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Posted to jira@arrow.apache.org by "David Li (Jira)" <ji...@apache.org> on 2022/09/07 15:57:00 UTC
[jira] [Commented] (ARROW-17508) [Java] Dataset Failed to update reservation while freeing bytes: JNIEnv was not attached to current thread
[ https://issues.apache.org/jira/browse/ARROW-17508?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=17601375#comment-17601375 ]
David Li commented on ARROW-17508:
----------------------------------
The SO question is just a general "Dataset scanning takes a lot of memory" and is not particularly specific to Java. We just don't expose the configuration knobs. [~westonpace] has been improving this and I think this will continue to improve.
For here: why do we need the NativeMemoryPool? IMO, now that we have C Data, we could just get rid of it. We just need to solve ARROW-16673.
> [Java] Dataset Failed to update reservation while freeing bytes: JNIEnv was not attached to current thread
> ----------------------------------------------------------------------------------------------------------
>
> Key: ARROW-17508
> URL: https://issues.apache.org/jira/browse/ARROW-17508
> Project: Apache Arrow
> Issue Type: Bug
> Components: Java
> Reporter: David Dali Susanibar Arce
> Priority: Major
>
> Using Dataset *NativeMemoryPool.getDefault()* work very well with any size of data input as you see in:
>
> {code:java}
> import org.apache.arrow.dataset.file.FileFormat;
> import org.apache.arrow.dataset.file.FileSystemDatasetFactory;
> import org.apache.arrow.dataset.jni.DirectReservationListener;
> import org.apache.arrow.dataset.jni.NativeMemoryPool;
> import org.apache.arrow.dataset.scanner.ScanOptions;
> import org.apache.arrow.dataset.scanner.ScanTask;
> import org.apache.arrow.dataset.scanner.Scanner;
> import org.apache.arrow.dataset.source.Dataset;
> import org.apache.arrow.memory.BufferAllocator;
> import org.apache.arrow.memory.RootAllocator;
> import org.apache.arrow.vector.VectorSchemaRoot;
> import org.apache.arrow.vector.ipc.ArrowReader;
> import java.io.File;
> import java.util.ArrayList;
> import java.util.List;
> public class ReadingMultipleParquetFiles {
> public static void main(String[] args) {
> //https://d37ci6vzurychx.cloudfront.net/trip-data/yellow_tripdata_2022-01.parquet
> File file = new File("src/main/resources/parquetfiles/yellow_tripdata_2022-01.parquet");
> List<VectorSchemaRoot> schemaRoots = new ArrayList<>();
> try(BufferAllocator allocator = new RootAllocator();
> NativeMemoryPool aDefault = NativeMemoryPool.getDefault();
> FileSystemDatasetFactory fileSystemDatasetFactory = new FileSystemDatasetFactory(
> allocator, aDefault,
> FileFormat.PARQUET, file.toURI().toString());
> Dataset dataset = fileSystemDatasetFactory.finish();
> Scanner scanner = dataset.newScan(new ScanOptions(1000))
> ){
> System.out.println(DirectReservationListener.instance().getCurrentDirectMemReservation());
> for (ScanTask scanTask : scanner.scan()) {
> try(ArrowReader execute = scanTask.execute()){
> while(execute.loadNextBatch()){
> schemaRoots.add(execute.getVectorSchemaRoot());
> }
> }
> }
> } catch (Exception e) {
> e.printStackTrace();
> }
> System.out.println(schemaRoots.size());
> }
> } {code}
>
>
