Supports replacing values with other values in DataFrames.
Python support should be in a separate pull request.
Author: Reynold Xin <rxin@databricks.com>
Closes#5282 from rxin/df-na-replace and squashes the following commits:
4b72434 [Reynold Xin] Removed println.
c8d9946 [Reynold Xin] col -> cols
fbb3c21 [Reynold Xin] [SPARK-6562][SQL] DataFrame.replace
This PR adds string indexer, which takes a column of string labels and outputs a double column with labels indexed by their frequency.
TODOs:
- [x] store feature to index map in output metadata
Author: Xiangrui Meng <meng@databricks.com>
Closes#4735 from mengxr/SPARK-5886 and squashes the following commits:
d82575f [Xiangrui Meng] fix test
700e70f [Xiangrui Meng] rename LabelIndexer to StringIndexer
16a6f8c [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-5886
457166e [Xiangrui Meng] Merge remote-tracking branch 'apache/master' into SPARK-5886
f8b30f4 [Xiangrui Meng] update label indexer to output metadata
e81ec28 [Xiangrui Meng] Merge branch 'openhashmap-contains' into SPARK-5886-2
d6e6f1f [Xiangrui Meng] add contains to primitivekeyopenhashmap
748a69b [Xiangrui Meng] add contains to OpenHashMap
def3c5c [Xiangrui Meng] add LabelIndexer
**Ready for review!**
Since the original PR, I moved the code to the spark.ml API and renamed this to VectorIndexer.
This introduces a VectorIndexer class which does the following:
* VectorIndexer.fit(): collect statistics about how many values each feature in a dataset (RDD[Vector]) can take (limited by maxCategories)
* Feature which exceed maxCategories are declared continuous, and the Model will treat them as such.
* VectorIndexerModel.transform(): Convert categorical feature values to corresponding 0-based indices
Design notes:
* This maintains sparsity in vectors by ensuring that categorical feature value 0.0 gets index 0.
* This does not yet support transforming data with new (unknown) categorical feature values. That can be added later.
* This is necessary for DecisionTree and tree ensembles.
Reviewers: Please check my use of metadata and my unit tests for it; I'm not sure if I covered everything in the tests.
Other notes:
* This also adds a public toMetadata method to AttributeGroup (for simpler construction of metadata).
CC: mengxr
Author: Joseph K. Bradley <joseph@databricks.com>
Closes#3000 from jkbradley/indexer and squashes the following commits:
5956d91 [Joseph K. Bradley] minor cleanups
f5c57a8 [Joseph K. Bradley] added Java test suite
643b444 [Joseph K. Bradley] removed FeatureTests
02236c3 [Joseph K. Bradley] Updated VectorIndexer, ready for PR
286d221 [Joseph K. Bradley] Reworked DatasetIndexer for spark.ml API, and renamed it to VectorIndexer
12e6cf2 [Joseph K. Bradley] Merge remote-tracking branch 'upstream/master' into indexer
6d8f3f1 [Joseph K. Bradley] Added partly done DatasetIndexer to spark.ml
6a2f553 [Joseph K. Bradley] Updated TODO for allowUnknownCategories
3f041f8 [Joseph K. Bradley] Final cleanups for DatasetIndexer
038b9e3 [Joseph K. Bradley] DatasetIndexer now maintains sparsity in SparseVector
3a4a0bd [Joseph K. Bradley] Added another test for DatasetIndexer
2006923 [Joseph K. Bradley] DatasetIndexer now passes tests
f409987 [Joseph K. Bradley] partly done with DatasetIndexerSuite
5e7c874 [Joseph K. Bradley] working on DatasetIndexer
This is the sub-task of SPARK-6254.
Wrap missing method for `StandardScalerModel`.
Author: lewuathe <lewuathe@me.com>
Closes#5310 from Lewuathe/SPARK-6643 and squashes the following commits:
fafd690 [lewuathe] Fix for lint-python
bd31a64 [lewuathe] Merge branch 'master' into SPARK-6643
578f5ee [lewuathe] Remove unnecessary class
a38f155 [lewuathe] Merge master
66bb2ab [lewuathe] Fix typos
82683a0 [lewuathe] [SPARK-6643] Implement StandardScalerModel missing methods
Author: Reynold Xin <rxin@databricks.com>
Closes#5484 from rxin/test-style-core and squashes the following commits:
e0b0100 [Reynold Xin] [SPARK-6765] Fix test code style for core.
...ests
The original reported problem was misdiagnosed; the topic just didn't exist yet. Agreed upon solution was to improve error handling / message
Author: cody koeninger <cody@koeninger.org>
Closes#5454 from koeninger/spark-6431-master and squashes the following commits:
44300f8 [cody koeninger] [SPARK-6431][Streaming][Kafka] Error message for partition metadata requests
Fix potential visibility problem for the "state" of Executor
The field of "state" is shared and modified by multiple threads. i.e:
```scala
Within ExecutorRunner.scala
(1) workerThread = new Thread("ExecutorRunner for " + fullId) {
override def run() { fetchAndRunExecutor() }
}
workerThread.start()
// Shutdown hook that kills actors on shutdown.
(2)shutdownHook = new Thread() {
override def run() {
killProcess(Some("Worker shutting down"))
}
}
(3)and also the "Actor thread" for worker.
```
I think we should at lease add volatile to ensure the visibility among threads otherwise the worker might send an out-of-date status to the master.
https://issues.apache.org/jira/browse/SPARK-6843
Author: lisurprise <zhichao.li@intel.com>
Closes#5448 from zhichao-li/state and squashes the following commits:
a2386e7 [lisurprise] add volatile for state field
JIRA: https://issues.apache.org/jira/browse/SPARK-6866
Remove duplicated dependency of scalatest in launcher/pom.xml since it already inherited the dependency from the parent pom.xml.
Author: Guancheng (G.C.) Chen <chenguancheng@gmail.com>
Closes#5476 from gchen/SPARK-6866 and squashes the following commits:
1ab484b [Guancheng (G.C.) Chen] remove duplicated dependency in launcher/pom.xml
It's possible to have two DataType object with same id (memory address) at different time, we should check the cached classes to verify that it's generated by given datatype.
This PR also change `__FIELDS__` and `__DATATYPE__` to lower case to match Python code style.
Author: Davies Liu <davies@databricks.com>
Closes#5445 from davies/fix_type_cache and squashes the following commits:
63b3238 [Davies Liu] typo
47bdede [Davies Liu] fix cached classes
This commit exists to close the following pull requests on Github:
Closes#4994 (close requested by 'marmbrus')
Closes#4995 (close requested by 'marmbrus')
Closes#4491 (close requested by 'srowen')
Closes#3597 (close requested by 'srowen')
Closes#4693 (close requested by 'marmbrus')
Closes#3855 (close requested by 'marmbrus')
Closes#4398 (close requested by 'marmbrus')
Closes#4246 (close requested by 'marmbrus')
Closes#5153 (close requested by 'srowen')
Closes#3626 (close requested by 'srowen')
Closes#5166 (close requested by 'marmbrus')
Closes#5040 (close requested by 'marmbrus')
Closes#5044 (close requested by 'marmbrus')
Closes#5440 (close requested by 'JoshRosen')
Closes#4039 (close requested by 'marmbrus')
Closes#1237 (close requested by 'srowen')
Closes#216 (close requested by 'mengxr')
Closes#5092 (close requested by 'srowen')
Closes#5100 (close requested by 'marmbrus')
Closes#4469 (close requested by 'marmbrus')
Closes#5246 (close requested by 'srowen')
Closes#5013 (close requested by 'marmbrus')
Author: Michael Malak <michaelmalak@yahoo.com>
Closes#5464 from michaelmalak/master and squashes the following commits:
9d942ba [Michael Malak] SPARK-6710 GraphX Fixed Wrong initial bias in GraphX SVDPlusPlus
The method `resolveGetField` isn't belong to `LogicalPlan` logically and didn't access any members of it.
Author: Wenchen Fan <cloud0fan@outlook.com>
Closes#5435 from cloud-fan/tmp and squashes the following commits:
9a66c83 [Wenchen Fan] code clean up
This PR adds internal UDTs for expressions that are hijacking existing data types.
The following UDTs are added:
* `HyperLogLogUDT` (`BinaryType` as the SQL type) for `ApproxCountDistinctPartition`
* `OpenHashSetUDT` (`ArrayType` as the SQL type) for `CollectHashSet`, `NewSet`, `AddItemToSet`, and `CombineSets`.
I am also adding more unit tests for aggregation with code gen enabled.
JIRA: https://issues.apache.org/jira/browse/SPARK-6367
Author: Yin Huai <yhuai@databricks.com>
Closes#5094 from yhuai/expressionType and squashes the following commits:
8bcd11a [Yin Huai] Return types.
61a1d66 [Yin Huai] Merge remote-tracking branch 'upstream/master' into expressionType
e8b4599 [Yin Huai] Merge remote-tracking branch 'upstream/master' into expressionType
2753156 [Yin Huai] Ignore aggregations having sum functions for now.
b5eb259 [Yin Huai] Case object for HyperLogLog type.
00ebdbd [Yin Huai] deserialize/serialize.
54b87ae [Yin Huai] Add UDTs for expressions that return HyperLogLog and OpenHashSet.
Author: Yin Huai <yhuai@databricks.com>
Closes#5381 from yhuai/parquetPath2 and squashes the following commits:
fe296b4 [Yin Huai] Create new Path to take care special characters in the authority of a Path's URI.
This is useful for using pre-defined UDFs in SQLContext;
val df = Seq(("id1", 1), ("id2", 4), ("id3", 5)).toDF("id", "value")
val sqlctx = df.sqlContext
sqlctx.udf.register("simpleUdf", (v: Int) => v * v)
df.select($"id", sqlctx.callUdf("simpleUdf", $"value"))
Author: Takeshi YAMAMURO <linguin.m.s@gmail.com>
Closes#5061 from maropu/SupportUDFConversionInSparkContext and squashes the following commits:
f858aff [Takeshi YAMAMURO] Move the function into functions.scala
afd0380 [Takeshi YAMAMURO] Add a return type of callUDF
599b76c [Takeshi YAMAMURO] Remove the implicit conversion and add SqlContext#callUdf
8b56f10 [Takeshi YAMAMURO] Support an implicit conversion from udf"name" to an UDF defined in SQLContext
[SHOW PRINCIPALS role_name]
Lists all roles and users who belong to this role.
Only the admin role has privilege for this.
[SHOW COMPACTIONS]
It returns a list of all tables and partitions currently being compacted or scheduled for compaction when Hive transactions are being used.
[SHOW TRANSACTIONS]
It is for use by administrators when Hive transactions are being used. It returns a list of all currently open and aborted transactions in the system.
Author: DoingDone9 <799203320@qq.com>
Author: Zhongshuai Pei <799203320@qq.com>
Author: Xu Tingjun <xutingjun@huawei.com>
Closes#4902 from DoingDone9/SHOW_PRINCIPALS and squashes the following commits:
4add42f [Zhongshuai Pei] for test
311f806 [Zhongshuai Pei] for test
0c7550a [DoingDone9] Update HiveQl.scala
c8aeb1c [Xu Tingjun] aa
802261c [DoingDone9] Merge pull request #7 from apache/master
d00303b [DoingDone9] Merge pull request #6 from apache/master
98b134f [DoingDone9] Merge pull request #5 from apache/master
161cae3 [DoingDone9] Merge pull request #4 from apache/master
c87e8b6 [DoingDone9] Merge pull request #3 from apache/master
cb1852d [DoingDone9] Merge pull request #2 from apache/master
c3f046f [DoingDone9] Merge pull request #1 from apache/master
This PR follow up PR #3907 & #3891 & #4356.
According to marmbrus liancheng 's comments, I try to use fs.globStatus to retrieve all FileStatus objects under path(s), and then do the filtering locally.
[1]. get pathPattern by path, and put it into pathPatternSet. (hdfs://cluster/user/demo/2016/08/12 -> hdfs://cluster/user/demo/*/*/*)
[2]. retrieve all FileStatus objects ,and cache them by undating existPathSet.
[3]. do the filtering locally
[4]. if we have new pathPattern,do 1,2 step again. (external table maybe have more than one partition pathPattern)
chenghao-intel jeanlyn
Author: lazymam500 <lazyman500@gmail.com>
Author: lazyman <lazyman500@gmail.com>
Closes#5059 from lazyman500/SPARK-5068 and squashes the following commits:
5bfcbfd [lazyman] move spark.sql.hive.verifyPartitionPath to SQLConf,fix scala style
e1d6386 [lazymam500] fix scala style
f23133f [lazymam500] bug fix
47e0023 [lazymam500] fix scala style,add config flag,break the chaining
04c443c [lazyman] SPARK-5068: fix bug when partition path doesn't exists #2
41f60ce [lazymam500] Merge pull request #1 from apache/master
Author: haiyang <huhaiyang@huawei.com>
Closes#4929 from haiyangsea/cte and squashes the following commits:
220b67d [haiyang] add golden files for cte test
d3c7681 [haiyang] Merge branch 'master' into cte-repair
0ba2070 [haiyang] modify code style
9ce6b58 [haiyang] fix conflict
ff74741 [haiyang] add comment for With plan
0d56af4 [haiyang] code indention
776a440 [haiyang] add comments for resolve relation strategy
2fccd7e [haiyang] add comments for resolve relation strategy
241bbe2 [haiyang] fix cte problem of view
e9e1237 [haiyang] fix test case problem
614182f [haiyang] add test cases for CTE feature
32e415b [haiyang] add comment
1cc8c15 [haiyang] support with
03f1097 [haiyang] support with
e960099 [haiyang] support with
9aaa874 [haiyang] support with
0566978 [haiyang] support with
a99ecd2 [haiyang] support with
c3fa4c2 [haiyang] support with
3b6077f [haiyang] support with
5f8abe3 [haiyang] support with
4572b05 [haiyang] support with
f801f54 [haiyang] support with
In this PR, "analyser" is changed to "analyzer" to keep a consistent naming. Some other typos are also fixed.
