PySpark: Converting features to Labeled point for SVMwithSGD - pyspark

Question

I have a df like this -
+-----+--------------------+
|label| features|
+-----+--------------------+
| 1|(262144,[6693,118...|
| 0|(262144,[25607,25...|
| 0|(262144,[13652,21...|
| 0|(262144,[33751,59...|
| 0|(262144,[10675,39...|
| 0|(262144,[88597,14...|
| 0|(262144,[75042,11...|
| 0|(262144,[4009,240...|
+-----+--------------------+
I want to train it with using SVMwithSGD. I tried to train using the above df but got this error -
Traceback (most recent call last):
File "SVMwithSVDcode.py", line 76, in <module>
svm = SVMWithSGD.train(df)
File "/usr/local/lib/python2.7/dist-packages/pyspark/mllib/classification.py", line 553, in train
return _regression_train_wrapper(train, SVMModel, data, initialWeights)
File "/usr/local/lib/python2.7/dist-packages/pyspark/mllib/regression.py", line 210, in _regression_train_wrapper
raise TypeError("data should be an RDD of LabeledPoint, but got %s" % type(first))
TypeError: data should be an RDD of LabeledPoint, but got <class 'pyspark.sql.types.Row'>
According to Spark documentation https://spark.apache.org/docs/2.2.0/mllib-linear-methods.html#linear-support-vector-machines-svms SVM requires df in form of Labeled point.
So, I tried like this -
labeled_point_df = df.rdd.map(lambda row: LabeledPoint(row.label, row.features)))
svm = SVMwithSVG(labeled_point_df)
But after using above code I got following error -
18/02/21 10:38:40 ERROR Executor: Exception in task 0.0 in stage 6.0 (TID 6)
org.apache.spark.api.python.PythonException: Traceback (most recent call last):
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 177, in main
process()
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 172, in process
serializer.dump_stream(func(split_index, iterator), outfile)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/serializers.py", line 268, in dump_stream
vs = list(itertools.islice(iterator, batch))
File "/usr/local/lib/python2.7/dist-packages/pyspark/rdd.py", line 1339, in takeUpToNumLeft
yield next(iterator)
File "SVMwithSVDcode.py", line 75, in <lambda>
labeled_point = df.rdd.map(lambda row: LabeledPoint(row.label, row.features)))
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/regression.py", line 54, in __init__
self.features = _convert_to_vector(features)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/linalg/__init__.py", line 83, in _convert_to_vector
raise TypeError("Cannot convert type %s into Vector" % type(l))
TypeError: Cannot convert type <class 'pyspark.ml.linalg.SparseVector'> into Vector
at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:193)
at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:108)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
18/02/21 10:38:40 WARN TaskSetManager: Lost task 0.0 in stage 6.0 (TID 6, localhost, executor driver): org.apache.spark.api.python.PythonException: Traceback (most recent call last):
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 177, in main
process()
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 172, in process
serializer.dump_stream(func(split_index, iterator), outfile)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/serializers.py", line 268, in dump_stream
vs = list(itertools.islice(iterator, batch))
File "/usr/local/lib/python2.7/dist-packages/pyspark/rdd.py", line 1339, in takeUpToNumLeft
yield next(iterator)
File "SVMwithSVDcode.py", line 75, in <lambda>
labeled_point = df.rdd.map(lambda row: LabeledPoint(row.label, row.features)))
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/regression.py", line 54, in __init__
self.features = _convert_to_vector(features)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/linalg/__init__.py", line 83, in _convert_to_vector
raise TypeError("Cannot convert type %s into Vector" % type(l))
TypeError: Cannot convert type <class 'pyspark.ml.linalg.SparseVector'> into Vector
at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:193)
at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:108)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
18/02/21 10:38:40 ERROR TaskSetManager: Task 0 in stage 6.0 failed 1 times; aborting job
Traceback (most recent call last):
File "SVMwithSVDcode.py", line 76, in <module>
svm = SVMWithSGD.train(labeled_point)
File "/usr/local/lib/python2.7/dist-packages/pyspark/mllib/classification.py", line 553, in train
return _regression_train_wrapper(train, SVMModel, data, initialWeights)
File "/usr/local/lib/python2.7/dist-packages/pyspark/mllib/regression.py", line 208, in _regression_train_wrapper
first = data.first()
File "/usr/local/lib/python2.7/dist-packages/pyspark/rdd.py", line 1361, in first
rs = self.take(1)
File "/usr/local/lib/python2.7/dist-packages/pyspark/rdd.py", line 1343, in take
res = self.context.runJob(self, takeUpToNumLeft, p)
File "/usr/local/lib/python2.7/dist-packages/pyspark/context.py", line 992, in runJob
port = self._jvm.PythonRDD.runJob(self._jsc.sc(), mappedRDD._jrdd, partitions)
File "/usr/local/lib/python2.7/dist-packages/py4j/java_gateway.py", line 1133, in __call__
answer, self.gateway_client, self.target_id, self.name)
File "/usr/local/lib/python2.7/dist-packages/pyspark/sql/utils.py", line 63, in deco
return f(*a, **kw)
File "/usr/local/lib/python2.7/dist-packages/py4j/protocol.py", line 319, in get_return_value
format(target_id, ".", name), value)
py4j.protocol.Py4JJavaError: An error occurred while calling z:org.apache.spark.api.python.PythonRDD.runJob.