> In case we decided to use NativeMemoryPool.createListenable we are seeing this error message: {color:#FF0000}/Users/runner/work/crossbow/crossbow/arrow/java/dataset/src/main/cpp/jni_util.cc:78: Failed to update reservation while freeing bytes: JNIEnv was not attached to current thread{color}:
> {code:java}
> import org.apache.arrow.dataset.file.FileFormat;
> import org.apache.arrow.dataset.file.FileSystemDatasetFactory;
> import org.apache.arrow.dataset.jni.DirectReservationListener;
> import org.apache.arrow.dataset.jni.NativeMemoryPool;
> import org.apache.arrow.dataset.scanner.ScanOptions;
> import org.apache.arrow.dataset.scanner.ScanTask;
> import org.apache.arrow.dataset.scanner.Scanner;
> import org.apache.arrow.dataset.source.Dataset;
> import org.apache.arrow.memory.BufferAllocator;
> import org.apache.arrow.memory.RootAllocator;
> import org.apache.arrow.vector.VectorSchemaRoot;
> import org.apache.arrow.vector.ipc.ArrowReader;
> import java.io.File;
> import java.util.ArrayList;
> import java.util.List;
> public class ReadingMultipleParquetFiles {
> public static void main(String[] args) {
> //https://d37ci6vzurychx.cloudfront.net/trip-data/yellow_tripdata_2022-01.parquet
> File file = new File("src/main/resources/parquetfiles/yellow_tripdata_2022-01.parquet");
> List<VectorSchemaRoot> schemaRoots = new ArrayList<>();
> try(BufferAllocator allocator = new RootAllocator();
> NativeMemoryPool listenable = NativeMemoryPool.createListenable(
> DirectReservationListener.instance());
> FileSystemDatasetFactory fileSystemDatasetFactory = new FileSystemDatasetFactory(
> allocator, listenable,
> FileFormat.PARQUET, file.toURI().toString());
> Dataset dataset = fileSystemDatasetFactory.finish();
> Scanner scanner = dataset.newScan(new ScanOptions(1000))
> ){
> System.out.println(DirectReservationListener.instance().getCurrentDirectMemReservation());
> for (ScanTask scanTask : scanner.scan()) {
> try(ArrowReader execute = scanTask.execute()){
> while(execute.loadNextBatch()){
> schemaRoots.add(execute.getVectorSchemaRoot());
> }
> }
> }
> } catch (Exception e) {
> e.printStackTrace();
> }
> System.out.println(schemaRoots.size());
> }
> }
> {code}
> Log stack trace:
> {code:java}
> /Users/runner/work/crossbow/crossbow/arrow/java/dataset/src/main/cpp/jni_util.cc:78: Failed to update reservation while freeing bytes: JNIEnv was not attached to current thread
> 0 jnilib-1263766398115565476.tmp 0x000000013f46fc0c _ZN5arrow4util7CerrLogD2Ev + 204
> 1 jnilib-1263766398115565476.tmp 0x000000013f46fb2e _ZN5arrow4util7CerrLogD0Ev + 14
> 2 jnilib-1263766398115565476.tmp 0x000000013f464de2 _ZN5arrow4util8ArrowLogD1Ev + 34
> 3 jnilib-1263766398115565476.tmp 0x000000013e54d96d _ZN5arrow7dataset3jni31ReservationListenableMemoryPool4Impl4FreeEPhx + 237
> 4 jnilib-1263766398115565476.tmp 0x000000013f78c035 _ZN5arrow10PoolBufferD2Ev + 69
> 5 jnilib-1263766398115565476.tmp 0x000000013f78bd0e _ZN5arrow10PoolBufferD0Ev + 14
> 6 jnilib-1263766398115565476.tmp 0x000000013f70e1ce _ZN5arrow9ArrayDataD2Ev + 222
> 7 jnilib-1263766398115565476.tmp 0x000000013f5b8fde _ZN5arrow17SimpleRecordBatchD2Ev + 206
> 8 jnilib-1263766398115565476.tmp 0x000000013e5785b8 _ZNO5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14ThenOnCompleteIZNS_23DefaultIfEmptyGeneratorIS4_EclEvEUt_NS5_17PassthruOnFailureIS9_EEEclERKNS_6ResultIS4_EE + 168