Author: Guancheng (G.C.) Chen <chenguancheng@gmail.com>
Closes#5474 from gchen/sql-typo and squashes the following commits:
70e6e76 [Guancheng (G.C.) Chen] Merge branch 'sql-typo' of github.com:gchen/spark into sql-typo
fb7a6e2 [Guancheng (G.C.) Chen] fix typo in sql
37e3da1 [Guancheng (G.C.) Chen] fix type in sql
https://issues.apache.org/jira/browse/SPARK-6863
Author: Santiago M. Mola <santiago.mola@sap.com>
Closes#5472 from smola/fix/sql-docs and squashes the following commits:
42503d4 [Santiago M. Mola] [SPARK-6863] Fix formatting on SQL programming guide.
https://issues.apache.org/jira/browse/SPARK-6611
Author: Santiago M. Mola <santiago.mola@sap.com>
Closes#5271 from smola/features/integer-parse and squashes the following commits:
f5c1c64 [Santiago M. Mola] [SPARK-6611] Add support for INTEGER as synonym of INT.
Since now kyro serializer is used for `GeneralHashedRelation` whether kyro is enabled or not, it is better to register Java `HashMap` in `SparkSqlSerializer`.
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes#5465 from viirya/register_hashmap and squashes the following commits:
9062601 [Liang-Chi Hsieh] Register Java HashMap for SparkSqlSerializer.
```SQL
select key, v from src lateral view stack(3, 1+1, 2+2, 3) d as v;
```
Will cause exception
```
java.lang.ClassNotFoundException: stack
at java.net.URLClassLoader$1.run(URLClassLoader.java:366)
at java.net.URLClassLoader$1.run(URLClassLoader.java:355)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:354)
at java.lang.ClassLoader.loadClass(ClassLoader.java:425)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:308)
at java.lang.ClassLoader.loadClass(ClassLoader.java:358)
at org.apache.spark.sql.hive.HiveFunctionWrapper.createFunction(Shim13.scala:148)
at org.apache.spark.sql.hive.HiveGenericUdtf.function$lzycompute(hiveUdfs.scala:274)
at org.apache.spark.sql.hive.HiveGenericUdtf.function(hiveUdfs.scala:274)
at org.apache.spark.sql.hive.HiveGenericUdtf.outputInspector$lzycompute(hiveUdfs.scala:280)
at org.apache.spark.sql.hive.HiveGenericUdtf.outputInspector(hiveUdfs.scala:280)
at org.apache.spark.sql.hive.HiveGenericUdtf.outputDataTypes$lzycompute(hiveUdfs.scala:285)
at org.apache.spark.sql.hive.HiveGenericUdtf.outputDataTypes(hiveUdfs.scala:285)
at org.apache.spark.sql.hive.HiveGenericUdtf.makeOutput(hiveUdfs.scala:291)
at org.apache.spark.sql.catalyst.expressions.Generator.output(generators.scala:60)
at org.apache.spark.sql.catalyst.plans.logical.Generate$$anonfun$2.apply(basicOperators.scala:60)
at org.apache.spark.sql.catalyst.plans.logical.Generate$$anonfun$2.apply(basicOperators.scala:60)
at scala.Option.map(Option.scala:145)
at org.apache.spark.sql.catalyst.plans.logical.Generate.generatorOutput(basicOperators.scala:60)
at org.apache.spark.sql.catalyst.plans.logical.Generate.output(basicOperators.scala:70)
at org.apache.spark.sql.catalyst.plans.logical.LogicalPlan$$anonfun$resolveChildren$1.apply(LogicalPlan.scala:117)
at org.apache.spark.sql.catalyst.plans.logical.LogicalPlan$$anonfun$resolveChildren$1.apply(LogicalPlan.scala:117)
```
Author: Cheng Hao <hao.cheng@intel.com>
Closes#5444 from chenghao-intel/hive_udtf and squashes the following commits:
065a98c [Cheng Hao] fix bug of Hive UDTF in Lateral View (ClassNotFound)
This is needed at least for YARN integration tests, since `$JAVA_HOME` is used to launch the executors.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#5441 from vanzin/yarn-test-test and squashes the following commits:
3eeec30 [Marcelo Vanzin] Use JAVA_HOME when available, java.home otherwise.
d71f1bb [Marcelo Vanzin] And sbt too.
6bda399 [Marcelo Vanzin] WIP: Testing to see whether this fixes the yarn test issue.
Author: Liang-Chi Hsieh <viirya@gmail.com>
Closes#5466 from viirya/fix_ShuffleMapTask_typo and squashes the following commits:
2789fd5 [Liang-Chi Hsieh] fix typo.
cc marmbrus
Author: Volodymyr Lyubinets <vlyubin@gmail.com>
Closes#5279 from vlyubin/speedup and squashes the following commits:
e75a387 [Volodymyr Lyubinets] Changes to ScalaUDF
11a20ec [Volodymyr Lyubinets] Avoid creating a tuple
c327bc9 [Volodymyr Lyubinets] Moved the only remaining function from DataTypeConversions to DateUtils
dec6802 [Volodymyr Lyubinets] Addresed review feedback
74301fa [Volodymyr Lyubinets] Addressed review comments
afa3aa5 [Volodymyr Lyubinets] Minor refactoring, added license, removed debug output
881dc60 [Volodymyr Lyubinets] Moved to a separate module; addressed review comments; one extra place of usage; changed behaviour for Java
8cad6e2 [Volodymyr Lyubinets] Addressed review commments
41b2aa9 [Volodymyr Lyubinets] Creating converters for ScalaReflection stuff, and more
Otherwise we end up rewriting predicates to be trivially equal (i.e. `a#1 = a#2` -> `a#3 = a#3`), at which point the query is no longer valid.
Author: Michael Armbrust <michael@databricks.com>
Closes#5458 from marmbrus/selfJoinParquet and squashes the following commits:
22df77c [Michael Armbrust] [SPARK-6851][SQL] Create new instance for each converted parquet relation
Author: Davies Liu <davies@databricks.com>
Closes#5460 from davies/r_test and squashes the following commits:
0a593ce [Davies Liu] use one partition when we need to compare the whole result
Author: Davies Liu <davies@databricks.com>
Closes#5404 from davies/check_version and squashes the following commits:
e559248 [Davies Liu] add tests
ec33b5f [Davies Liu] check the python version in worker
The samples should always be sorted in ascending order, because bisect.bisect_left is used on it. The reverse order of the result is already achieved in rangePartitioner by reversing the found index.
The current implementation also work, but always uses only two partitions -- the first one and the last one (because the bisect_left return returns either "beginning" or "end" for a descending sequence).
Author: Milan Straka <fox@ucw.cz>
This patch had conflicts when merged, resolved by
Committer: Josh Rosen <joshrosen@databricks.com>
Closes#4761 from foxik/fix-descending-sort and squashes the following commits:
95896b5 [Milan Straka] Add regression test for SPARK-5969.
5757490 [Milan Straka] Fix descending pyspark.rdd.sortByKey.
Benchmarking results: http://pastie.org/private/1dneo1mta5zpsw6gmsoeq
Author: Volodymyr Lyubinets <vlyubin@gmail.com>
Closes#5433 from vlyubin/joins and squashes the following commits:
d70c829 [Volodymyr Lyubinets] Addressed review feedback
527eac6 [Volodymyr Lyubinets] Use kryo-based SparkSqlSerializer for GeneralHashedRelation
check -license will passed in next time when rat jar download failed.
Add 2 step to fix this:
1. Clean the rat.jar if download failed.
2. Add a check logic after run rat checking.
Author: June.He <jun.hejun@huawei.com>
Closes#5421 from sisihj/rat-issue and squashes the following commits:
4958302 [June.He] delete redundant check and add quoted
66f7088 [June.He] Fix RAT checks still passed issue when download rat jar failed
7311e83 [June.He] Fix RAT checks still passed issue when download rat jar failed
This PR includes:
1. Send `StreamingListenerBatchSubmitted` when `JobSet` is submitted
1. Fix `StreamingListenerBatchStarted.batchInfo.processingStartTime`
1. Fix a type: `completedaBatchInfos` -> `completedBatchInfos`
Author: zsxwing <zsxwing@gmail.com>
Closes#5414 from zsxwing/SPARK-6766 and squashes the following commits:
2f85060 [zsxwing] Update tests
ca0955b [zsxwing] Combine unit tests
79b4fed [zsxwing] Add StreamingJobProgressListenerSuite to test StreamingJobProgressListener
fc3a2a1 [zsxwing] Add unit tests for SPARK-6766
74aed99 [zsxwing] Refactor as per TD's suggestion
493f978 [zsxwing] Send StreamingListenerBatchSubmitted when JobSet is submitted; fix StreamingListenerBatchStarted.batchInfo.processingStartTime; fix a typo
Refactor the Kafka unit test and add Python API support. CC tdas davies please help to review, thanks a lot.
Author: jerryshao <saisai.shao@intel.com>
Author: Saisai Shao <saisai.shao@intel.com>
Closes#4961 from jerryshao/SPARK-6211 and squashes the following commits:
ee4b919 [jerryshao] Fixed newly merged issue
82c756e [jerryshao] Address the comments
92912d1 [jerryshao] Address the commits
0708bb1 [jerryshao] Fix rebase issue
40b47a3 [Saisai Shao] Style fix
f889657 [Saisai Shao] Update the code according
8a2f3e2 [jerryshao] Address the issues
0f1b7ce [jerryshao] Still fix the bug
61a04f0 [jerryshao] Fix bugs and address the issues
64d9877 [jerryshao] Fix rebase bugs
8ad442f [jerryshao] Add kafka-assembly in run-tests
6020b00 [jerryshao] Add more debug info in Shell
8102d6e [jerryshao] Fix bug in Jenkins test
fde1213 [jerryshao] Code style changes
5536f95 [jerryshao] Refactor the Kafka unit test and add Python Kafka unittest support
Supporting of SparseMatrix in PySpark.
Author: MechCoder <manojkumarsivaraj334@gmail.com>
Closes#5355 from MechCoder/spark-6577 and squashes the following commits:
7492190 [MechCoder] More readable code for densifying
ea2c54b [MechCoder] Check bounds for indexing
454ef2c [MechCoder] Made the following changes 1. Used convert_to_array for array conversion. 2. Used F order for toArray 3. Minor improvements in speed.
db76caf [MechCoder] Add support for CSR matrix
29653e7 [MechCoder] Renamed indices to rowIndices and indptr to colPtrs
b6384fe [MechCoder] [SPARK-6577] SparseMatrix should be supported in PySpark
This patch change groupByKey() to use external sort based approach, so it can support single huge key.
For example, it can group by a dataset including one hot key with 40 millions values (strings), using 500M memory for Python worker, finished in about 2 minutes. (it will need 6G memory in hash based approach).
During groupByKey(), it will do in-memory groupBy first. If the dataset can not fit in memory, then data will be partitioned by hash. If one partition still can not fit in memory, it will switch to sort based groupBy().
Author: Davies Liu <davies.liu@gmail.com>
Author: Davies Liu <davies@databricks.com>
Closes#1977 from davies/groupby and squashes the following commits:
af3713a [Davies Liu] make sure it's iterator
67772dd [Davies Liu] fix tests
e78c15c [Davies Liu] address comments
0b0fde8 [Davies Liu] address comments
0dcf320 [Davies Liu] address comments, rollback changes in ResultIterable
e3b8eab [Davies Liu] fix narrow dependency
2a1857a [Davies Liu] typo
d2f053b [Davies Liu] add repr for FlattedValuesSerializer
c6a2f8d [Davies Liu] address comments
9e2df24 [Davies Liu] Merge branch 'master' of github.com:apache/spark into groupby
2b9c261 [Davies Liu] fix typo in comments
70aadcd [Davies Liu] Merge branch 'master' of github.com:apache/spark into groupby
a14b4bd [Davies Liu] Merge branch 'master' of github.com:apache/spark into groupby
ab5515b [Davies Liu] Merge branch 'master' into groupby
651f891 [Davies Liu] simplify GroupByKey
1578f2e [Davies Liu] Merge branch 'master' of github.com:apache/spark into groupby
1f69f93 [Davies Liu] fix tests
0d3395f [Davies Liu] Merge branch 'master' of github.com:apache/spark into groupby
341f1e0 [Davies Liu] add comments, refactor
47918b8 [Davies Liu] remove unused code
6540948 [Davies Liu] address comments:
17f4ec6 [Davies Liu] Merge branch 'master' of github.com:apache/spark into groupby
4d4bc86 [Davies Liu] bugfix
8ef965e [Davies Liu] Merge branch 'master' into groupby
fbc504a [Davies Liu] Merge branch 'master' into groupby
779ed03 [Davies Liu] fix merge conflict
2c1d05b [Davies Liu] refactor, minor turning
b48cda5 [Davies Liu] Merge branch 'master' into groupby
85138e6 [Davies Liu] Merge branch 'master' into groupby
acd8e1b [Davies Liu] fix memory when groupByKey().count()
905b233 [Davies Liu] Merge branch 'sort' into groupby
1f075ed [Davies Liu] Merge branch 'master' into sort
4b07d39 [Davies Liu] compress the data while spilling
0a081c6 [Davies Liu] Merge branch 'master' into groupby
f157fe7 [Davies Liu] Merge branch 'sort' into groupby
eb53ca6 [Davies Liu] Merge branch 'master' into sort
b2dc3bf [Davies Liu] Merge branch 'sort' into groupby
644abaf [Davies Liu] add license in LICENSE
19f7873 [Davies Liu] improve tests
11ba318 [Davies Liu] typo
085aef8 [Davies Liu] Merge branch 'master' into groupby
3ee58e5 [Davies Liu] switch to sort based groupBy, based on size of data
1ea0669 [Davies Liu] choose sort based groupByKey() automatically
b40bae7 [Davies Liu] bugfix
efa23df [Davies Liu] refactor, add spark.shuffle.sort=False
250be4e [Davies Liu] flatten the combined values when dumping into disks
d05060d [Davies Liu] group the same key before shuffle, reduce the comparison during sorting
083d842 [Davies Liu] sorted based groupByKey()
55602ee [Davies Liu] use external sort in sortBy() and sortByKey()
jira: https://issues.apache.org/jira/browse/SPARK-6693
It's kind of annoying when debugging and found you cannot print out the matrix as you want.
original toString of Matrix only print like following,
0.17810102596909183 0.5616906241468385 ... (10 total)
0.9692861997823815 0.015558159784155756 ...
