<decorator-gen-1557> in king(call_expr, block_size)

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/typecheck/check.py in wrapper(__original_func, *args, **kwargs)
    575     def wrapper(__original_func, *args, **kwargs):
    576         args_, kwargs_ = check_all(__original_func, args, kwargs, checkers, is_method=is_method)
--> 577         return __original_func(*args_, **kwargs_)
    578 
    579     return wrapper

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/methods/relatedness/king.py in king(call_expr, block_size)
    232         is_defined: hl.float(hl.is_defined(call_expr))
    233     })
--> 234     ref = hl.linalg.BlockMatrix.from_entry_expr(mt[is_hom_ref], block_size=block_size)
    235     het = hl.linalg.BlockMatrix.from_entry_expr(mt[is_het], block_size=block_size)
    236     var = hl.linalg.BlockMatrix.from_entry_expr(mt[is_hom_var], block_size=block_size)

<decorator-gen-1451> in from_entry_expr(cls, entry_expr, mean_impute, center, normalize, axis, block_size)

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/typecheck/check.py in wrapper(__original_func, *args, **kwargs)
    575     def wrapper(__original_func, *args, **kwargs):
    576         args_, kwargs_ = check_all(__original_func, args, kwargs, checkers, is_method=is_method)
--> 577         return __original_func(*args_, **kwargs_)
    578 
    579     return wrapper

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/linalg/blockmatrix.py in from_entry_expr(cls, entry_expr, mean_impute, center, normalize, axis, block_size)
    414         path = new_temp_file()
    415         cls.write_from_entry_expr(entry_expr, path, overwrite=False, mean_impute=mean_impute,
--> 416                                   center=center, normalize=normalize, axis=axis, block_size=block_size)
    417         return cls.read(path)
    418 

<decorator-gen-1463> in write_from_entry_expr(entry_expr, path, overwrite, mean_impute, center, normalize, axis, block_size)

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/typecheck/check.py in wrapper(__original_func, *args, **kwargs)
    575     def wrapper(__original_func, *args, **kwargs):
    576         args_, kwargs_ = check_all(__original_func, args, kwargs, checkers, is_method=is_method)
--> 577         return __original_func(*args_, **kwargs_)
    578 
    579     return wrapper

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/linalg/blockmatrix.py in write_from_entry_expr(entry_expr, path, overwrite, mean_impute, center, normalize, axis, block_size)
    719             if entry_expr in mt._fields_inverse:
    720                 field = mt._fields_inverse[entry_expr]
--> 721                 mt.select_entries(field)._write_block_matrix(path, overwrite, field, block_size)
    722             else:
    723                 field = Env.get_uid()

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/matrixtable.py in _write_block_matrix(self, path, overwrite, entry_field, block_size)
   4119              'overwrite': overwrite,
   4120              'entryField': entry_field,
-> 4121              'blockSize': block_size}))
   4122 
   4123     def _calculate_new_partitions(self, n_partitions):

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/backend/py4j_backend.py in execute(self, ir, timed)
     96                 raise HailUserError(message_and_trace) from None
     97 
---> 98             raise e

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/backend/py4j_backend.py in execute(self, ir, timed)
     72         # print(self._hail_package.expr.ir.Pretty.apply(jir, True, -1))
     73         try:
---> 74             result = json.loads(self._jhc.backend().executeJSON(jir))
     75             value = ir.typ._from_json(result['value'])
     76             timings = result['timings']

/usr/lib/spark/python/lib/py4j-0.10.7-src.zip/py4j/java_gateway.py in __call__(self, *args)
   1255         answer = self.gateway_client.send_command(command)
   1256         return_value = get_return_value(
-> 1257             answer, self.gateway_client, self.target_id, self.name)
   1258 
   1259         for temp_arg in temp_args:

/opt/conda/miniconda3/lib/python3.6/site-packages/hail/backend/py4j_backend.py in deco(*args, **kwargs)
     30                 raise FatalError('%s\n\nJava stack trace:\n%s\n'
     31                                  'Hail version: %s\n'
---> 32                                  'Error summary: %s' % (deepest, full, hail.__version__, deepest), error_id) from None
     33         except pyspark.sql.utils.CapturedException as e:
     34             raise FatalError('%s\n\nJava stack trace:\n%s\n'

FatalError: HailException: Cannot create BlockMatrix: filtered entry at row 8491008 and col 406