> 9 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 10 jnilib-1263766398115565476.tmp 0x000000013f46b2bd _ZN5arrow18ConcreteFutureImpl22DoMarkFinishedOrFailedENS_11FutureStateE + 189
> 11 jnilib-1263766398115565476.tmp 0x000000013e82dc82 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14DoMarkFinishedENS_6ResultIS4_EE + 290
> 12 jnilib-1263766398115565476.tmp 0x000000013e82d8e8 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE12MarkFinishedENS_6ResultIS4_EE + 88
> 13 jnilib-1263766398115565476.tmp 0x000000013e82e8b0 _ZN5arrow8internal6FnOnceIFvRKNS_10FutureImplEEE6FnImplINS_6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE21WrapResultyOnComplete8CallbackINS_6detail16MarkNextFinishedISD_SD_Lb0ELb0EEEEEE6invokeES4_ + 160
> 14 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 15 jnilib-1263766398115565476.tmp 0x000000013f46b2bd _ZN5arrow18ConcreteFutureImpl22DoMarkFinishedOrFailedENS_11FutureStateE + 189
> 16 jnilib-1263766398115565476.tmp 0x000000013e82dc82 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14DoMarkFinishedENS_6ResultIS4_EE + 290
> 17 jnilib-1263766398115565476.tmp 0x000000013e82d8e8 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE12MarkFinishedENS_6ResultIS4_EE + 88
> 18 jnilib-1263766398115565476.tmp 0x000000013e5c93fe _ZNK5arrow6detail14ContinueFutureclINS_24SerialReadaheadGeneratorINSt3__110shared_ptrINS_11RecordBatchEEEE11ErrCallbackEJRKNS_6StatusEENS_6ResultIS7_EENS_6FutureIS7_EEEENS4_9enable_ifIXaaaantsr3std7is_voidIT1_EE5valuentsr9is_futureISI_EE5valueoontsrT2_8is_emptysr3std7is_sameISI_SA_EE5valueEvE4typeESJ_OT_DpOT0_ + 110
> 19 jnilib-1263766398115565476.tmp 0x000000013e5c9335 _ZNO5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14ThenOnCompleteINS_24SerialReadaheadGeneratorIS4_E8CallbackENS8_11ErrCallbackEEclERKNS_6ResultIS4_EE + 293
> 20 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 21 jnilib-1263766398115565476.tmp 0x000000013f46b2bd _ZN5arrow18ConcreteFutureImpl22DoMarkFinishedOrFailedENS_11FutureStateE + 189
> 22 jnilib-1263766398115565476.tmp 0x000000013e82dc82 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14DoMarkFinishedENS_6ResultIS4_EE + 290
> 23 jnilib-1263766398115565476.tmp 0x000000013e82d8e8 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE12MarkFinishedENS_6ResultIS4_EE + 88
> 24 jnilib-1263766398115565476.tmp 0x000000013e5c7e46 _ZNK5arrow6detail14ContinueFutureclINS_6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE17PassthruOnFailureIZNS_7dataset16SlicingGeneratorclEvEUlRKS7_E_EEJRKNS_6StatusEENS_6ResultIS7_EES8_EENS4_9enable_ifIXaaaantsr3std7is_voidIT1_EE5valuentsr9is_futureISM_EE5valueoontsrT2_8is_emptysr3std7is_sameISM_SG_EE5valueEvE4typeESN_OT_DpOT0_ + 102
> 25 jnilib-1263766398115565476.tmp 0x000000013e5c7d9e _ZNO5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14ThenOnCompleteIZNS_7dataset16SlicingGeneratorclEvEUlRKS4_E_NS5_17PassthruOnFailureISB_EEEclERKNS_6ResultIS4_EE + 222
> 26 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 27 jnilib-1263766398115565476.tmp 0x000000013f46b2bd _ZN5arrow18ConcreteFutureImpl22DoMarkFinishedOrFailedENS_11FutureStateE + 189
> 28 jnilib-1263766398115565476.tmp 0x000000013e82dc82 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE14DoMarkFinishedENS_6ResultIS4_EE + 290
> 29 jnilib-1263766398115565476.tmp 0x000000013e82d8e8 _ZN5arrow6FutureINSt3__110shared_ptrINS_11RecordBatchEEEE12MarkFinishedENS_6ResultIS4_EE + 88