0.8513015122819192 0.031523763918528847 ...
0.5396875653953941 0.3267864552779176 ...
The def toString(maxLines : Int, maxWidth : Int) is useful when debuging, logging and saving matrix to files.
Author: Yuhao Yang <hhbyyh@gmail.com>
Closes#5344 from hhbyyh/addToString and squashes the following commits:
19a6836 [Yuhao Yang] remove extra line
6314b21 [Yuhao Yang] add exclude
736c324 [Yuhao Yang] add ut and exclude
420da39 [Yuhao Yang] Merge remote-tracking branch 'upstream/master' into addToString
c22f352 [Yuhao Yang] style change
64a9e0f [Yuhao Yang] add specific to string to matrix
Support FPGrowth algorithm in Python API.
Should we remove "Experimental" which were marked for FPGrowth and FPGrowthModel in Scala? jkbradley
Author: Yanbo Liang <ybliang8@gmail.com>
Closes#5213 from yanboliang/spark-6264 and squashes the following commits:
ed62ead [Yanbo Liang] trigger jenkins
8ce0359 [Yanbo Liang] fix docstring style
544c725 [Yanbo Liang] address comments
a2d7cf7 [Yanbo Liang] add doc for FPGrowth.train()
dcf7d73 [Yanbo Liang] add python doc
b18fd07 [Yanbo Liang] trigger jenkins
2c951b8 [Yanbo Liang] fix typos
7f62c8f [Yanbo Liang] add fpm to __init__.py
b96206a [Yanbo Liang] Support FPGrowth algorithm in Python API
https://issues.apache.org/jira/browse/SPARK-6758
I am not sure if it is ok to block them in test resources too (as we shade jetty in assembly?).
Author: WangTaoTheTonic <wangtao111@huawei.com>
Closes#5406 from WangTaoTheTonic/SPARK-6758 and squashes the following commits:
e09605b [WangTaoTheTonic] block the right jetty package
Add exclusions and explicit dependencies so that the examples
assembly does not duplicate classes already packaged in the main
assembly.
Also avoid relocating the commons-math3 package since it's already
a dependency of spark-core, and thus is already available in the
main assembly.
Author: Marcelo Vanzin <vanzin@cloudera.com>
Closes#5379 from vanzin/examples-deps and squashes the following commits:
12c258e [Marcelo Vanzin] [minor] [examples] Avoid re-packaging unneeded classes.
Set the current dir path $FWDIR and same at $ASSEMBLY_DIR1, $ASSEMBLY_DIR2
otherwise $SPARK_HOME cannot be visible from spark-env.sh -- no SPARK_HOME variable is assigned there.
I am using the Spark-1.3.0 source code package and I come across with this when trying to start the master: sbin/start-master.sh
Author: raschild <raschild@users.noreply.github.com>
Closes#5261 from raschild/patch-1 and squashes the following commits:
b9babcd [raschild] Update load-spark-env.sh
Attempt at making the driver-worker networking requirement more explicit and up-front in the documentation (see https://issues.apache.org/jira/browse/SPARK-6343).
Update cluster overview diagram to show connections from workers to driver. Add a bullet below about how driver listens / accepts connections from workers.
Author: Peter Parente <pparent@us.ibm.com>
Closes#5382 from parente/SPARK-6343 and squashes the following commits:
0b2fb9d [Peter Parente] [SPARK-6343] Doc driver-worker network reqs
This pull requests integrates SparkR, an R frontend for Spark. The SparkR package contains both RDD and DataFrame APIs in R and is integrated with Spark's submission scripts to work on different cluster managers.
Some integration points that would be great to get feedback on:
1. Build procedure: SparkR requires R to be installed on the machine to be built. Right now we have a new Maven profile `-PsparkR` that can be used to enable SparkR builds
2. YARN cluster mode: The R package that is built needs to be present on the driver and all the worker nodes during execution. The R package location is currently set using SPARK_HOME, but this might not work on YARN cluster mode.
The SparkR package represents the work of many contributors and attached below is a list of people along with areas they worked on
edwardt (edwart) - Documentation improvements
Felix Cheung (felixcheung) - Documentation improvements
Hossein Falaki (falaki) - Documentation improvements
Chris Freeman (cafreeman) - DataFrame API, Programming Guide
Todd Gao (7c00) - R worker Internals
Ryan Hafen (hafen) - SparkR Internals
Qian Huang (hqzizania) - RDD API
Hao Lin (hlin09) - RDD API, Closure cleaner
Evert Lammerts (evertlammerts) - DataFrame API
Davies Liu (davies) - DataFrame API, R worker internals, Merging with Spark
Yi Lu (lythesia) - RDD API, Worker internals
Matt Massie (massie) - Jenkins build
Harihar Nahak (hnahak87) - SparkR examples
Oscar Olmedo (oscaroboto) - Spark configuration
Antonio Piccolboni (piccolbo) - SparkR examples, Namespace bug fixes
Dan Putler (dputler) - Dataframe API, SparkR Install Guide
Ashutosh Raina (ashutoshraina) - Build improvements
Josh Rosen (joshrosen) - Travis CI build
Sun Rui (sun-rui)- RDD API, JVM Backend, Shuffle improvements
Shivaram Venkataraman (shivaram) - RDD API, JVM Backend, Worker Internals
Zongheng Yang (concretevitamin) - RDD API, Pipelined RDDs, Examples and EC2 guide
Author: Shivaram Venkataraman <shivaram@cs.berkeley.edu>
Author: Shivaram Venkataraman <shivaram.venkataraman@gmail.com>
Author: Zongheng Yang <zongheng.y@gmail.com>
Author: cafreeman <cfreeman@alteryx.com>
Author: Shivaram Venkataraman <shivaram@eecs.berkeley.edu>
Author: Davies Liu <davies@databricks.com>
Author: Davies Liu <davies.liu@gmail.com>
Author: hlin09 <hlin09pu@gmail.com>
Author: Sun Rui <rui.sun@intel.com>
Author: lythesia <iranaikimi@gmail.com>
Author: oscaroboto <oscarjr@gmail.com>
Author: Antonio Piccolboni <antonio@piccolboni.info>
Author: root <edward>
Author: edwardt <edwardt.tril@gmail.com>
Author: hqzizania <qian.huang@intel.com>
Author: dputler <dan.putler@gmail.com>
Author: Todd Gao <todd.gao.2013@gmail.com>
Author: Chris Freeman <cfreeman@alteryx.com>
Author: Felix Cheung <fcheung@AVVOMAC-119.local>
Author: Hossein <hossein@databricks.com>
Author: Evert Lammerts <evert@apache.org>
Author: Felix Cheung <fcheung@avvomac-119.t-mobile.com>
Author: felixcheung <felixcheung_m@hotmail.com>
Author: Ryan Hafen <rhafen@gmail.com>
Author: Ashutosh Raina <ashutoshraina@users.noreply.github.com>
Author: Oscar Olmedo <oscarjr@gmail.com>
Author: Josh Rosen <rosenville@gmail.com>
Author: Yi Lu <iranaikimi@gmail.com>
Author: Harihar Nahak <hnahak87@users.noreply.github.com>
Closes#5096 from shivaram/R and squashes the following commits:
da64742 [Davies Liu] fix Date serialization
59266d1 [Davies Liu] check exclusive of primary-py-file and primary-r-file
55808e4 [Davies Liu] fix tests
5581c75 [Davies Liu] update author of SparkR
f731b48 [Shivaram Venkataraman] Only run SparkR tests if R is installed
64eda24 [Shivaram Venkataraman] Merge branch 'R' of https://github.com/amplab-extras/spark into R
d7c3f22 [Shivaram Venkataraman] Address code review comments Changes include 1. Adding SparkR docs to API docs generated 2. Style fixes in SparkR scala files 3. Clean up of shell scripts and explanation of install-dev.sh
377151f [Shivaram Venkataraman] Merge remote-tracking branch 'apache/master' into R
eb5da53 [Shivaram Venkataraman] Merge pull request #3 from davies/R2
a18ff5c [Davies Liu] Update sparkR.R
5133f3a [Shivaram Venkataraman] Merge pull request #7 from hqzizania/R3
940b631 [hqzizania] [SPARKR-92] Phase 2: implement sum(rdd)
0e788c0 [Shivaram Venkataraman] Merge pull request #5 from hlin09/doc-fix
3487461 [hlin09] Add tests log in .gitignore.
1d1802e [Shivaram Venkataraman] Merge pull request #4 from felixcheung/r-require
11981b7 [felixcheung] Update R to fail early if SparkR package is missing
c300e08 [Davies Liu] remove duplicated file
b045701 [Davies Liu] Merge branch 'remote_r' into R
19c9368 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into remote_r
f8fa8af [Davies Liu] mute logging when start/stop context
e7104b6 [Davies Liu] remove ::: in SparkR
a1777eb [Davies Liu] move rules into R/.gitignore
e88b649 [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
6e20e71 [Davies Liu] address comments
b433817 [Davies Liu] Merge branch 'master' of github.com:apache/spark into R
a1cedad [Shivaram Venkataraman] Merge pull request #228 from felixcheung/doc
e089151 [Davies Liu] Merge pull request #225 from sun-rui/SPARKR-154_2
463e28c [Davies Liu] Merge pull request #2 from shivaram/doc-fixes
bc2d6d8 [Shivaram Venkataraman] Remove arg from sparkR.stop and update docs
d425363 [Shivaram Venkataraman] Some doc fixes for column, generics, group
1f1a7e0 [Shivaram Venkataraman] Some fixes to DataFrame, RDD, SQLContext docs
104ad4e [Shivaram Venkataraman] Check the right env in exists
cf5cd99 [Shivaram Venkataraman] Remove unused numCols argument
85a50ec [Shivaram Venkataraman] Merge pull request #226 from RevolutionAnalytics/master
3eacfc0 [Davies Liu] fix flaky test
733380d [Davies Liu] update R examples (remove master from args)
b21a0da [Davies Liu] Merge pull request #1 from shivaram/log4j-tests
a1493d7 [Shivaram Venkataraman] Address comments
e1f83ab [Shivaram Venkataraman] Send Spark INFO logs to a file in SparkR tests
58276f5 [Shivaram Venkataraman] Merge branch 'R' of https://github.com/amplab-extras/spark into R
52cc92d [Shivaram Venkataraman] Add license to create-docs.sh
6ff5ea2 [Shivaram Venkataraman] Add instructions to generate docs
1f478c5 [Shivaram Venkataraman] Merge branch 'R' of https://github.com/amplab-extras/spark into R
02b4833 [Shivaram Venkataraman] Add a script to generate R docs (Rd, html) Also fix some issues with our documentation
d6d3729 [Davies Liu] enable spark and pyspark tests
0e5a83f [Davies Liu] fix code style
afd8a77 [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
d87a181 [Davies Liu] fix flaky tests
7100fb9 [Shivaram Venkataraman] Fix libPaths in README
bdf3a14 [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
05e7375 [Davies Liu] sort generics
b44e371 [Shivaram Venkataraman] Include RStudio instructions in README
855537f [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
9fb6af3 [Davies Liu] mark R classes/objects are private
423ea3c [Shivaram Venkataraman] Ignore unknown jobj in cleanup
974e4ea [Davies Liu] fix flaky test
410ec18 [Davies Liu] fix zipRDD() tests
d8b24fc [Davies Liu] disable spark and python tests temporary
ce3ca62 [Davies Liu] fix license check
7da0049 [Davies Liu] fix build
2892e29 [Davies Liu] support R in YARN cluster
ebd4d07 [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
38cbf59 [Davies Liu] fix test of zipRDD()
756ece0 [Shivaram Venkataraman] Update README remove outdated TODO
d436f26 [Davies Liu] add missing files
40d193a [Shivaram Venkataraman] Merge pull request #224 from sun-rui/SPARKR-224-new
1a16cd6 [Davies Liu] rm PROJECT_HOME
56670ef [Davies Liu] rm man page
ba4b80b [Davies Liu] Merge branch 'remote_r' into R
f04080c [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into remote_r
028cbfb [Davies Liu] fix exit code of sparkr unit test
42d8b4c [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
ef26015 [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
a1870e8 [Shivaram Venkataraman] Merge pull request #214 from sun-rui/SPARKR-156_3
cb6e5e3 [Shivaram Venkataraman] Add scripts to start SparkR on windows
8030847 [Shivaram Venkataraman] Set windows file separators, install dirs
05afef0 [Shivaram Venkataraman] Only stop backend JVM if R launched it
95d2de3 [Davies Liu] fix spark-submit with R scripot
baefd9e [Shivaram Venkataraman] Make bin/sparkR use spark-submit As a part of this move the R initialization functions into first.R and first-submit.R
d6f2bdd [Shivaram Venkataraman] Fix run-tests path
ea90fab [Davies Liu] fix spark-submit with R path and sparkR -h
0e2412c [Davies Liu] fix bin/sparkR
9f6aa1f [Davies Liu] Merge branch 'R' of github.com:amplab-extras/spark into R
479e3fe [Davies Liu] change println() to logging
52ca6e5 [Shivaram Venkataraman] Add missing comma
716b16f [Shivaram Venkataraman] Merge branch 'R' of https://github.com/amplab-extras/spark into R
2d235d4 [Shivaram Venkataraman] Build SparkR with Maven profile
aae881b [Davies Liu] fix rat
ff776aa [Shivaram Venkataraman] Fix style
e4f1937 [Shivaram Venkataraman] Remove DFC example
f7b6936 [Davies Liu] remove Spark prefix for class
043959e [Davies Liu] cleanup
ba53b09 [Davies Liu] support R in spark-submit
f403b4a [Davies Liu] rm .travis.yml
c4a5bdf [Davies Liu] run sparkr tests in Spark
e8fc7ca [Davies Liu] fix .gitignore
35e5755 [Davies Liu] reduce size of example data
50bff63 [Davies Liu] add LICENSE header for R sources
facb6e0 [Davies Liu] add .gitignore for .o, .so, .Rd
18e5eed [Davies Liu] update docs
0a0e632 [Davies Liu] move sparkR into bin/
a76472f [Davies Liu] fix path of assembly jar
df3eeea [Davies Liu] move R/examples into examples/src/main/r
3415cc7 [Davies Liu] move Scala source into core/ and sql/
180fc9c [Davies Liu] move scala
014d253 [Davies Liu] delete man pages
49a8133 [Davies Liu] Merge branch 'remote_r' into R
44994c2 [Davies Liu] Moved files to R/
2fc553f [Shivaram Venkataraman] Merge pull request #222 from davies/column2
b043876 [Davies Liu] fix test
5e610cb [Davies Liu] add more API for Column
6f95d49 [Shivaram Venkataraman] Merge pull request #221 from shivaram/sparkr-stop-start
3214c6d [Shivaram Venkataraman] Merge pull request #217 from hlin09/cleanClosureFix
f5d3355 [Shivaram Venkataraman] Merge pull request #218 from davies/merge
70f620c [Davies Liu] address comments
4b1628d [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into merge
3139325 [Shivaram Venkataraman] Merge pull request #212 from davies/toDF
6122e0e [Davies Liu] handle NULL
bc2ff38 [Davies Liu] handle NULL
7f5e70c [Davies Liu] Update SerDe.scala
46454e4 [Davies Liu] address comments
dd52cbc [Shivaram Venkataraman] Merge pull request #220 from shivaram/sparkr-utils-include
662938a [Shivaram Venkataraman] Include utils before SparkR for `head` to work Before this change calling `head` on a DataFrame would not work from the sparkR script as utils would be loaded after SparkR and placed ahead in the search list. This change requires utils to be loaded before SparkR
1bc2998 [Shivaram Venkataraman] Merge pull request #179 from evertlammerts/sparkr-sql
7695d36 [Evert Lammerts] added tests
8190127 [Evert Lammerts] fixed parquetFile signature
d8c8fcc [Shivaram Venkataraman] Merge pull request #219 from shivaram/sparkr-build-final
963c7ee [Davies Liu] Merge branch 'master' into merge
8bff523 [Shivaram Venkataraman] Remove staging repo now that 1.3 is released
e52258f [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into toDF
05b9126 [Shivaram Venkataraman] Merge pull request #215 from davies/agg
8e1497d [Davies Liu] Update DataFrame.R
72adb14 [Davies Liu] Update SQLContext.R
66cc92a [Davies Liu] address commets
55c38bc [Shivaram Venkataraman] Merge pull request #216 from davies/select2
3e0555d [Shivaram Venkataraman] Merge pull request #193 from davies/daemon
0467474 [Davies Liu] add more selecter for DataFrame
9a6be74 [Davies Liu] include grouping columns in agg()
e87bb98 [Davies Liu] improve comment and logging
a6dc435 [Davies Liu] remove dependency of jsonlite
26a3621 [Davies Liu] support date.frame and Date/Time
4e4908a [Davies Liu] createDataFrame from rdd
5757b95 [Shivaram Venkataraman] Merge pull request #196 from davies/die
90f2692 [Shivaram Venkataraman] Merge pull request #211 from hlin09/generics
8583968 [Davies Liu] readFully()
46cea3d [Davies Liu] retry
01aa5ee [Davies Liu] add config for using daemon, refactor
ff948db [hlin09] Remove missingOrInteger.