Java stack trace:
org.apache.spark.SparkException: Job aborted due to stage failure: Task 2073 in stage 14.0 failed 20 times, most recent failure: Lost task 2073.19 in stage 14.0 (TID 426052, my-project.internal, executor 1570): is.hail.utils.HailException: Cannot create BlockMatrix: filtered entry at row 8491008 and col 406
	at is.hail.utils.ErrorHandling$class.fatal(ErrorHandling.scala:11)
	at is.hail.utils.package$.fatal(package.scala:77)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6$$anonfun$apply$27.apply(BlockMatrix.scala:2083)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6$$anonfun$apply$27.apply(BlockMatrix.scala:2045)
	at is.hail.utils.package$.using(package.scala:618)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6.apply(BlockMatrix.scala:2045)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6.apply(BlockMatrix.scala:2044)
	at scala.collection.Iterator$class.foreach(Iterator.scala:891)
	at scala.collection.AbstractIterator.foreach(Iterator.scala:1334)
	at scala.collection.IterableLike$class.foreach(IterableLike.scala:72)
	at scala.collection.AbstractIterable.foreach(Iterable.scala:54)
	at is.hail.linalg.WriteBlocksRDD.compute(BlockMatrix.scala:2044)
	at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:346)
	at org.apache.spark.rdd.RDD.iterator(RDD.scala:310)
	at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90)
	at org.apache.spark.scheduler.Task.run(Task.scala:123)
	at org.apache.spark.executor.Executor$TaskRunner$$anonfun$10.apply(Executor.scala:408)
	at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1360)
	at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:414)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
	at java.util.concurrent.ThreadPoolExecutor$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$$failJobAndIndependentStages(DAGScheduler.scala:1892)
	at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1880)
	at org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1879)
	at scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
	at scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:48)
	at org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1879)
	at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:927)
	at org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:927)
	at scala.Option.foreach(Option.scala:257)
	at org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:927)
	at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:2113)
	at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2062)
	at org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:2051)
	at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:49)
	at org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:738)
	at org.apache.spark.SparkContext.runJob(SparkContext.scala:2061)
	at org.apache.spark.SparkContext.runJob(SparkContext.scala:2082)
	at org.apache.spark.SparkContext.runJob(SparkContext.scala:2101)
	at org.apache.spark.SparkContext.runJob(SparkContext.scala:2126)
	at org.apache.spark.rdd.RDD$$anonfun$collect$1.apply(RDD.scala:990)
	at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151)
	at org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:112)
	at org.apache.spark.rdd.RDD.withScope(RDD.scala:385)
	at org.apache.spark.rdd.RDD.collect(RDD.scala:989)
	at is.hail.expr.ir.functions.MatrixWriteBlockMatrix.execute(MatrixWriteBlockMatrix.scala:47)
	at is.hail.expr.ir.functions.WrappedMatrixToValueFunction.execute(RelationalFunctions.scala:88)
	at is.hail.expr.ir.Interpret$.run(Interpret.scala:831)
	at is.hail.expr.ir.Interpret$.alreadyLowered(Interpret.scala:53)
	at is.hail.expr.ir.InterpretNonCompilable$.interpretAndCoerce$1(InterpretNonCompilable.scala:16)
	at is.hail.expr.ir.InterpretNonCompilable$.is$hail$expr$ir$InterpretNonCompilable$$rewrite$1(InterpretNonCompilable.scala:53)
	at is.hail.expr.ir.InterpretNonCompilable$.apply(InterpretNonCompilable.scala:58)
	at is.hail.expr.ir.lowering.InterpretNonCompilablePass$.transform(LoweringPass.scala:67)
	at is.hail.expr.ir.lowering.LoweringPass$$anonfun$apply$3$$anonfun$1.apply(LoweringPass.scala:15)
	at is.hail.expr.ir.lowering.LoweringPass$$anonfun$apply$3$$anonfun$1.apply(LoweringPass.scala:15)
	at is.hail.utils.ExecutionTimer.time(ExecutionTimer.scala:81)
	at is.hail.expr.ir.lowering.LoweringPass$$anonfun$apply$3.apply(LoweringPass.scala:15)
	at is.hail.expr.ir.lowering.LoweringPass$$anonfun$apply$3.apply(LoweringPass.scala:13)
	at is.hail.utils.ExecutionTimer.time(ExecutionTimer.scala:81)
	at is.hail.expr.ir.lowering.LoweringPass$class.apply(LoweringPass.scala:13)
	at is.hail.expr.ir.lowering.InterpretNonCompilablePass$.apply(LoweringPass.scala:62)
	at is.hail.expr.ir.lowering.LoweringPipeline$$anonfun$apply$1.apply(LoweringPipeline.scala:14)
	at is.hail.expr.ir.lowering.LoweringPipeline$$anonfun$apply$1.apply(LoweringPipeline.scala:12)
	at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33)
	at scala.collection.mutable.WrappedArray.foreach(WrappedArray.scala:35)
	at is.hail.expr.ir.lowering.LoweringPipeline.apply(LoweringPipeline.scala:12)
	at is.hail.expr.ir.CompileAndEvaluate$._apply(CompileAndEvaluate.scala:28)
	at is.hail.backend.spark.SparkBackend.is$hail$backend$spark$SparkBackend$$_execute(SparkBackend.scala:360)
	at is.hail.backend.spark.SparkBackend$$anonfun$execute$1.apply(SparkBackend.scala:344)
	at is.hail.backend.spark.SparkBackend$$anonfun$execute$1.apply(SparkBackend.scala:341)
	at is.hail.expr.ir.ExecuteContext$$anonfun$scoped$1.apply(ExecuteContext.scala:25)
	at is.hail.expr.ir.ExecuteContext$$anonfun$scoped$1.apply(ExecuteContext.scala:23)
	at is.hail.utils.package$.using(package.scala:618)
	at is.hail.annotations.RegionPool$.scoped(RegionPool.scala:13)
	at is.hail.expr.ir.ExecuteContext$.scoped(ExecuteContext.scala:23)
	at is.hail.backend.spark.SparkBackend.withExecuteContext(SparkBackend.scala:254)
	at is.hail.backend.spark.SparkBackend.execute(SparkBackend.scala:341)
	at is.hail.backend.spark.SparkBackend$$anonfun$7.apply(SparkBackend.scala:385)
	at is.hail.backend.spark.SparkBackend$$anonfun$7.apply(SparkBackend.scala:383)
	at is.hail.utils.ExecutionTimer$.time(ExecutionTimer.scala:52)
	at is.hail.backend.spark.SparkBackend.executeJSON(SparkBackend.scala:383)
	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:282)
	at py4j.commands.AbstractCommand.invokeMethod(AbstractCommand.java:132)
	at py4j.commands.CallCommand.execute(CallCommand.java:79)
	at py4j.GatewayConnection.run(GatewayConnection.java:238)
	at java.lang.Thread.run(Thread.java:748)