> 30 jnilib-1263766398115565476.tmp 0x000000013e62ad98 _ZN5arrow8internal6FnOnceIFvRKNS_10FutureImplEEE6FnImplINS_6FutureINS0_5EmptyEE21WrapStatusyOnComplete8CallbackIZNS_15MergedGeneratorINSt3__110shared_ptrINS_11RecordBatchEEEE5State14MarkFinalErrorERKNS_6StatusENS8_ISH_EEEUlSM_E_EEE6invokeES4_ + 56
> 31 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 32 jnilib-1263766398115565476.tmp 0x000000013f46b2bd _ZN5arrow18ConcreteFutureImpl22DoMarkFinishedOrFailedENS_11FutureStateE + 189
> 33 jnilib-1263766398115565476.tmp 0x000000013f4bb658 _ZN5arrow6FutureINS_8internal5EmptyEE14DoMarkFinishedENS_6ResultIS2_EE + 152
> 34 jnilib-1263766398115565476.tmp 0x000000013f4afbc1 _ZN5arrow6FutureINS_8internal5EmptyEE12MarkFinishedIS2_vEEvNS_6StatusE + 81
> 35 jnilib-1263766398115565476.tmp 0x000000013e626fda _ZN5arrow15MergedGeneratorINSt3__110shared_ptrINS_11RecordBatchEEEE5State20MarkFinishedAndPurgeEv + 58
> 36 jnilib-1263766398115565476.tmp 0x000000013e62b505 _ZN5arrow15MergedGeneratorINSt3__110shared_ptrINS_11RecordBatchEEEE13OuterCallbackclERKNS_6ResultINS1_8functionIFNS_6FutureIS4_EEvEEEEE + 1173
> 37 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 38 jnilib-1263766398115565476.tmp 0x000000013f46b2bd _ZN5arrow18ConcreteFutureImpl22DoMarkFinishedOrFailedENS_11FutureStateE + 189
> 39 jnilib-1263766398115565476.tmp 0x000000013e6220fa _ZN5arrow6FutureINSt3__18functionIFNS0_INS1_10shared_ptrINS_11RecordBatchEEEEEvEEEE14DoMarkFinishedENS_6ResultIS8_EE + 282
> 40 jnilib-1263766398115565476.tmp 0x000000013e621ef3 _ZN5arrow6FutureINSt3__18functionIFNS0_INS1_10shared_ptrINS_11RecordBatchEEEEEvEEEE12MarkFinishedENS_6ResultIS8_EE + 51
> 41 jnilib-1263766398115565476.tmp 0x000000013e78715b _ZN5arrow8internal6FnOnceIFvRKNS_10FutureImplEEE6FnImplINS_6FutureINSt3__18functionIFNS8_INS9_10shared_ptrINS_11RecordBatchEEEEEvEEEE21WrapResultyOnComplete8CallbackINS_6detail16MarkNextFinishedISH_SH_Lb0ELb0EEEEEE6invokeES4_ + 59
> 42 jnilib-1263766398115565476.tmp 0x000000013f46b486 _ZN5arrow18ConcreteFutureImpl21RunOrScheduleCallbackERKNSt3__110shared_ptrINS_10FutureImplEEEONS3_14CallbackRecordEb + 230
> 43 jnilib-1263766398115565476.tmp 0x000000013f454dcb _ZN5arrow18ConcreteFutureImpl11AddCallbackENS_8internal6FnOnceIFvRKNS_10FutureImplEEEENS_15CallbackOptionsE + 139
> 44 jnilib-1263766398115565476.tmp 0x000000013f454cfd _ZN5arrow10FutureImpl11AddCallbackENS_8internal6FnOnceIFvRKS0_EEENS_15CallbackOptionsE + 29
> 45 jnilib-1263766398115565476.tmp 0x000000013e786f78 _ZN5arrow8internal6FnOnceIFvvEE6FnImplINSt3__16__bindINS_6detail14ContinueFutureEJRNS_6FutureINS5_8functionIFNS9_INS5_10shared_ptrINS_11RecordBatchEEEEEvEEEEERFSH_PNS0_8ExecutorENSB_IN7parquet5arrow12_GLOBAL__N_114FileReaderImplEEEiRKNS5_6vectorIiNS5_9allocatorIiEEEEERSK_RSP_RKiSV_EEEE6invokeEv + 184
> 46 jnilib-1263766398115565476.tmp 0x000000013f453445 _ZNSt3__1L14__thread_proxyINS_5tupleIJNS_10unique_ptrINS_15__thread_structENS_14default_deleteIS3_EEEEZN5arrow8internal10ThreadPool21LaunchWorkersUnlockedEiE3$_3EEEEEPvSC_ + 693
> 47 libsystem_pthread.dylib 0x00007fff2072f8fc _pthread_start + 224
> 48 libsystem_pthread.dylib 0x00007fff2072b443 thread_start + 15Process finished with exit code 134 (interrupted by signal 6: SIGABRT) {code}
>
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