ecdfda1 [hlin09] Remove duplication.
411b751 [Davies Liu] make RStudio happy
8f8813f [Davies Liu] switch back to use parallel
6bccbbf [hlin09] Move roxygen doc back to implementation.
ffd6e8e [Shivaram Venkataraman] Merge pull request #210 from hlin09/hlin09
471c794 [hlin09] Move getJRDD and broadcast's value to 00-generic.R.
89b886d [hlin09] Move setGeneric() to 00-generics.R.
97dde1a [hlin09] Add a test for access operators.
09ff163 [Shivaram Venkataraman] Merge pull request #204 from cafreeman/sparkr-sql
15a713f [cafreeman] Fix example for `dropTempTable`
dc1291b [hlin09] Add checks for namespace access operators in cleanClosure.
b4c0b2e [Davies Liu] use fork package
3db5649 [cafreeman] Merge branch 'sparkr-sql' of https://github.com/amplab-extras/SparkR-pkg into sparkr-sql
789be97 [Shivaram Venkataraman] Merge pull request #207 from shivaram/err-remove
e60578a [cafreeman] update tests to guarantee row order
5eec6fc [Shivaram Venkataraman] Merge pull request #206 from sun-rui/SPARKR-156_2
3f7aed6 [Sun Rui] Fix minor typos in the function description.
a8cebf0 [Shivaram Venkataraman] Remove print statement in SparkRBackendHandler This print statement is noisy for SQL methods which have multiple APIs (like loadDF). We already have a better error message when no valid methods are found
5e3a576 [Sun Rui] Fix indentation.
f3d99a6 [Sun Rui] [SPARKR-156] phase 2: implement zipWithIndex() of the RDD class.
a582810 [cafreeman] Merge branch 'dfMethods' into sparkr-sql
7a5d6fd [cafreeman] `withColumn` and `withColumnRenamed`
c5fa3b9 [cafreeman] New `select` method
bcb0bf5 [Shivaram Venkataraman] Merge pull request #180 from davies/group
9dd6a5a [Davies Liu] Update SparkRBackendHandler.scala
e6fb8d8 [Davies Liu] improve logging
428a99a [Davies Liu] remove test, catch exception
fef99de [cafreeman] `intersect`, `subtract`, `unionAll`
befbd32 [cafreeman] `insertInto`
9d01bcd [cafreeman] `dropTempTable`
d8c1c09 [Davies Liu] add test to start and stop context multiple times
18c6004 [Shivaram Venkataraman] Merge pull request #201 from sun-rui/SPARKR-156_1
dfb399a [Davies Liu] address comments
f06ccec [Sun Rui] Use mapply() instead of for statement.
3c7674f [Davies Liu] Merge branch 'die' of github.com:davies/SparkR-pkg into die
ac8a852 [Davies Liu] close monitor connection in sparkR.stop()
4d0fb56 [Shivaram Venkataraman] Merge pull request #203 from shivaram/sparkr-hive-fix
62b0760 [Shivaram Venkataraman] Fix test hive context package name
47a613f [Shivaram Venkataraman] Fix HiveContext package name
fb3b139 [Davies Liu] fix tests
d0d4626 [Shivaram Venkataraman] Merge pull request #199 from davies/load
8b7fb67 [Davies Liu] fix HiveContext
bb46832 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into load
e9e2a03 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into group
b875b4f [Davies Liu] fix style
de2abfa [Shivaram Venkataraman] Merge pull request #202 from cafreeman/sparkr-sql
3675fcf [cafreeman] Update `explain` and fixed doc for `toJSON`
5fd9575 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into load
6fac596 [Davies Liu] support Column expression in agg()
f10a24e [Davies Liu] address comments
ff8b005 [cafreeman] 'saveAsParquetFile`
a5c2887 [cafreeman] fix test
3fab0f8 [cafreeman] `showDF`
779c102 [cafreeman] `isLocal`
68b11cf [cafreeman] `toJSON`
0ac4abc [cafreeman] 'explain`
20242c4 [cafreeman] clean up docs
6a1fe64 [Shivaram Venkataraman] Merge pull request #198 from cafreeman/sparkr-sql
198c130 [Shivaram Venkataraman] Merge pull request #200 from shivaram/sparkr-sql-build
870acd4 [Shivaram Venkataraman] Use rc2 explicitly
8b9a963 [cafreeman] Merge branch 'sparkr-sql' of https://github.com/amplab-extras/SparkR-pkg into sparkr-sql
bc90115 [cafreeman] Fixed docs
3865f39 [Sun Rui] [SPARKR-156] phase 1: implement zipWithUniqueId() of the RDD class.
a37fd80 [Davies Liu] Update sparkR.R
d18f9d3 [Shivaram Venkataraman] Remove SparkR snapshot build We now have 1.3.0 RC2 on Apache Staging
8de958d [Davies Liu] Update SparkRBackend.scala
4e0becc [Shivaram Venkataraman] Merge pull request #194 from davies/api
197a79b [Davies Liu] add HiveContext (commented)
32aa01d [Shivaram Venkataraman] Merge pull request #191 from felixcheung/doc
5073e07 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into load
7918634 [cafreeman] Fix test
acea146 [cafreeman] remove extra line
74269f3 [cafreeman] Merge branch 'dfMethods' into sparkr-sql
cd7ac8a [Shivaram Venkataraman] Merge pull request #197 from cafreeman/sparkr-sql
494a4dd [cafreeman] update export
e14c328 [cafreeman] `selectExpr`
32b37d1 [cafreeman] Fixed indent in `join` test.
2e7b190 [Felix Cheung] small update on yarn deploy mode.
8ff29d6 [Davies Liu] fix tests
12a6db2 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into api
294ca4a [cafreeman] `join`, `sort`, and `filter`
4fa6343 [cafreeman] Refactor `join` generic for use with `DataFrame`
3f22c8d [Shivaram Venkataraman] Merge pull request #195 from cafreeman/sparkr-sql
2b6f980 [Davies Liu] shutdown the JVM after R process die
e8639c3 [cafreeman] New 1.3 repo and updates to `column.R`
ed9a89f [Davies Liu] address comments
03bcf20 [Davies Liu] Merge branch 'group' of github.com:davies/SparkR-pkg into group
39c253d [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into group
98cc97a [Davies Liu] fix test and docs
e2d144a [Felix Cheung] Fixed small typos
3beadcf [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into api
06cbc2d [Davies Liu] launch R worker by a daemon
8a676b1 [Shivaram Venkataraman] Merge pull request #188 from davies/column
524c122 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into column
f798402 [Davies Liu] Update column.R
1d0f2ae [Davies Liu] Update DataFrame.R
03402eb [Felix Cheung] Updates as per feedback on sparkR-submit
76cf2e0 [Shivaram Venkataraman] Merge pull request #192 from cafreeman/sparkr-sql
1955a09 [cafreeman] return object instead of a list of one object
f585929 [cafreeman] Fix brackets
e998356 [cafreeman] define generic for 'first' in RDD API
71d66a1 [Davies Liu] fix first(0
8ec21af [Davies Liu] fix signature
acae527 [Davies Liu] refactor
d7b17a4 [Davies Liu] fix approxCountDistinct
7dfe27d [Davies Liu] fix cyclic namespace dependency
8caf5bb [Davies Liu] use S4 methods
5c0bb24 [Felix Cheung] Doc updates: build and running on YARN
773baf0 [Zongheng Yang] Merge pull request #178 from davies/random
862f07c [Shivaram Venkataraman] Merge pull request #190 from shivaram/SPARKR-79
b457833 [Shivaram Venkataraman] Merge pull request #189 from shivaram/stdErrFix
f7caeb8 [Davies Liu] Update SparkRBackend.scala
8c4deae [Shivaram Venkataraman] Remove unused function
6e51c7f [Shivaram Venkataraman] Fix stderr redirection on executors
7afa4c9 [Shivaram Venkataraman] Merge pull request #186 from hlin09/funcDep3
4d36ab1 [hlin09] Add tests for broadcast variables.
3f57e56 [hlin09] Fix comments.
7b72487 [hlin09] Fix comments.
ae05bf1 [Davies Liu] Merge branch 'sparkr-sql' of github.com:amplab-extras/SparkR-pkg into column
abb4bb9 [Davies Liu] add Column and expression
eb8ac11 [Shivaram Venkataraman] Set Spark version 1.3.0 in Windows build
5c72e73 [Davies Liu] wait atmost 100 seconds
e425437 [Shivaram Venkataraman] Merge pull request #177 from lythesia/master
a00f502 [lythesia] fix indents
0346e5f [Davies Liu] address comment
6134649 [Shivaram Venkataraman] Merge pull request #187 from cafreeman/sparkr-sql
ad0935e [lythesia] minor fixes
b0e7f73 [cafreeman] Update `sampleDF` test
7b0d070 [lythesia] keep partitions check
889c265 [cafreeman] numToInt utility function
27dd3a0 [lythesia] modify tests for repartition
cad0f0c [cafreeman] Fix docs and indents
2808dcf [cafreeman] Three more DataFrame methods
5ef66fb [Davies Liu] send back the port via temporary file
3b46429 [Davies Liu] Merge branch 'master' of github.com:amplab-extras/SparkR-pkg into random
798f453 [cafreeman] Merge branch 'sparkr-sql' into dev
9aa4acf [Shivaram Venkataraman] Merge pull request #184 from davies/socket
020bce8 [Shivaram Venkataraman] Merge pull request #183 from cafreeman/sparkr-sql
222e06b [cafreeman] Lazy evaluation and formatting changes
e776324 [Davies Liu] fix import
211cc15 [cafreeman] Merge branch 'sparkr-sql' into dev
3351afd [hlin09] Replaces getDependencies with cleanClosure, to serialize UDFs to workers.
e7c56d6 [lythesia] fix random partition key
50c74b1 [Davies Liu] address comments
083c89f [cafreeman] Remove commented lines an unused import
dfa119b [hlin09] Improve the coverage of processClosure.
a41c9b9 [cafreeman] Merge branch 'wrapper' into sparkr-sql
1cd714f [cafreeman] Wrapper function docs.
db0cd9e [cafreeman] Clean up for wrapper functions
818c19f [cafreeman] Update schema-related functions
a57884e [cafreeman] Remove unused import
d72e830 [cafreeman] Add wrapper for `StructField` and `StructType`
2ea2ecf [lythesia] use generic arg
09b9512 [hlin09] add docs
f4f077c [hlin09] Add recursive cleanClosure for function access.
f84ad27 [hlin09] Merge remote-tracking branch 'upstream/master' into funcDep2
5300766 [Shivaram Venkataraman] Merge pull request #185 from hlin09/hlin09
07aa7c0 [hlin09] Unifies the implementation of lapply with lapplyParitionsWithIndex.
