damccorm opened a new issue, #19644:
URL: https://github.com/apache/beam/issues/19644
I read the TFRecord files which is in HDFS will meet error.
* The single TFRecord file is larger than 3GB.
* The total size larger than 1TB.
* Using Beam 2.13.0 **** Flinkrunner 2.13.0 **** Java 1.8, I also test
2.11.0/2.12.0 with same problem
The dependency jar (in build.gradle):
```
dependencies
{ // This dependency is found on compile classpath of this component and
consumers.
//implementation 'com.google.guava:guava:27.0.1-jre' compile
'org.apache.beam:beam-sdks-java-core:2.13.0'
compile 'org.apache.beam:beam-vendor-guava-20_0:0.1' compile
'org.tensorflow:tensorflow-hadoop:1.13.1'
compile 'org.apache.beam:beam-runners-direct-java:2.13.0' //implementation
"org.apache.beam:beam-sdks-java-core:2.13.0"
compile "org.apache.beam:beam-runners-flink_2.11:2.13.0" compile
"org.apache.beam:beam-sdks-java-io-hadoop-file-system:2.13.0"
compile "org.apache.hadoop:hadoop-common:2.7.3" compile
"org.apache.hadoop:hadoop-client:2.7.3" compile
"org.apache.hadoop:hadoop-mapreduce-client-core:2.7.3" compile
"org.tensorflow:proto:1.13.1" compile
"org.apache.beam:beam-sdks-java-extensions-sketching:2.13.0" // Use JUnit
test framework testImplementation
'junit:junit:4.12' }
```
The error msg:
```
------------------------------------------------------------
The program finished with the following
exception:
org.apache.flink.client.program.ProgramInvocationException: The main method
caused an
error.
at
org.apache.flink.client.program.PackagedProgram.callMainMethod(PackagedProgram.java:546)
at
org.apache.flink.client.program.PackagedProgram.invokeInteractiveModeForExecution(PackagedProgram.java:421)
at
org.apache.flink.client.program.ClusterClient.run(ClusterClient.java:427)
at
org.apache.flink.client.cli.CliFrontend.executeProgram(CliFrontend.java:813)
at
org.apache.flink.client.cli.CliFrontend.runProgram(CliFrontend.java:287)
at org.apache.flink.client.cli.CliFrontend.run(CliFrontend.java:213)
at
org.apache.flink.client.cli.CliFrontend.parseParameters(CliFrontend.java:1050)
at
org.apache.flink.client.cli.CliFrontend.lambda$main$11(CliFrontend.java:1126)
at
java.security.AccessController.doPrivileged(Native Method)
at javax.security.auth.Subject.doAs(Subject.java:422)
at
org.apache.hadoop.security.UserGroupInformation.doAs(UserGroupInformation.java:1692)
at
org.apache.flink.runtime.security.HadoopSecurityContext.runSecured(HadoopSecurityContext.java:41)
at
org.apache.flink.client.cli.CliFrontend.main(CliFrontend.java:1126)
Caused by: java.lang.RuntimeException:
Pipeline execution failed
at org.apache.beam.runners.flink.FlinkRunner.run(FlinkRunner.java:116)
at
org.apache.beam.sdk.Pipeline.run(Pipeline.java:313)
at org.apache.beam.sdk.Pipeline.run(Pipeline.java:299)
at
avazu.data.transform.App.testTfrecordQIYU(App.java:572)
at avazu.data.transform.App.main(App.java:744)
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
org.apache.flink.client.program.PackagedProgram.callMainMethod(PackagedProgram.java:529)
... 12 more
Caused
by: org.apache.flink.client.program.ProgramInvocationException: Job failed.