: org.apache.spark.SparkException: Job aborted due to stage failure: Task 0 in stage 6.0 failed 1 times, most recent failure: Lost task 0.0 in stage 6.0 (TID 6, localhost, executor driver): org.apache.spark.api.python.PythonException: Traceback (most recent call last):
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 177, in main
process()
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 172, in process
serializer.dump_stream(func(split_index, iterator), outfile)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/serializers.py", line 268, in dump_stream
vs = list(itertools.islice(iterator, batch))
File "/usr/local/lib/python2.7/dist-packages/pyspark/rdd.py", line 1339, in takeUpToNumLeft
yield next(iterator)
File "SVMwithSVDcode.py", line 75, in <lambda>
labeled_point = (selected.select(col("toxic"), col("features")).rdd.map(lambda row: LabeledPoint(row.toxic, row.features)))
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/regression.py", line 54, in __init__
self.features = _convert_to_vector(features)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/linalg/__init__.py", line 83, in _convert_to_vector
raise TypeError("Cannot convert type %s into Vector" % type(l))
TypeError: Cannot convert type <class 'pyspark.ml.linalg.SparseVector'> into Vector
at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:193)
at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:108)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Driver stacktrace:
at org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1499)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1487)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1486)
at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1486)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:814)
at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:814)
at scala.Option.foreach(Option.scala:257)
at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:814)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1714)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1669)
at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1658)
at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48)
at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:630)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2022)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2043)
at org.apache.spark.SparkContext.runJob(SparkContext.scala:2062)
at org.apache.spark.api.python.PythonRDD$.runJob(PythonRDD.scala:446)
at org.apache.spark.api.python.PythonRDD.runJob(PythonRDD.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at py4j.reflection.MethodInvoker.invoke(MethodInvoker.java:244)
at py4j.reflection.ReflectionEngine.invoke(ReflectionEngine.java:357)
at py4j.Gateway.invoke(Gateway.java:280)
at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
at py4j.commands.CallCommand.execute(CallCommand.java:79)
at py4j.GatewayConnection.run(GatewayConnection.java:214)
at java.lang.Thread.run(Thread.java:748)
Caused by: org.apache.spark.api.python.PythonException: Traceback (most recent call last):
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 177, in main
process()
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/worker.py", line 172, in process
serializer.dump_stream(func(split_index, iterator), outfile)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/serializers.py", line 268, in dump_stream
vs = list(itertools.islice(iterator, batch))
File "/usr/local/lib/python2.7/dist-packages/pyspark/rdd.py", line 1339, in takeUpToNumLeft
yield next(iterator)
File "SVMwithSVDcode.py", line 75, in <lambda>
labeled_point = df.rdd.map(lambda row: LabeledPoint(row.label, row.features)))
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/regression.py", line 54, in __init__
self.features = _convert_to_vector(features)
File "/usr/local/lib/python2.7/dist-packages/pyspark/python/lib/pyspark.zip/pyspark/mllib/linalg/__init__.py", line 83, in _convert_to_vector
raise TypeError("Cannot convert type %s into Vector" % type(l))
TypeError: Cannot convert type <class 'pyspark.ml.linalg.SparseVector'> into Vector
at org.apache.spark.api.python.PythonRunner$$anon$1.read(PythonRDD.scala:193)
at org.apache.spark.api.python.PythonRunner$$anon$1.<init>(PythonRDD.scala:234)
at org.apache.spark.api.python.PythonRunner.compute(PythonRDD.scala:152)
at org.apache.spark.api.python.PythonRDD.compute(PythonRDD.scala:63)
at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:323)
at org.apache.spark.rdd.RDD.iterator(RDD.scala:287)
at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
at org.apache.spark.scheduler.Task.run(Task.scala:108)
at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:335)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
... 1 more
How to solve this error?