f4dbb0b [Davies Liu] use socket in worker
8282c59 [Davies Liu] Update DataFrame.R
ba495a8 [Davies Liu] Update NAMESPACE
36dffb3 [cafreeman] Add 'head` and `first`
534a95f [cafreeman] Schema-related methods
64f488d [cafreeman] Cache and Persist Methods
30d71fd [cafreeman] Standardize method arguments for DataFrame methods
785898b [Shivaram Venkataraman] Merge pull request #182 from cafreeman/sparkr-sql
2619003 [Shivaram Venkataraman] Merge pull request #181 from cafreeman/master
a9bbe0b [cafreeman] Update existing SparkSQL functions
8c241a3 [cafreeman] Merge with master, include changes to method args
68d6de4 [cafreeman] Fix typos
8d2ec6e [Davies Liu] add sum/max/min/avg/mean
774e687 [Davies Liu] add missing API in SQLContext
1e72b4b [Davies Liu] missing API in SQLContext
3294949 [Chris Freeman] Restore `rdd` argument to `getJRDD`
3a58ebc [Davies Liu] rm unrelated file
8bd93b5 [Davies Liu] fix signature
c652b4c [cafreeman] Update method signatures to use generic arg
48c8827 [Davies Liu] update NAMESPACE
84e2d8c [Davies Liu] groupBy and agg()
7c3ddbd [Davies Liu] create jmode in JVM
9465426 [Davies Liu] load and save
982f342 [lythesia] fix numeric issue
7651d84 [lythesia] fix coalesce
4e712e1 [Davies Liu] use random port in backend
041d22b [Shivaram Venkataraman] Merge pull request #172 from cafreeman/sparkr-sql
0d07770 [cafreeman] Added `limit` and updated `take`
301d8e5 [cafreeman] Remove extraneous map functions
0387db2 [cafreeman] Remove colNames
04c4b65 [lythesia] add repartition/coalesce
231deab [cafreeman] Change reserialize to serializeToBytes
acf7e1a [cafreeman] Rework the Scala to R DataFrame Conversion
481ae37 [cafreeman] Updated stale comments and standardized arg names
21d4a97 [hlin09] Adds cleanClosure to capture the function closures.
d24ffb4 [hlin09] Merge remote-tracking branch 'upstream/master' into funcDep2
8be02de [hlin09] Revert "loop 1-12 test pass."
fddb9cc [hlin09] Revert "add docs"
f8ef0ab [hlin09] Revert "More docs"
8e4b3da [hlin09] Revert "More docs"
57e005b [hlin09] Revert "fix tests."
c10148e [Shivaram Venkataraman] Merge pull request #174 from shivaram/sparkr-runner
910e3be [Shivaram Venkataraman] Add a timeout for initialization Also move sparkRBackend.stop into a finally block
bf52b17 [Shivaram Venkataraman] Merge remote-tracking branch 'amplab-sparkr/master' into sparkr-runner
08102b0 [Shivaram Venkataraman] Merge pull request #176 from lythesia/master
9c77b20 [Chris Freeman] Merge pull request #2 from shivaram/sparkr-sql
179ab38 [lythesia] add try counts and increase time interval
71a73b2 [Shivaram Venkataraman] Use a getter for serialization mode This change encapsulates the semantics of serialization mode for RDDs inside a getter function. For PipelinedRDDs if a backing JavaRDD is available we use that else we fall back to a default serialization mode
06bf250 [Shivaram Venkataraman] Merge pull request #173 from shivaram/windows-space-fix
88bf97f [Shivaram Venkataraman] Create SparkContext for R shell launch
f9268d9 [Shivaram Venkataraman] Fix code review comments
e6ad12d [Shivaram Venkataraman] Update comment describing sparkR-submit
17eda4c [Shivaram Venkataraman] Merge pull request #175 from falaki/docfix
ba2b72b [Hossein] Spark 1.1.0 is default
4cd7d3f [lythesia] retry backend connection
749e2d0 [Hossein] Updated README
bc04cf4 [Shivaram Venkataraman] Use SPARKR_BACKEND_PORT in sparkR.R as default Change SparkRRunner to use EXISTING_SPARKR_BACKEND_PORT to differentiate between the two
22a19ac [Shivaram Venkataraman] Use a semaphore to wait for backend to initalize Also pick a random port to avoid collisions
7f1f0f8 [cafreeman] Move comments to fit 100 char line length
8b84e4e [cafreeman] Make if statements more explicit
ce5d5ab [cafreeman] New tests for Union and Object File
b063320 [cafreeman] Changed 'serialized' to 'serializedMode'
0981dff [Zongheng Yang] Merge pull request #168 from sun-rui/SPARKR-153_2
86fc639 [Shivaram Venkataraman] Move sparkR-submit into pkg/inst
fd8f8a9 [Shivaram Venkataraman] Merge branch 'hqzizania-master'
a33dbea [Shivaram Venkataraman] Merge branch 'master' of https://github.com/hqzizania/SparkR-pkg into hqzizania-master
384e6e2 [Shivaram Venkataraman] Merge pull request #171 from hlin09/hlin09
1f5a6ac [hlin09] fixed comments
7f7596a [cafreeman] Additional handling for "row" serialization
8c3b8c5 [cafreeman] Add test for UnionRDD on "row" serialization
b1141f8 [cafreeman] Fixed formatting issues.
5db30bf [cafreeman] Changed serialized from bool to string
2f0c0b8 [cafreeman] Add check for serialized type
d243dfb [cafreeman] Clean up code
5ff63a2 [cafreeman] Change test from boolean to string
77fec1a [cafreeman] Updated .Rd files
9224989 [cafreeman] Various updates for DataFrame to RRDD
26af62b [cafreeman] DataFrame to RRDD
e004481 [cafreeman] Update UnionRDD test
5292be7 [hlin09] Adds support of pipeRDD().
e2a7560 [Shivaram Venkataraman] Merge pull request #170 from cafreeman/sparkr-sql
5d537f4 [cafreeman] Add pairRDD to Description
b6fa88e [cafreeman] Updating to current master
0cda231 [Sun Rui] [SPARKR-153] phase 2: implement aggregateByKey() and foldByKey().
95ee6b4 [Shivaram Venkataraman] Merge remote-tracking branch 'amplab-sparkr/master' into sparkr-runner
67fbc60 [Shivaram Venkataraman] Add support for SparkR shell to use spark-submit This ensures that SparkConf options are read in both in batch and interactive modes
2271030 [Shivaram Venkataraman] Merge pull request #167 from sun-rui/removePartionByInRDD
7fcb46a [Sun Rui] Remove partitionBy() in RDD.
52f94c4 [Shivaram Venkataraman] Merge pull request #160 from lythesia/master
59e2d54 [lythesia] merge with upstream
5836650 [Zongheng Yang] Merge pull request #163 from sun-rui/SPARKR-153_1
141723e [Sun Rui] fix comments.
f73a07e [Shivaram Venkataraman] Merge pull request #165 from shivaram/sparkr-sql-build
10ffc6d [Shivaram Venkataraman] Set Spark version to 1.3 using staging dependency Also fix the maven build
c91ede2 [Shivaram Venkataraman] Merge pull request #164 from hlin09/hlin09
9d335a9 [hlin09] Makes git to ignore Eclipse meta files.
94066bf [Sun Rui] [SPARKR-153] phase 1: implement fold() and aggregate().
9c391c7 [hqzizania] Merge remote-tracking branch 'upstream/master'
5f29551 [hqzizania] modified: pkg/R/RDD.R modified: pkg/R/context.R
d968664 [lythesia] fix comment
7972858 [Shivaram Venkataraman] Merge pull request #159 from sun-rui/SPARKR-150_2
7690878 [lythesia] separate out pair RDD functions
f4573c1 [Sun Rui] Use reduce() instead of sortBy().take() to get the ordered elements.
63e62ed [Sun Rui] [SPARKR-150] phase 2: implement takeOrdered() and top().
050390b [Shivaram Venkataraman] Fix bugs in inferring R file
8398f2e [Shivaram Venkataraman] Add sparkR-submit helper script Also adjust R file path for YARN cluster mode
bd6705b [Zongheng Yang] Merge pull request #154 from sun-rui/SPARKR-150
c7964c9 [Sun Rui] Merge with upstream master.
7feac38 [Sun Rui] Use default arguments for sortBy() and sortKeyBy().
de2bfb3 [Sun Rui] Fix minor comments and add more test cases.
0c6e071 [Zongheng Yang] Merge pull request #157 from lythesia/master
f5038c0 [lythesia] pull out anonymous functions in groupByKey
ba6f044 [lythesia] fixes for reduceByKeyLocally
343b6ab [Oscar Olmedo] Export sparkR.stop Closes#156 from oscaroboto/master
25639cf [Shivaram Venkataraman] Replace tabs with spaces
bb25920 [Shivaram Venkataraman] Merge branch 'dputler-master'
fd836db [hlin09] fix tests.
24a7f13 [hlin09] More docs
a465165 [hlin09] More docs
6ad4fc3 [hlin09] add docs
b082a35 [lythesia] add reduceByKeyLocally
7ca6512 [Shivaram Venkataraman] First cut of SparkRRunner
193f5fe [hlin09] loop 1-12 test pass.
345f1b8 [dputler] [SPARKR-195] Implemented project style guidelines for if-else statements
8043559 [Sun Rui] Add a TODO to use binary search in the range partitioner.
91b2fd6 [Sun Rui] Add more test cases.
e8ebbe4 [Shivaram Venkataraman] Merge pull request #152 from cafreeman/sparkr-sql
0c53d6c [dputler] Data frames now coerced to lists, and messages issued for a data frame or matrix on how they are parallelized
6d57ec0 [cafreeman] Remove json test file since we're using a temp
ac1ef09 [cafreeman] Update registerTempTable test
d9da451 [Sun Rui] [SPARKR-150] phase 1: implement sortBy() and sortByKey().
08ff30b [Shivaram Venkataraman] Merge pull request #153 from hqzizania/master
9767e8e [hqzizania] modified: pkg/man/collect-methods.Rd
5d69f0a [hqzizania] modified: pkg/R/RDD.R
4914091 [hqzizania] modified: pkg/inst/tests/test_rdd.R
742a68b [cafreeman] Update test_sparkRSQL.R
a95823e [hqzizania] modified: pkg/R/RDD.R
2d04526 [cafreeman] Formatting
fae9bdd [cafreeman] Renamed to SQLUtils.scala
39888ea [Chris Freeman] Update test_sparkSQL.R
fce2453 [cafreeman] Updated documentation for SQLContext
13fbf12 [cafreeman] Regenerated .Rd files
51ecf41 [cafreeman] Updated Scala object
30d7337 [cafreeman] Added SparkSQL test
74b3ed6 [cafreeman] Incorporate code feedback
554bda0 [Zongheng Yang] Merge pull request #147 from shivaram/sparkr-ec2-fixes
a5f4f8f [cafreeman] Squashed commit of the following:
f34bb88 [Shivaram Venkataraman] Remove profiling information from this PR
c662f29 [Zongheng Yang] Merge pull request #146 from shivaram/spark-1.2-build
21e9b74 [Zongheng Yang] Merge pull request #145 from lythesia/master
76f6b9e [Shivaram Venkataraman] Merge pull request #149 from hqzizania/master
1c2dbec [lythesia] minor fix for refactoring join code
5b380d3 [hqzizania] modified: pkg/man/combineByKey.Rd modified: pkg/man/groupByKey.Rd modified: pkg/man/partitionBy.Rd modified: pkg/man/reduceByKey.Rd
98794fe [hqzizania] modified: pkg/R/RDD.R
b66534d [Zongheng Yang] Merge pull request #144 from shivaram/fix-rd-files
60da1df [Shivaram Venkataraman] Initialize timing variables
179aa75 [Shivaram Venkataraman] Bunch of fixes for longer running jobs 1. Increase the timeout for socket connection to wait for long jobs 2. Add some profiling information in worker.R 3. Put temp file writes before stdin writes in RRDD.scala
06d99f0 [Shivaram Venkataraman] Fix URI to have right number of slashes
add97f5 [Shivaram Venkataraman] Use URL encode to create valid URIs for jars
4eec962 [lythesia] refactor join functions
73430c6 [Shivaram Venkataraman] Make SparkR work on paths with spaces on Windows
aaf8f47 [Shivaram Venkataraman] Exclude hadoop client from Spark dependency
227ee42 [Zongheng Yang] Merge pull request #141 from shivaram/SPARKR-140
ac5ceb1 [Shivaram Venkataraman] Fix code review comments
32394de [Shivaram Venkataraman] Regenerate Rd files for SparkR This fixes a number of issues in SparkR man pages. The main changes are 1. Don't export or generate docs for PipelineRDD 2. Fix variable names for Filter, count to match base methods 3. Document missing arguments for sparkR.init, print.jobj etc.
e157bf6 [Shivaram Venkataraman] Use prev_serialized to track if JRDD is serialized This changes introduces a new variable in PipelineRDD environment to track if the prev_jrdd is serialized or not.
7428a7e [Zongheng Yang] Merge pull request #143 from shivaram/SPARKR-181
7dd1797 [Shivaram Venkataraman] Address code review comments
8f81c45 [Shivaram Venkataraman] Remove roxygen export for PipelinedRDD
0cb90f1 [Zongheng Yang] Merge pull request #142 from shivaram/SPARKR-169
d1c6e6c [Shivaram Venkataraman] Buffer stderr from R and return it on Exception This change buffers the last 100 lines from R process and passes these lines back to the driver if we have an exception. This will help users debug why their tasks failed on the cluster
d6c1393 [Shivaram Venkataraman] Suppress warnings from normalizePath
a382835 [Shivaram Venkataraman] Fix serialization tracking in pipelined RDDs When creating a pipeline RDD, we need to check if the JavaRDD belonging to the parent is serialized.
da39529 [Zongheng Yang] Merge pull request #140 from sun-rui/SPARKR-183
2814caa [Sun Rui] Merge with upstream master.
cd2a5b3 [Sun Rui] Add reference to Nagle's algorithm and clean code.