(JobID: fe4ce5375efbbb55e56967e4c7a975b2)
at
org.apache.flink.client.program.rest.RestClusterClient.submitJob(RestClusterClient.java:268)
at org.apache.flink.client.program.ClusterClient.run(ClusterClient.java:487)
at
org.apache.flink.client.program.ClusterClient.run(ClusterClient.java:475)
at
org.apache.flink.client.program.ContextEnvironment.execute(ContextEnvironment.java:62)
at
org.apache.beam.runners.flink.FlinkPipelineExecutionEnvironment.executePipeline(FlinkPipelineExecutionEnvironment.java:139)
at
org.apache.beam.runners.flink.FlinkRunner.run(FlinkRunner.java:113)
... 21 more
Caused by: org.apache.flink.runtime.client.JobExecutionException:
Job execution failed.
at
org.apache.flink.runtime.jobmaster.JobResult.toJobExecutionResult(JobResult.java:146)
at
org.apache.flink.client.program.rest.RestClusterClient.submitJob(RestClusterClient.java:265)
... 26
more
Caused by: java.io.IOException: Mismatch of length mask when reading a
record. Expected 808268081
but received 1769712859.
at org.apache.beam.sdk.io.TFRecordIO$TFRecordCodec.read(TFRecordIO.java:651)
at
org.apache.beam.sdk.io.TFRecordIO$TFRecordSource$TFRecordReader.readNextRecord(TFRecordIO.java:530)
at
org.apache.beam.sdk.io.CompressedSource$CompressedReader.readNextRecord(CompressedSource.java:431)
at
org.apache.beam.sdk.io.FileBasedSource$FileBasedReader.advanceImpl(FileBasedSource.java:484)
at
org.apache.beam.sdk.io.FileBasedSource$FileBasedReader.startImpl(FileBasedSource.java:479)
at
org.apache.beam.sdk.io.OffsetBasedSource$OffsetBasedReader.start(OffsetBasedSource.java:249)
at
org.apache.beam.runners.flink.metrics.ReaderInvocationUtil.invokeStart(ReaderInvocationUtil.java:51)
at
org.apache.beam.runners.flink.translation.wrappers.SourceInputFormat.open(SourceInputFormat.java:75)
at
org.apache.beam.runners.flink.translation.wrappers.SourceInputFormat.open(SourceInputFormat.java:42)
at
org.apache.flink.runtime.operators.DataSourceTask.invoke(DataSourceTask.java:170)
at org.apache.flink.runtime.taskmanager.Task.run(Task.java:704)
at
java.lang.Thread.run(Thread.java:745)
```
How to fix?
* I have already fix the bug with the following code.
* I will refine the following code and commit the codes.
```
diff --git
a/sdks/java/core/src/main/java/org/apache/beam/sdk/io/TFRecordIO.java
b/sdks/java/core/src/main/java/org/apache/beam/sdk/io/TFRecordIO.java
index
96a753a..484a7cb 100644
--- a/sdks/java/core/src/main/java/org/apache/beam/sdk/io/TFRecordIO.java
+++
b/sdks/java/core/src/main/java/org/apache/beam/sdk/io/TFRecordIO.java
@@ -631,8 +631,16 @@ public class
TFRecordIO {
int headerBytes = inChannel.read(header);
if (headerBytes <= 0) {
return null;
+ }
else if (headerBytes != HEADER_LEN) {
+ while (header.hasRemaining() && inChannel.read(header) >= 0)
{}
+ if (header.hasRemaining()) {
+ throw new IOException(String.format(
+ "EOF while reading record
of length %d. Read only %d bytes. Input might be truncated. Not a valid
TFRecord. Fewer than 12 bytes.",
+
HEADER_LEN, header.position()));
+ }
+ } else {
+
}
- checkState(headerBytes == HEADER_LEN, "Not
a valid TFRecord. Fewer than 12 bytes.");
header.rewind();
long length = header.getLong();
@@ -655,7
+663,12 @@ public class TFRecordIO {
}
footer.clear();
- inChannel.read(footer);
+ while (footer.hasRemaining()
&& inChannel.read(footer) >= 0) {}
+ if (footer.hasRemaining()) {
+ throw new IOException(String.format(
+
"EOF while reading record of length %d. Read only %d bytes. Input might be
truncated. Footer error.",
+
FOOTER_LEN, footer.position()));
+ }
footer.rewind();
int maskedCrc32OfData = footer.getInt();
```
Imported from Jira
[BEAM-7695](https://issues.apache.org/jira/browse/BEAM-7695). Original Jira may
contain additional context.
Reported by: silenceli.
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