead of `cache()`, shows the micro benchmark result of this PR:
One key point is that the checkpointed Dataset should preserve the origianl partitioning and ordering information of the original Dataset, so that we can avoid unnecessary shuffling (similar to reading from a pre-bucketed table). This is done by adding `outputPartitioning` and `outputOrdering` to `LogicalRDD` and `RDDScanExec`.
### Micro benchmark
``` scala
spark.sparkContext.setCheckpointDir("/tmp/cp")
(0 until 100).foldLeft(Seq(1, 2, 3).toDS) { (plan, iteration) =>
println(s"== Iteration $iteration ==")
val time0 = System.currentTimeMillis()
val cp = plan.checkpoint()
cp.count()
System.out.println(s"Checkpointing takes ${System.currentTimeMillis() - time0} ms")
val time1 = System.currentTimeMillis()
val joined = cp.join(cp, "value").join(cp, "value").join(cp, "value").join(cp, "value")
val result = joined.as[Int]
println(s"Query planning takes ${System.currentTimeMillis() - time1} ms")
result
}
// == Iteration 0 ==
// Checkpointing takes 591 ms
// Query planning takes 13 ms
// == Iteration 1 ==
// Checkpointing takes 1605 ms
// Query planning takes 16 ms
// == Iteration 2 ==
// Checkpointing takes 782 ms
// Query planning takes 8 ms
// == Iteration 3 ==
// Checkpointing takes 729 ms
// Query planning takes 10 ms
// == Iteration 4 ==
// Checkpointing takes 734 ms
// Query planning takes 9 ms
// == Iteration 5 ==
// ...
// == Iteration 50 ==
// Checkpointing takes 571 ms
// Query planning takes 7 ms
// == Iteration 51 ==
// Checkpointing takes 548 ms
// Query planning takes 7 ms
// == Iteration 52 ==
// Checkpointing takes 596 ms
// Query planning takes 8 ms
// == Iteration 53 ==
// Checkpointing takes 568 ms
// Query planning takes 7 ms
// ...
```
You may see that although checkpointing is more heavy weight an operation, it always takes roughly the same amount of time to perform both checkpointing and query planning.
### Open question
mengxr mentioned that it would be more convenient if we can make `Dataset.checkpoint()` eager, i.e., always performs a `RDD.count()` after calling `RDD.checkpoint()`. Not quite sure whether this is a universal requirement. Maybe we can add a `eager: Boolean` argument for `Dataset.checkpoint()` to support that.
## How was this patch tested?
Unit test added in `DatasetSuite`.
Author: Cheng Lian <lian@databricks.com>
Author: Yin Huai <yhuai@databricks.com>
Closes#15651 from liancheng/ds-checkpoint.
## What changes were proposed in this pull request?
Because of the refactoring work in Structured Streaming, the event logs generated by Strucutred Streaming in Spark 2.0.0 and 2.0.1 cannot be parsed.
This PR just ignores these logs in ReplayListenerBus because no places use them.
## How was this patch tested?
- Generated events logs using Spark 2.0.0 and 2.0.1, and saved them as `structured-streaming-query-event-logs-2.0.0.txt` and `structured-streaming-query-event-logs-2.0.1.txt`
- The new added test makes sure ReplayListenerBus will skip these bad jsons.
Author: Shixiong Zhu <shixiong@databricks.com>
Closes#15663 from zsxwing/fix-event-log.
## What changes were proposed in this pull request?
Add subsmaplingRate to randomForestClassifier
Add varianceCol to randomForestRegressor
In Python
## How was this patch tested?
manual tests
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#15638 from felixcheung/pyrandomforest.
## What changes were proposed in this pull request?
Random Forest Regression and Classification for R
Clean-up/reordering generics.R
## How was this patch tested?
manual tests, unit tests
Author: Felix Cheung <felixcheung_m@hotmail.com>
Closes#15607 from felixcheung/rrandomforest.
## What changes were proposed in this pull request?
This patch makes RBackend connection timeout configurable by user.
## How was this patch tested?
N/A
Author: Hossein <hossein@databricks.com>
Closes#15471 from falaki/SPARK-17919.
## What changes were proposed in this pull request?
Currently, `ANALYZE TABLE` command accepts `identifier` for option `NOSCAN`. This PR raises a ParseException for unknown option.
**Before**
```scala
scala> sql("create table test(a int)")
res0: org.apache.spark.sql.DataFrame = []
scala> sql("analyze table test compute statistics blah")
res1: org.apache.spark.sql.DataFrame = []
```
**After**
```scala
scala> sql("create table test(a int)")
res0: org.apache.spark.sql.DataFrame = []
scala> sql("analyze table test compute statistics blah")
org.apache.spark.sql.catalyst.parser.ParseException:
Expected `NOSCAN` instead of `blah`(line 1, pos 0)
```
## How was this patch tested?
Pass the Jenkins test with a new test case.
Author: Dongjoon Hyun <dongjoon@apache.org>
Closes#15640 from dongjoon-hyun/SPARK-18106.
## What changes were proposed in this pull request?
To reduce the number of components in SQL named *Catalog, rename *FileCatalog to *FileIndex. A FileIndex is responsible for returning the list of partitions / files to scan given a filtering expression.
```
TableFileCatalog => CatalogFileIndex
FileCatalog => FileIndex
ListingFileCatalog => InMemoryFileIndex
MetadataLogFileCatalog => MetadataLogFileIndex
PrunedTableFileCatalog => PrunedInMemoryFileIndex
```
cc yhuai marmbrus
## How was this patch tested?
N/A
Author: Eric Liang <ekl@databricks.com>
Author: Eric Liang <ekhliang@gmail.com>
Closes#15634 from ericl/rename-file-provider.
## What changes were proposed in this pull request?
The behavior of union is not well defined here. It is safer to explicitly execute these commands in order. The other use of `Union` in this way will be removed by https://github.com/apache/spark/pull/15633
## How was this patch tested?
Existing tests.
cc yhuai cloud-fan
Author: Eric Liang <ekhliang@gmail.com>
Author: Eric Liang <ekl@databricks.com>
Closes#15665 from ericl/spark-18146.
## What changes were proposed in this pull request?
Return potentially fewer than k cluster centers in cases where k distinct centroids aren't available or aren't selected.
## How was this patch tested?
Existing tests
Author: Sean Owen <sowen@cloudera.com>
Closes#15450 from srowen/SPARK-3261.
## What changes were proposed in this pull request?
org.apache.spark.sql.hive.execution.SQLQuerySuite is flaking when hive partition pruning is enabled.
Based on the stack traces, it seems to be an old issue where Hive fails to cast a numeric partition column ("Invalid character string format for type DECIMAL"). There are two possibilities here: either we are somehow corrupting the partition table to have non-decimal values in that column, or there is a transient issue with Derby.
This PR logs the result of the retry when this exception is encountered, so we can confirm what is going on.
## How was this patch tested?
n/a
cc yhuai
Author: Eric Liang <ekl@databricks.com>
Closes#15676 from ericl/spark-18167.