is.hail.utils.HailException: Cannot create BlockMatrix: filtered entry at row 8491008 and col 406
	at is.hail.utils.ErrorHandling$class.fatal(ErrorHandling.scala:11)
	at is.hail.utils.package$.fatal(package.scala:77)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6$$anonfun$apply$27.apply(BlockMatrix.scala:2083)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6$$anonfun$apply$27.apply(BlockMatrix.scala:2045)
	at is.hail.utils.package$.using(package.scala:618)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6.apply(BlockMatrix.scala:2045)
	at is.hail.linalg.WriteBlocksRDD$$anonfun$compute$6.apply(BlockMatrix.scala:2044)
	at scala.collection.Iterator$class.foreach(Iterator.scala:891)
	at scala.collection.AbstractIterator.foreach(Iterator.scala:1334)
	at scala.collection.IterableLike$class.foreach(IterableLike.scala:72)
	at scala.collection.AbstractIterable.foreach(Iterable.scala:54)
	at is.hail.linalg.WriteBlocksRDD.compute(BlockMatrix.scala:2044)
	at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:346)
	at org.apache.spark.rdd.RDD.iterator(RDD.scala:310)
	at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:90)
	at org.apache.spark.scheduler.Task.run(Task.scala:123)
	at org.apache.spark.executor.Executor$TaskRunner$$anonfun$10.apply(Executor.scala:408)
	at org.apache.spark.util.Utils$.tryWithSafeFinally(Utils.scala:1360)
	at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:414)
	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
	at java.lang.Thread.run(Thread.java:748)


Hail version: 0.2.62-84fa81b9ea3d
Error summary: HailException: Cannot create BlockMatrix: filtered entry at row 8491008 and col 406