52356b6 [Shivaram Venkataraman] Merge pull request #139 from shivaram/fix-backend-exit
97e5a1f [Sun Rui] [SPARKR-183] Fix the issue that parallelize collect tests are slow.
a9f8e8e [Shivaram Venkataraman] Merge pull request #138 from concretevitamin/fix-collect-test
125ae43 [Shivaram Venkataraman] Fix SparkR backend to exit in more cases This change has two fixes 1. When the workspace is saved (from R or RStudio) the backend connection seems to be closed before the finalizer is run. In such cases we reopen the connection and stop the backend 2. With RStudio when R is restarted, there are port-conflicts which appear due to a race condition between the JVM and rsession restart. This change adds a 1 sec sleep to avoid this race.
12c102a [Zongheng Yang] Simplify a unit test.
9c0637a [Zongheng Yang] Merge pull request #137 from shivaram/fix-docs
0df0e18 [Shivaram Venkataraman] Fix documentation for includePackage
7549f88 [Zongheng Yang] Merge pull request #136 from shivaram/man-updates
7edbe46 [Shivaram Venkataraman] Add missing man pages
9cb9567 [Shivaram Venkataraman] Merge pull request #131 from shivaram/rJavaExpt
1fa722e [Shivaram Venkataraman] Rename to SerDe now
2fcb051 [Shivaram Venkataraman] Rename to SerDeJVMR
d112cf0 [Shivaram Venkataraman] Style fixes
9fd01cc [Shivaram Venkataraman] Remove unnecessary braces
0881931 [Shivaram Venkataraman] Some more style fixes
f00b531 [Shivaram Venkataraman] Address code review comments. Big changes include style fixes throughout for named arguments
c09ba05 [Shivaram Venkataraman] Change jobj id to be just an integer Add a new print.jobj that gets the class name and prints it Also add a utility function isInstanceOf
be05b16 [Shivaram Venkataraman] Check if context, connection exist before stopping
d596a23 [Shivaram Venkataraman] Address code review comments
396e7ac [Shivaram Venkataraman] Changes to make new backend work on Windows This change uses file.path to construct the Java binary path in a OS agnostic way and uses system2 to handle quoting binary paths correctly. Tests pass on Mac OSX and a Windows EC2 instance.
e7a4e03 [Shivaram Venkataraman] Remove unused file BACKEND.md
62f380b [Shivaram Venkataraman] Update worker.R to use new deserialization call
8b9c4e6 [Shivaram Venkataraman] Change RDD name, setName to use new backend
6dcd5c5 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/amplab-extras/SparkR-pkg into rJavaExpt
0873397 [Shivaram Venkataraman] Refactor java object tracking into a new singleton. Also add comments describing each class
95db964 [Shivaram Venkataraman] Add comments, cleanup new R code
bcd4258 [Zongheng Yang] Merge pull request #130 from lythesia/master
74dbc5e [Sun Rui] Match method using parameter types.
7ad4a4d [Sun Rui] Use 1 char to represent types on the backend->client direction.
bace887 [Sun Rui] Use an integer count for the backend java object ID because Uniqueness isn't guaranteed by System.identityHashCode().
b38d04f [Sun Rui] Use 1 char to represent types on the client -> backend direction.
f88bc68 [lythesia] Merge branch 'master' of github.com:lythesia/SparkR-pkg
71d41f5 [lythesia] add test case for fullOuterJoin
eb4f423 [lythesia] --amend
cffecc5 [lythesia] add test case for fullOuterJoin
a547dd2 [Shivaram Venkataraman] Move classTag, rddRef into newJObject call This avoids them getting eagerly garbage collected
1255391 [Shivaram Venkataraman] Add a finalizer for jobj objects This enables Java objects to be garbage collected on the backend when they are no longer referenced in R. Also rename newJava to newJObject to be more consistent with callJMethod
70fa409 [Sun Rui] Add YARN Conf Dir to the class path when launching the backend.
a1108ca [lythesia] add fullOuterJoin in RDD.R
2152727 [Shivaram Venkataraman] Remove empty file
cd08bee [Shivaram Venkataraman] Update all functions to use new backend All unit tests pass.
9de49b7 [Shivaram Venkataraman] Add high level calls for methods, constructors Also update BACKEND.md
5a97ea4 [Shivaram Venkataraman] Add jobj S3 class that holds backend refs
e071d3e [Shivaram Venkataraman] Change SparkRBackend to use general method calls This change uses a custom protocl + JNI to invoke any method on a given object type. Also update serializers, deserializers to make code more concise
49f0404 [Shivaram Venkataraman] Merge pull request #129 from lythesia/master
7f8cd82 [lythesia] update man
4715ed2 [Yi Lu] Update RDD.R
5a53801 [lythesia] fix name,setName
4f3870b [lythesia] add name,setName in RDD.R
1c25700 [Shivaram Venkataraman] Merge pull request #128 from sun-rui/SPARKR-165
c8507d8 [Sun Rui] [SPARKR-165] IS_SCALAR is not present in R before 3.1
2cff2bd [Sun Rui] Add function to invoke Java method.
7a31da1 [Shivaram Venkataraman] Merge branch 'dputler-master'. Closes#119
0ceba82 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/dputler/SparkR-pkg into dputler-master
735f70c [Shivaram Venkataraman] Merge pull request #125 from 7c00/rawcon
fccfe6c [Shivaram Venkataraman] Merge pull request #127 from sun-rui/SPARKR-164
387bd57 [Sun Rui] [SPARKR-164] Temporary files used by SparkR accumulat as time goes on.
5f2268f [Shivaram Venkataraman] Add support to stop backend
5f745c0 [Shivaram Venkataraman] Update notes in backend
22015c1 [Shivaram Venkataraman] Add first cut of SparkR Backend
52821da [Todd Gao] switch the order of packages and function deps
d7b0007 [Todd Gao] remove memCompress
cb6873e [Shivaram Venkataraman] Merge pull request #126 from sun-rui/SPARKR-147
c5962eb [Todd Gao] further optimize using rawConnection
f04c6e0 [Sun Rui] [SPARKR-147] Support multiple directories as input to textFile.
b7de604 [Todd Gao] optimize execFunctionDeps loading in worker.R
4d4fc30 [Shivaram Venkataraman] Merge pull request #122 from cafreeman/master
b508877 [cafreeman] Update SparkR_IDE_Setup.sh
21ed9d7 [cafreeman] Update build.sbt
f73ec16 [cafreeman] Delete SparkR_IDE_Setup_Guide.md
d63b026 [cafreeman] Delete SparkR_Quick_Start_Guide.md
6e6cb62 [cafreeman] Update SparkR_IDE_Setup.sh
bc6042b [cafreeman] Update build.sbt
a8197d5 [cafreeman] Merge remote-tracking branch 'upstream/master'
d671564 [Zongheng Yang] Merge pull request #123 from shivaram/jcheck-void
76b8d00 [Zongheng Yang] Merge pull request #124 from shivaram/master
b690d58 [Shivaram Venkataraman] Specify how to change Spark versions in README
0fb003d [Shivaram Venkataraman] Merge branch 'master' of https://github.com/amplab-extras/SparkR-pkg into jcheck-void
1c227b4 [Shivaram Venkataraman] Also add a check in context.R
96812b6 [Shivaram Venkataraman] Check for exceptions after void method calls
f5c216d [cafreeman] Merge remote-tracking branch 'upstream/master'
90c8933 [Zongheng Yang] Merge pull request #121 from shivaram/fix-sort-order
bd0e3b4 [Shivaram Venkataraman] Fix saveAsTextFile test case
2e55f67 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/amplab-extras/SparkR-pkg into fix-sort-order
f10c607 [Shivaram Venkataraman] Merge pull request #118 from sun-rui/saveAsTextFile
6c9bfc0 [Sun Rui] Merge remote-tracking branch 'SparkR_upstream/master' into saveAsTextFile
6faedbe [cafreeman] Update SparkR_IDE_Setup_Guide.md
57008bc [cafreeman] Update SparkR_IDE_Setup.sh
bb1c17d [cafreeman] Update SparkR_IDE_Setup.sh
538bfdb [cafreeman] Update SparkR_Quick_Start_Guide.md
31322c6 [cafreeman] Update SparkR_IDE_Setup.sh
ca3f593 [Sun Rui] Refactor RRDD code.
df58d95 [cafreeman] Update SparkR_Quick_Start_Guide.md
b488c88 [cafreeman] Rename Spark_IDE_Setup.sh to SparkR_IDE_Setup.sh
b2545a4 [cafreeman] Added IDE Setup Guide
0ffb5de [cafreeman] Merge branch 'master' of https://github.com/cafreeman/SparkR-pkg
bd8fbfb [cafreeman] Merge remote-tracking branch 'upstream/master'
98efa5b [cafreeman] Added Quick Start Guide
3cf88f2 [Shivaram Venkataraman] Sort lists before comparing in unit tests Since Spark doesn't guarantee that shuffle results will always be in the same order, we need to sort the results before comparing for deterministic behavior
d621dbc [Shivaram Venkataraman] Merge pull request #120 from sun-rui/objectFile
c4a44d7 [Sun Rui] Add @seealso in comments and extract some common code into a function.
724e3a4 [cafreeman] Update Spark_IDE_Setup.sh
8153e5a [Sun Rui] [SPARKR-146] Support read/save object files in SparkR.
17f9909 [cafreeman] Update Spark_IDE_Setup.sh
a9eb080 [cafreeman] IDE Shell Script
64d800c [dputler] Merge remote branch 'upstream/master'
1fbdb2e [dputler] Added the ability for the user to specify a text file location throught the use of tilde expansion or just the file name if it is in the working directory.
d83c017 [Shivaram Venkataraman] Merge pull request #113 from sun-rui/stringHashCodeInC
a7d9cdb [Sun Rui] Fix build on Windows.
7d81b05 [Shivaram Venkataraman] Merge pull request #114 from hlin09/hlin09
47c4bb7 [hlin09] fix reviews
a457f7f [Shivaram Venkataraman] Merge pull request #116 from dputler/master
0fa48d1 [Shivaram Venkataraman] Merge pull request #117 from sun-rui/keyBy
85cfeb4 [Sun Rui] [SPARKR-144] Implement saveAsTextFile() in the RDD class.
09083d9 [Sun Rui] Add keyBy() to the RDD class.
caad5d7 [dputler] Adding the script to install software on the Cloudera Quick Start VM.
dca3d05 [hlin09] Minor fix.
ece5f7d [hlin09] Merge remote-tracking branch 'upstream/master' into hlin09
a40874b [hlin09] Use extendible accumulators aggregate the cogroup values.
d0347ce [Zongheng Yang] Merge pull request #112 from sun-rui/outer_join
492f76e [Sun Rui] Refine code and add description.
ba01358 [Shivaram Venkataraman] Merge pull request #115 from sun-rui/SPARKR-130
5c8e46e [Sun Rui] Fix per the review comments.
7190a2c [Sun Rui] Update comment to add a reference to storage levels.
1da705e [hlin09] Fix the review comments.
c4b77be [Sun Rui] [SPARKR-130] Add persist(storageLevel) API to RDD.
b424a1a [hlin09] Add function cogroup().
9770312 [Shivaram Venkataraman] Merge pull request #111 from hlin09/hlin09
cead7df [hlin09] fix review comments.
54f712e [Sun Rui] Implement string hash code in C.
425f0c6 [Sun Rui] Add leftOuterJoin() and rightOuterJoin() to the RDD class.
39509c7 [hlin09] add Rd file for foreach and foreachPartition.
63d6ac7 [hlin09] Adds function foreach() and foreachPartition().
9c954df [Zongheng Yang] Merge pull request #105 from sun-rui/join
c71228d [Sun Rui] Pre-allocate list with fixed length. Add test case for join() using string key.
bc3e9f6 [Shivaram Venkataraman] Merge pull request #108 from concretevitamin/take-optimize
c06fc90 [Zongheng Yang] Fix: only optimize for unserialized dataset case.
d399aeb [Zongheng Yang] Apply size-capping on logical representation instead of physical.
e4217dd [Zongheng Yang] Merge pull request #107 from shivaram/master
7952180 [Shivaram Venkataraman] Copy, use getLocalDirs from Spark Utils.scala
08e24c3 [Zongheng Yang] Merge pull request #109 from hlin09/hlin09
97d4e02 [Zongheng Yang] Min() upper-bound size with actual size.
bb779bf [hlin09] Rename the filter function to filterRDD to follow the API consistency. Filter() is also kept.
ce1661f [Zongheng Yang] Fix slow take(): deserialize only up to necessary # of elements.
4dca9b1 [Shivaram Venkataraman] Merge pull request #106 from hlin09/hlin09
1220d92 [hlin09] Adds function numPartitions().
2326a65 [Shivaram Venkataraman] Use SPARK_LOCAL_DIRS to create tmp files
e119757 [hlin09] Minor fix.
9c24c8b [hlin09] Adds function countByKey().
48fce67 [hlin09] Adds countByValue().
6679eef [Sun Rui] Update documentation for join().
70586b4 [Sun Rui] Add join() to the RDD class.
e6fb999 [Zongheng Yang] Merge pull request #103 from shivaram/rlibdir-fix
a21f146 [Shivaram Venkataraman] Merge pull request #102 from hlin09/hlin09
32eb619 [Shivaram Venkataraman] Merge pull request #104 from sun-rui/add_keys_values
d8692e9 [Sun Rui] Add keys() and values() for the RDD class.
18b9be1 [Shivaram Venkataraman] Allow users to set where SparkR is installed This also adds a warning if somebody tries to call sparkR.init multiple times.
a17f135 [hlin09] Adds tests for flatMap and flatMapValues.
4bcf59b [hlin09] Adds function flatMapValues.
4a193ef [Zongheng Yang] Merge pull request #101 from ashutoshraina/master
60d22f2 [Ashutosh Raina] changed sbt version
5400793 [Zongheng Yang] Merge pull request #98 from shivaram/windows-fixes-build
36d61a7 [Shivaram Venkataraman] Merge pull request #97 from hlin09/hlin09
f7d7d89 [hlin09] Remove redundant code in test.
6bbe823 [hlin09] minor style fix.
9b47f3a [Shivaram Venkataraman] Merge pull request #100 from hnahak87/patch-1
7f6e4ea [Harihar Nahak] Update logistic_regression.R
a605047 [Shivaram Venkataraman] Merge pull request #99 from hlin09/makefile
323151d [hlin09] Fix yar flag in Makefile to remove build error in Maven.
