spark-instrumented-optimizer/python/pyspark
Mike Dusenberry 607f50341c [SPARK-9656][MLLIB][PYTHON] Add missing methods to PySpark's Distributed Linear Algebra Classes
This PR adds the remaining group of methods to PySpark's distributed linear algebra classes as follows:

* `RowMatrix` <sup>**[1]**</sup>
  1. `computeGramianMatrix`
  2. `computeCovariance`
  3. `computeColumnSummaryStatistics`
  4. `columnSimilarities`
  5. `tallSkinnyQR` <sup>**[2]**</sup>
* `IndexedRowMatrix` <sup>**[3]**</sup>
  1. `computeGramianMatrix`
* `CoordinateMatrix`
  1. `transpose`
* `BlockMatrix`
  1. `validate`
  2. `cache`
  3. `persist`
  4. `transpose`

**[1]**: Note: `multiply`, `computeSVD`, and `computePrincipalComponents` are already part of PR #7963 for SPARK-6227.
**[2]**: Implementing `tallSkinnyQR` uncovered a bug with our PySpark `RowMatrix` constructor.  As discussed on the dev list [here](http://apache-spark-developers-list.1001551.n3.nabble.com/K-Means-And-Class-Tags-td10038.html), there appears to be an issue with type erasure with RDDs coming from Java, and by extension from PySpark.  Although we are attempting to construct a `RowMatrix` from an `RDD[Vector]` in [PythonMLlibAPI](https://github.com/apache/spark/blob/master/mllib/src/main/scala/org/apache/spark/mllib/api/python/PythonMLLibAPI.scala#L1115), the `Vector` type is erased, resulting in an `RDD[Object]`.  Thus, when calling Scala's `tallSkinnyQR` from PySpark, we get a Java `ClassCastException` in which an `Object` cannot be cast to a Spark `Vector`.  As noted in the aforementioned dev list thread, this issue was also encountered with `DecisionTrees`, and the fix involved an explicit `retag` of the RDD with a `Vector` type.  Thus, this PR currently contains that fix applied to the `createRowMatrix` helper function in `PythonMLlibAPI`.  `IndexedRowMatrix` and `CoordinateMatrix` do not appear to have this issue likely due to their related helper functions in `PythonMLlibAPI` creating the RDDs explicitly from DataFrames with pattern matching, thus preserving the types.  However, this fix may be out of scope for this single PR, and it may be better suited in a separate JIRA/PR.  Therefore, I have marked this PR as WIP and am open to discussion.
**[3]**: Note: `multiply` and `computeSVD` are already part of PR #7963 for SPARK-6227.

Author: Mike Dusenberry <mwdusenb@us.ibm.com>

Closes #9441 from dusenberrymw/SPARK-9656_Add_Missing_Methods_to_PySpark_Distributed_Linear_Algebra.
2016-04-27 19:48:05 +02:00
..
ml [SPARK-14732][ML] spark.ml GaussianMixture should use MultivariateGaussian in mllib-local 2016-04-26 16:53:16 -07:00
mllib [SPARK-9656][MLLIB][PYTHON] Add missing methods to PySpark's Distributed Linear Algebra Classes 2016-04-27 19:48:05 +02:00
sql [SPARK-14721][SQL] Remove HiveContext (part 2) 2016-04-25 13:23:05 -07:00
streaming [SPARK-13579][BUILD] Stop building the main Spark assembly. 2016-04-04 16:52:22 -07:00
__init__.py [SPARK-14555] First cut of Python API for Structured Streaming 2016-04-20 10:32:01 -07:00
accumulators.py [SPARK-8652] [PYSPARK] Check return value for all uses of doctest.testmod() 2015-06-26 08:12:22 -07:00
broadcast.py [SPARK-14418][PYSPARK] fix unpersist of Broadcast in Python 2016-04-06 10:46:34 -07:00
cloudpickle.py [SPARK-13697] [PYSPARK] Fix the missing module name of TransformFunctionSerializer.loads 2016-03-06 08:57:01 -08:00
conf.py [SPARK-4897] [PySpark] Python 3 support 2015-04-16 16:20:57 -07:00
context.py [SPARK-13687][PYTHON] Cleanup PySpark parallelize temporary files 2016-04-10 02:34:54 +01:00
daemon.py [SPARK-4897] [PySpark] Python 3 support 2015-04-16 16:20:57 -07:00
files.py [SPARK-3309] [PySpark] Put all public API in __all__ 2014-09-03 11:49:45 -07:00
heapq3.py [SPARK-8652] [PYSPARK] Check return value for all uses of doctest.testmod() 2015-06-26 08:12:22 -07:00
java_gateway.py [SPARK-9700] Pick default page size more intelligently. 2015-08-06 23:18:29 -07:00
join.py [SPARK-14202] [PYTHON] Use generator expression instead of list comp in python_full_outer_jo… 2016-03-28 14:51:36 -07:00
profiler.py [SPARK-8652] [PYSPARK] Check return value for all uses of doctest.testmod() 2015-06-26 08:12:22 -07:00
rdd.py [SPARK-14368][PYSPARK] Support python.spark.worker.memory with upper-case unit. 2016-04-05 12:19:20 +09:00
rddsampler.py [SPARK-4897] [PySpark] Python 3 support 2015-04-16 16:20:57 -07:00
resultiterable.py [SPARK-3074] [PySpark] support groupByKey() with single huge key 2015-04-09 17:07:23 -07:00
serializers.py [SPARK-10542] [PYSPARK] fix serialize namedtuple 2015-09-14 19:46:34 -07:00
shell.py [SPARK-12993][PYSPARK] Remove usage of ADD_FILES in pyspark 2016-01-26 14:58:39 -08:00
shuffle.py [SPARK-10710] Remove ability to disable spilling in core and SQL 2015-09-19 21:40:21 -07:00
statcounter.py [SPARK-6919] [PYSPARK] Add asDict method to StatCounter 2015-09-29 13:38:15 -07:00
status.py [SPARK-4172] [PySpark] Progress API in Python 2015-02-17 13:36:43 -08:00
storagelevel.py [SPARK-13992][CORE][PYSPARK][FOLLOWUP] Update OFF_HEAP semantics for Java api and Python api 2016-04-12 23:06:55 -07:00
tests.py [SPARK-13687][PYTHON] Cleanup PySpark parallelize temporary files 2016-04-10 02:34:54 +01:00
traceback_utils.py [SPARK-1087] Move python traceback utilities into new traceback_utils.py file. 2014-09-15 19:28:17 -07:00
worker.py [SPARK-14267] [SQL] [PYSPARK] execute multiple Python UDFs within single batch 2016-03-31 16:40:20 -07:00