8911897 [hlin09] Make reserialize() private function in package.
79aee73 [Shivaram Venkataraman] Add notes on how to build SparkR on windows
49a99e7 [Shivaram Venkataraman] Clean up some commented code
ddc271b [Shivaram Venkataraman] Only append file:/// to non empty jar paths
a53952e [Shivaram Venkataraman] Add windows build scripts
325b179 [hlin09] Merge remote-tracking branch 'upstream/master' into hlin09
daf5040 [hlin09] Add reserialize() before union if two RDDs are not both serialized.
536afb1 [hlin09] Add new function of union().
7044677 [Shivaram Venkataraman] Merge branch 'master' of https://github.com/amplab-extras/SparkR-pkg into windows-fixes
d22a02d [Zongheng Yang] Merge pull request #94 from shivaram/windows-fixes-stdin
51924f7 [Shivaram Venkataraman] Merge pull request #90 from oscaroboto/master
eb97d85 [Shivaram Venkataraman] Merge pull request #96 from sun-rui/add_clarification_readme
5a128f4 [Sun Rui] Add clarification on setting Spark master when launching the SparkR shell.
187526a [oscaroboto] Update sparkR.R
32c567b [Shivaram Venkataraman] Merge pull request #95 from concretevitamin/master
4cd2d5e [Zongheng Yang] Notes about spark-ec2.
1c28e3b [Shivaram Venkataraman] Merge branch 'master' of https://github.com/amplab-extras/SparkR-pkg into windows-fixes
8e8a029 [Zongheng Yang] Merge pull request #92 from shivaram/sparkr-yarn
721043b [Zongheng Yang] Update README.md with YARN instructions.
1681f58 [Shivaram Venkataraman] Use temporary files for input instead of stdin This fixes a bug for Windows where stdin would get truncated
b084314 [oscaroboto] removed ... from example
44c93d4 [oscaroboto] Added example to SparkR.R
be82dcc [Shivaram Venkataraman] Merge pull request #93 from hlin09/hlin09
868554d [oscaroboto] Update sparkR.R
488ac47 [hlin09] Add generated Rd file of previous added functions, distinct() and mapValues().
b2740ad [hlin09] Add test for filter all elements. Add filter() as alias.
08d3631 [hlin09] Minor style fixes.
2c0e34f [hlin09] Adds function Filter(), which extracts the elements that satisfy a predicate.
5951d3b [Shivaram Venkataraman] Remove SBT plugin
4e70ced [oscaroboto] changed ExecutorEnv to sparkExecutorEnvMap, to make it consistent with sparkEnvirMap
903d18a [oscaroboto] changed executorEnv to sparkExecutorEnvMap, will do the same in R
f97346e [oscaroboto] executorEnv to lower-case e
88a524e [oscaroboto] Added LD_LIBRARY_PATH to the ExecutorEnv. This is need so that the nodes can find libjvm.so, or if the master has a different LD_LIBRARY_PATH then the nodes. Make sure to export LD_LIBRARY_PATH that includes the path to libjvm.so in the nodes.
1d208ae [oscaroboto] added the YARN_CONF_DIR to the classpath
8a9b75c [oscaroboto] forgot to change hm and ee inside the for loops
579db58 [Shivaram Venkataraman] Merge pull request #91 from sun-rui/add_max_min
4381efa [Sun Rui] use reduce() to implemement max() and min().
a5459c5 [Shivaram Venkataraman] Consolidate yarn flags
86b04eb [Shivaram Venkataraman] Don't use quotes around yarn
bf0797f [Shivaram Venkataraman] Add dependency on spark yarn module
af5fe77 [Shivaram Venkataraman] Fix SBT build, add dependency tree plugin
4917607 [Sun Rui] Add maximum() and minimum() API to RDD.
51bbbe4 [Shivaram Venkataraman] Changes to make SparkR work with YARN
9d5e3ab [oscaroboto] a few stylistic changes. Also change vars to sparkEnvirMap and eevars to ExecutorEnv, to match sparkR.R
578f545 [oscaroboto] a few stylistic changes
39eea2f [oscaroboto] Modification to dynamically create a sparkContext with YARN. Added .setExecutorEnv to the sparkConf in createSparkContext within the RRDD object. This modification was made together with sparkR.R
17ec42e [oscaroboto] A modification to dynamically create a sparkContext with YARN. sparkR.R modified to pass custom Jar file names and EnvironmentEnv to the sparkConf. RRDD.scala was also modified to accept the new inputs to creatSparkContext.
624ac9d [Shivaram Venkataraman] Merge pull request #87 from sun-rui/SPARKR-125
4f213db [Shivaram Venkataraman] Merge pull request #89 from sun-rui/SPARKR-108
eb833c5 [Shivaram Venkataraman] Merge pull request #88 from hlin09/hlin09
07bf971 [Sun Rui] [SPARKR-108] Implement map-side reduction for reduceByKey().
4accba1 [hlin09] Fixes style and adds an optional param 'numPartition' in distinct().
80d303a [hlin09] typo fixed.
e37a9b5 [hlin09] Adds function distinct() and mapValues().
08dac06 [Sun Rui] [SPARKR-125] Get the iterator of the parent RDD before launching a R worker process in compute() of RRDD/PairwiseRRDD
c4ba53c [Shivaram Venkataraman] Merge pull request #85 from edwardt/master
72a9d27 [root] reorder to keep relative ordering the same
f3fcb10 [root] fix up build.sbt also to match pom.xml
5ecbe3e [root] Make spark verison configurable in build script per ISSUE122
a44e63d [Shivaram Venkataraman] Merge pull request #84 from sun-rui/SPARKR-94
fbb5663 [Sun Rui] Add {} to one-line functions and add a test case for lookup where no match is found.
95beb4e [Shivaram Venkataraman] Merge pull request #82 from edwardt/master
36776c5 [edwardt] missed one 0.9.0 revert
b26deec [Sun Rui] [SPARKR-94] Add a method to get an element of a pair RDD object by key.
1ba256e [edwardt] Keep 0.9.0 and says uses 1.1.0 by default
5380c43 [root] missed one version
21f74da [root] upgrade to spark version 1.1.0 to match lastest merge list
ddfcde9 [root] merge
67d067a [Shivaram Venkataraman] Merge pull request #81 from sun-rui/SparkR-117
993868f [Sun Rui] [SPARKR-117] Update Spark dependency to 1.1.0
d20661a [Zongheng Yang] Merge pull request #80 from sun-rui/master
0b2da9f [Sun Rui] Update Rd file and add a test case for mapPartitions.
5879648 [Sun Rui] Add mapPartitions() method to RDD for API consistency.
c033461 [Shivaram Venkataraman] Merge pull request #79 from sun-rui/fix-kmeans
f62b77e [Sun Rui] Adjust coding style.
b40911d [Sun Rui] Fix syntax error in examples/kmeans.R.
5304451 [Shivaram Venkataraman] Merge pull request #78 from sun-rui/master
70ffbfb [Sun Rui] Fix a bug that modifications to build.sbt won't trigger rebuilding.
a25696c [Shivaram Venkataraman] Merge pull request #76 from edwardt/addjira
b8bbd93 [edwardt] Update README.md
615d930 [edwardt] Update README.md
e522e69 [edwardt] Update README.md
03e6ced [edwardt] Update README.md
3007015 [root] don't check in gedit buffer file'
c35c9a6 [root] Add where to enter bugs ad feeback
469eae3 [edwardt] Update README.md
61b4a43 [edwardt] Update Makefile (style uniformity)
ce3337d [edwardt] Update README.md
7ff68fc [root] Merge branch 'master' of https://github.com/edwardt/SparkR-pkg
16353f5 [root] add links to devtools and install_github
513b9e5 [Shivaram Venkataraman] Merge pull request #72 from edwardt/master
31608a4 [edwardt] Update Makefile (style uniformity)
4ffe146 [root] Makefile: factor out SPARKR_VERSION to reduce potential copy&paste error; cp & rm called with -f in build/clean phase; .gitignore includes checkpoints and unit test log generated by run-tests.sh
715275f [Zongheng Yang] Merge pull request #68 from shivaram/master
90e2083 [Shivaram Venkataraman] Add return type to hasNext
8eb983d [Shivaram Venkataraman] Fix up comment
2206164 [Shivaram Venkataraman] Delete temporary files after they are read This change deletes temporary files used for communication between Rscript and the JVM once they have been completely read.
5881da7 [Zongheng Yang] Merge pull request #67 from shivaram/improve-shuffle
81251e2 [Shivaram Venkataraman] Address code review comments
a5f573f [Shivaram Venkataraman] Use a better list append in shuffles This is helpful in scenarios where we have a large number of values in a bucket
388e64d [Shivaram Venkataraman] Merge pull request #55 from RevolutionAnalytics/master
e1f95b6 [Zongheng Yang] Merge pull request #65 from concretevitamin/parallelize-fix
fc1a71a [Zongheng Yang] Fix that collect(parallelize(sc,1:72,15)) drops elements.
b8204c5 [Zongheng Yang] Minor: update a URL in README.
86f30c3 [Antonio Piccolboni] better fix for amplab-extras/SparkR-pkg#53
b3c318d [Antonio Piccolboni] delayed loading to have all namespaces available.
f323e97 [Antonio Piccolboni] tentative fix for amplab-extras/SparkR-pkg#53
6f82269 [Zongheng Yang] Merge pull request #48 from shivaram/master
8f433e5 [Shivaram Venkataraman] Move up Hadoop in pom.xml and add back protobufs As Hadoop 1.0.4 doesn't use protobufs, we can't exclude protobufs from Spark always. This change tries to order the dependencies so that the shader first picks up Hadoop's protobufs over Mesos.
bfe7e26 [Shivaram Venkataraman] Merge pull request #36 from RevolutionAnalytics/vectorize-examples
059ae41 [Antonio Piccolboni] and more formatting
9dbd531 [Antonio Piccolboni] more formatting per committer request
948738a [Antonio Piccolboni] converted tabs to spaces per project request
49f5f5a [Shivaram Venkataraman] Merge pull request #35 from shivaram/master
3eb5ad3 [Shivaram Venkataraman] on_failure -> after_failure in travis.yml
139bdee [Shivaram Venkataraman] Cache sbt, maven, ivy dependencies
4ebced2 [Shivaram Venkataraman] Merge pull request #34 from shivaram/master
8437061 [Shivaram Venkataraman] Exclude protobuf from Spark dependency in Maven This avoids pulling in multiple versions of protobuf from Mesos and Hadoop.
91aa527 [Antonio Piccolboni] vectorized version, 36s 10 slices 10^6 per slice. The older version takes 30 sec on 1/10th of data.
f137a57 [Antonio Piccolboni] for rstudio users
1f7ffb0 [Antonio Piccolboni] implemented using matrices and vectorized calls wherever possible
46b23df [Antonio Piccolboni] replace require with library
b15d7db [Antonio Piccolboni] faster parsing
8b7aeb3 [Antonio Piccolboni] 22x speed improvement, 3X mem impovement
c5bce07 [Zongheng Yang] Merge pull request #30 from shivaram/string-tests
21fa2d8 [Shivaram Venkataraman] Fix bug where serialized was not changed for RRRD Reason: When an RRDD is created in getJRDD we have converted any possibly unserialized RDD to a serialized RDD.
9d1ea20 [Shivaram Venkataraman] Merge branch 'master' of github.com:amplab/SparkR-pkg into string-tests
7b9348c [Shivaram Venkataraman] Add tests for partition with string keys Add two tests one with a string array and one from a textFile to test both codepaths
aacd726 [Shivaram Venkataraman] Update README with maven proxy instructions
803e62c [Shivaram Venkataraman] Merge pull request #28 from concretevitamin/master
7c093e6 [Zongheng Yang] Use inherits() to test an object's class.
061c591 [Shivaram Venkataraman] Merge pull request #26 from hafen/master
90f9fda [Ryan Hafen] Fix isRdd() to properly check for class
5b10cc7 [Zongheng Yang] Merge pull request #24 from shivaram/master
7014f83 [Shivaram Venkataraman] Remove unused transformers in maven's pom.xml
b00cea5 [Shivaram Venkataraman] Add support for a Maven build
11ec9b2 [Shivaram Venkataraman] Merge pull request #12 from concretevitamin/pipelined
6b18a90 [Zongheng Yang] Merge branch 'master' into pipelined
57127b8 [Zongheng Yang] Merge pull request #23 from shivaram/master
1ac3940 [Zongheng Yang] Review feedback.
a06fb34 [Zongheng Yang] Remove outdated comment.
0a1fc13 [Shivaram Venkataraman] Fixes for using SparkR with Hadoop2. 1. Exclude ASM, Netty from Hadoop similar to Spark. 2. Concat services files to ensure HDFS filesystems work. 3. Update README with an example
9a1db44 [Zongheng Yang] Merge pull request #22 from shivaram/master
e462448 [Shivaram Venkataraman] Use `$` for calling `put` instead of .jrcall
ed4559a [Shivaram Venkataraman] Add support for passing Spark environment vars This change creates a new `createSparkContext` method in RRDD as we can't pass Map<String, String> through rJava. Also use SPARK_MEM in local mode to increase heap size and update the README with some examples.
10228fb [Shivaram Venkataraman] Merge pull request #20 from concretevitamin/digit-ex
1398d9f [Zongheng Yang] Add linear_solver_mnist to examples/.
d484c2a [Zongheng Yang] Add tests for actions on PipelinedRDD.
d9cb95c [Zongheng Yang] Add setCheckpointDir() to context.R; comment fix.
f8bc8a9 [Zongheng Yang] Minor edits per Shivaram's comments.
8cd67f7 [Shivaram Venkataraman] Merge pull request #15 from shivaram/master
d4468a9 [Shivaram Venkataraman] Remove trailing comma
e2714b8 [Shivaram Venkataraman] Remove Apache Staging repo and update README
334eace [Zongheng Yang] Add a multi-transformation test to benchmark on pipelining.
5650ad7 [Zongheng Yang] Put serialized field inside env for both RDD and PipelinedRDD.
0b9e8bb [Zongheng Yang] First cut at PipelinedRDD.
a4c431e [Zongheng Yang] Add `isCheckpointed` field and checkpoint().
dac0795 [Zongheng Yang] Minor inline comment style fix.
bfb8e26 [Zongheng Yang] Add isCached field (inside an env) and unpersist().
295bff6 [Zongheng Yang] Merge pull request #11 from shivaram/master
4cb209c [Shivaram Venkataraman] Search rLibDir in worker before libPaths This ensures we pick up the SparkR intended and not an older version installed on the same machine
ef198ff [Zongheng Yang] Merge pull request #10 from shivaram/unit-tests
e0557a8 [Shivaram Venkataraman] Update travis to install plyr
8b18bc1 [Shivaram Venkataraman] Merge branch 'master' of github.com:amplab/SparkR-pkg into unit-tests
4a9ca31 [Shivaram Venkataraman] Use smaller broadcast and plyr instead of Matrix Matrix package takes around 2s to load and slows down unit tests.
21c6a61 [Zongheng Yang] Merge pull request #8 from shivaram/master
08c2947 [Shivaram Venkataraman] Move dev install directory to front of libPaths
bda42ee [Shivaram Venkataraman] Merge pull request #7 from JoshRosen/travis
cc5f5c0 [Josh Rosen] Add Travis CI integration (using craigcitro/r-travis)
b6c864b [Shivaram Venkataraman] Merge pull request #6 from concretevitamin/env-style-fix
4fcef22 [Zongheng Yang] Use one style ($) for accessing names in environments.
8a948c6 [Shivaram Venkataraman] Merge pull request #4 from shivaram/master
24978eb [Shivaram Venkataraman] Update README to use install_github
8899db4 [Shivaram Venkataraman] Update TODO.md
91792de [Shivaram Venkataraman] Update Spark requirements
f34f4bf [Shivaram Venkataraman] Check tests for failures and output error msg
cd750d3 [Shivaram Venkataraman] Update run-tests to use new path
1877b7c [Shivaram Venkataraman] Unset R_TESTS to make tests work with R CMD check Also silence Akka remoting logs and update Makefile to build on log4j changes
e60e18a [Shivaram Venkataraman] Update README to remove Spark installation notes
4450189 [Shivaram Venkataraman] Add Spark 0.9 dependency from Apache Staging Also clean up assembly jar from inst on make clean
5eb2131 [Shivaram Venkataraman] Update repo path in README
ec8210e [Shivaram Venkataraman] Remove broadcastId hack as it is public in Spark
9f0e080 [Shivaram Venkataraman] Merge branch 'install-github'
5c88fbd [Shivaram Venkataraman] Add helper script to run tests
77450a1 [Shivaram Venkataraman] Remove dependency on Spark Logging
6cb00d1 [Shivaram Venkataraman] Update README and add helper script install-dev.sh
28346ca [Shivaram Venkataraman] Only normalize if SPARK_HOME is not empty
0fd6571 [Shivaram Venkataraman] Normalize SPARK_HOME before passing it
ff96d5c [Shivaram Venkataraman] Pass in SPARK_HOME and jar file path
34c4dce [Shivaram Venkataraman] Move src into pkg and update Makefile This enables the package to be installed using install_github using devtools and automates the build procedure.
b25afed [Shivaram Venkataraman] Change package name to edu.berkeley.cs.amplab
c691464 [Shivaram Venkataraman] Add Apache 2.0 License file
27a4a4b [Shivaram Venkataraman] Add notes on how to compile roxygen2 docs
ca63844 [Shivaram Venkataraman] Add broadcast documentation Also generate documentation for sample, takeSample etc.
e4dd976 [Shivaram Venkataraman] Update TODO.md
e42d435 [Shivaram Venkataraman] Add support for broadcast variables
6b638e7 [Shivaram Venkataraman] Add the assembly jar to SparkContext
bf24e32 [Shivaram Venkataraman] Merge branch 'master' of github.com:amplab/SparkR-pkg
43c05ce [Zongheng Yang] Fix a flaky/incorrect test for sampleRDD().
c6a9dfc [Zongheng Yang] Initial port of the kmeans example.
6885581 [Zongheng Yang] Implement element-level sampleRDD() and takeSample() with tests.
d3a4987 [Zongheng Yang] Add a test for lapplyPartitionsWithIndex on pairwise RDD.
c7899c1 [Zongheng Yang] Add lapplyPartitionsWithIndex, with a test and an alias function.
a9a7436 [Shivaram Venkataraman] Add DFC example from Tselil, Benjamin and Jonah
fbc5a95 [Zongheng Yang] Implement take() and takeSample().
c4a3409 [Shivaram Venkataraman] Use RDD instead of RRDD
dfad3f5 [Zongheng Yang] Add test_utils.R: a unit test for convertJListToRList().
a45227d [Zongheng Yang] Update .gitignore.
238fe6e [Zongheng Yang] Add a unit test for textFile().
a88898b [Zongheng Yang] Rename test_rrd to test_rrdd
10c8baa [Shivaram Venkataraman] Make SparkR work as a standalone package. Changes include: 1. Adding a new `sbt` project that builds RRDD.scala 2. Change the onLoad functions to load the assembly jar for SparkR 3. Set rLibDir in RRDD.scala and worker.R to load things correctly
78adcd8 [Shivaram Venkataraman] Add a gitignore
ca6108f [Shivaram Venkataraman] Merge branch 'SparkR-scalacode' of ../SparkR
999bd61 [Shivaram Venkataraman] Update collectPartition in R and use ClassTag
c58f63e [Shivaram Venkataraman] Update collectPartition in R and use ClassTag
48265fd [Shivaram Venkataraman] Use new version of collectPartitions in take
d4fe086 [Shivaram Venkataraman] Move collectPartitions to JavaRDDLike Also remove numPartitions in JavaRDD and update R code
bfecd7b [Shivaram Venkataraman] Scala 2.10 changes 1. Update sparkR script 2. Use classTag instead of classManifest
092a4b3 [Shivaram Venkataraman] Add combineByKey, update TODO
ac0d81d [Shivaram Venkataraman] Add more documentation
d1dc3fa [Shivaram Venkataraman] Add more documentation
c515e3a [Shivaram Venkataraman] Update TODO
db56a34 [Shivaram Venkataraman] Add a test case for include package
41cea51 [Shivaram Venkataraman] Ensure all parent environments are serialized. Also add a test case with an inline function
a978e84 [Shivaram Venkataraman] Add support to include packages in the worker
12bf8ce [Shivaram Venkataraman] Add support to include packages in the worker
fb7e72c [Shivaram Venkataraman] Cleanup TODO
16ac314 [Shivaram Venkataraman] Add documentation for functions in context, sparkR
85b1d25 [Shivaram Venkataraman] Set license to Apache
88f1101 [Shivaram Venkataraman] Add unit test running instructions
c40768e [Shivaram Venkataraman] Update TODO
0c7efbf [Shivaram Venkataraman] Refactor RRDD.scala and add comments to functions
5880d42 [Shivaram Venkataraman] Refactor RRDD.scala and add comments to functions
2dee36c [Shivaram Venkataraman] Remove empty test file
a82219b [Shivaram Venkataraman] Update TODOs
5db00dc [Shivaram Venkataraman] Add reduceByKey, groupByKey and refactor shuffle Other changes include 1. Adding unit tests for basic RDD functions and shuffle 2. Add a word count example 3. Change the dependency serialization to handle double loading of SparkR package 4. Allow partitionBy to operate on any RDDs to create pair-wise RDD.
f196479 [Shivaram Venkataraman] Add reduceByKey, groupByKey and refactor shuffle Other changes include 1. Adding unit tests for basic RDD functions and shuffle 2. Add a word count example 3. Change the dependency serialization to handle double loading of SparkR package 4. Allow partitionBy to operate on any RDDs to create pair-wise RDD.
987e36f [Shivaram Venkataraman] Add perf todo
0b03265 [Shivaram Venkataraman] Update TODO with testing, docs todo
685aaad [Zongheng Yang] First cut at refactoring worker.R. Remove pairwiseWorker.R.
95b9ddc [Zongheng Yang] First cut at refactoring worker.R. Remove pairwiseWorker.R.
4f00895 [Zongheng Yang] Remove the unnecessary `pairwise' flag in RRDD class. Reasons:
75d36d9 [Zongheng Yang] Working versions: partitionBy() and collectPartition() for RRDD.
e3fbd9d [Zongheng Yang] Working versions: partitionBy() and collectPartition() for RRDD.
67a4335 [Zongheng Yang] Add unit test for parallelize() and collect() pairwise data.
100ae65 [Zongheng Yang] Properly parallelize() and collect() pairwise data.
cd0a5e2 [Zongheng Yang] Properly parallelize() and collect() pairwise data.
aea16c3 [Zongheng Yang] WIP: second cut at partitionBy. Running into R/Scala communication issues.
45eb943 [Zongheng Yang] WIP: second cut at partitionBy. Running into R/Scala communication issues.
11c893b [Zongheng Yang] WIP: need to figure out the logic of (whether or not) shipping a hash func
82c201a [Zongheng Yang] WIP: need to figure out the logic of (whether or not) shipping a hash func
b3bfad2 [Zongheng Yang] Update TODO: take() done.
0e45293 [Zongheng Yang] Add ability to parallelize key-val collections in R.
f60406a [Zongheng Yang] Add ability to parallelize key-val collections in R.
7d7fe3b [Zongheng Yang] Re-implement take(): take a partition at a time and append.
a054e55 [Zongheng Yang] Fix take() tests(): mode difference.
9de0935 [Zongheng Yang] Implement take() for RRDD.
1e4427e [Zongheng Yang] Implement take() for RRDD.
ec3cd67 [Shivaram Venkataraman] Use temp file in Spark to pipe output
417aaed [Shivaram Venkataraman] Use temp file in Spark to pipe output
bb0a3c3 [Shivaram Venkataraman] Add conf directory to classpath
9594d8a [Shivaram Venkataraman] Clean up LR example
3b26b58 [Shivaram Venkataraman] Add a list of things to do.
cabce68 [Shivaram Venkataraman] Fix warnings from package check
fde3f9c [Shivaram Venkataraman] Flatten by default and disable recursive unlist
ab2e061 [Shivaram Venkataraman] Create LIB_DIR before installing SparkR package
555220a [Shivaram Venkataraman] Add readme and update Makefile
1319cda [Shivaram Venkataraman] Make standalone programs run with sparkR
ae19fa8 [Shivaram Venkataraman] Add support for cache and use `tempfile`
4e89ca4 [Shivaram Venkataraman] Add support for apply, reduce, count Also serialize closures using `save` and add two examples
25a0bea [Shivaram Venkataraman] Add support for apply, reduce, count Also serialize closures using `save` and add two examples
f50223f [Zongheng Yang] Make parallelize() and collect() use lists. Add a few more tests for them.
fc7693f [Zongheng Yang] Refactor and enhance the previously added unit test a little bit.
6de9b81 [Zongheng Yang] Add a simple unit test for parallelize().
8b95155 [Zongheng Yang] Add testthat skeleton infrastructure
ef305bf [Zongheng Yang] parallelize() followed by collect() now work for vectors/lists of strings and numerics (should work for other primitives as well).
dc16af4 [Zongheng Yang] Comment: toArray() allocates memory for a copy
f50121e [Zongheng Yang] Make parallelize() return JavaRDD[Array[Byte]]. Add RRDD.scala with a helper function in the singleton object.
46eb063 [Zongheng Yang] Make parallelize() return JavaRDD[Array[Byte]]. Add RRDD.scala with a helper function in the singleton object.
6b4938a [Zongheng Yang] parallelize(): a raw can be parallelized by JavaSparkContext and get back JavaRDD
978aa0f [Zongheng Yang] Add parallelize() skeleton: only return serialized slices now
84c1fd2 [Zongheng Yang] Use .jsimplify() to get around generic List's get() type erasure problem
f16b891 [Zongheng Yang] Convert a few reflectionc alls to .jcall
1284c13 [Zongheng Yang] WIP on collect(): JavaListToRList() failed with errors.
4c2e516 [Zongheng Yang] Add simple prototype of S4 class RRDD. Make TextFile() returns an RRDD.
82aa17a [Zongheng Yang] Add textFile()
83ce63f [Zongheng Yang] Create a JavaSparkContext and save it in .sparkEnv using sparkR.init()
01cdf0e [Zongheng Yang] Add Makefile for SparkR
fc9cae2 [Shivaram Venkataraman] Add skeleton R package
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Author: Cheng Lian <lian@databricks.com>
Closes#5349 from liancheng/py-refresh-table and squashes the following commits:
004bec0 [Cheng Lian] Adds HiveContext.refreshTable to PySpark
Author: Venkata Ramana Gollamudi <ramana.gollamudi@huawei.com>
Closes#5138 from gvramana/sum_fix_codegen and squashes the following commits:
95f5fe4 [Venkata Ramana Gollamudi] rebase merge changes
12f45a5 [Venkata Ramana Gollamudi] Combined and added code generations tests as per comment
d6a76ac [Venkata Ramana Gollamudi] added support for codegeneration for CombineSum and tests
It's after https://github.com/apache/spark/pull/5189
Author: Wenchen Fan <cloud0fan@outlook.com>
Closes#5304 from cloud-fan/tmp and squashes the following commits:
c58c9b3 [Wenchen Fan] remove duplicated code and update comment
Reynold Xin
Xiangrui Meng
Joseph K. Bradley
lewuathe
Daoyuan Wang
cody koeninger
lisurprise
Guancheng (G.C.) Chen
Davies Liu
Patrick Wendell
Michael Malak
Josh Rosen
Wenchen Fan
Yin Huai
Takeshi YAMAMURO
DoingDone9
lazymam500
haiyang
Santiago M. Mola
Liang-Chi Hsieh
Cheng Hao
Marcelo Vanzin
Volodymyr Lyubinets
Michael Armbrust
Milan Straka
June.He
zsxwing
jerryshao
MechCoder
Davies Liu
Yuhao Yang
Yanbo Liang
WangTaoTheTonic
raschild
Peter Parente
Shivaram Venkataraman
Cheng Lian
Venkata Ramana Gollamudi
