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HBASE-26210 HBase Write should be doomed to hang when cell size exceeds InmemoryFlushSize for CompactingMemStore (#3604) 

Signed-off-by: Duo Zhang <zhangduo@apache.org>
This commit is contained in:
chenglei 2021-09-01 15:50:51 +08:00 committed by Duo Zhang
parent 51233c3c9b
commit dbf43dcfbd
4 changed files with 304 additions and 65 deletions
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94
hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/CompactingMemStore.java
View File

@ -208,7 +208,7 @@ public class CompactingMemStore extends AbstractMemStore {
stopCompaction();
// region level lock ensures pushing active to pipeline is done in isolation
// no concurrent update operations trying to flush the active segment
pushActiveToPipeline(getActive());
pushActiveToPipeline(getActive(), true);
resetTimeOfOldestEdit();
snapshotId = EnvironmentEdgeManager.currentTime();
// in both cases whatever is pushed to snapshot is cleared from the pipeline
@ -413,33 +413,61 @@ public class CompactingMemStore extends AbstractMemStore {
}
/**
* Check whether anything need to be done based on the current active set size.
* The method is invoked upon every addition to the active set.
* For CompactingMemStore, flush the active set to the read-only memory if it's
* size is above threshold
* Check whether anything need to be done based on the current active set size. The method is
* invoked upon every addition to the active set. For CompactingMemStore, flush the active set to
* the read-only memory if it's size is above threshold
* @param currActive intended segment to update
* @param cellToAdd cell to be added to the segment
* @param memstoreSizing object to accumulate changed size
* @return true if the cell can be added to the
* @return true if the cell can be added to the currActive
*/
private boolean checkAndAddToActiveSize(MutableSegment currActive, Cell cellToAdd,
protected boolean checkAndAddToActiveSize(MutableSegment currActive, Cell cellToAdd,
MemStoreSizing memstoreSizing) {
if (shouldFlushInMemory(currActive, cellToAdd, memstoreSizing)) {
if (currActive.setInMemoryFlushed()) {
flushInMemory(currActive);
if (setInMemoryCompactionFlag()) {
// The thread is dispatched to do in-memory compaction in the background
InMemoryCompactionRunnable runnable = new InMemoryCompactionRunnable();
if (LOG.isTraceEnabled()) {
LOG.trace("Dispatching the MemStore in-memory flush for store " + store
.getColumnFamilyName());
}
getPool().execute(runnable);
}
long cellSize = MutableSegment.getCellLength(cellToAdd);
boolean successAdd = false;
while (true) {
long segmentDataSize = currActive.getDataSize();
if (!inWalReplay && segmentDataSize > inmemoryFlushSize) {
// when replaying edits from WAL there is no need in in-memory flush regardless the size
// otherwise size below flush threshold try to update atomically
break;
}
if (currActive.compareAndSetDataSize(segmentDataSize, segmentDataSize + cellSize)) {
if (memstoreSizing != null) {
memstoreSizing.incMemStoreSize(cellSize, 0, 0, 0);
}
successAdd = true;
break;
}
}
if (!inWalReplay && currActive.getDataSize() > inmemoryFlushSize) {
// size above flush threshold so we flush in memory
this.tryFlushInMemoryAndCompactingAsync(currActive);
}
return successAdd;
}
/**
* Try to flush the currActive in memory and submit the background
* {@link InMemoryCompactionRunnable} to
* {@link RegionServicesForStores#getInMemoryCompactionPool()}. Just one thread can do the actual
* flushing in memory.
* @param currActive current Active Segment to be flush in memory.
*/
private void tryFlushInMemoryAndCompactingAsync(MutableSegment currActive) {
if (currActive.setInMemoryFlushed()) {
flushInMemory(currActive);
if (setInMemoryCompactionFlag()) {
// The thread is dispatched to do in-memory compaction in the background
InMemoryCompactionRunnable runnable = new InMemoryCompactionRunnable();
if (LOG.isTraceEnabled()) {
LOG.trace(
"Dispatching the MemStore in-memory flush for store " + store.getColumnFamilyName());
}
getPool().execute(runnable);
}
return false;
}
return true;
}
// externally visible only for tests
@ -497,26 +525,6 @@ public class CompactingMemStore extends AbstractMemStore {
return getRegionServices().getInMemoryCompactionPool();
}
protected boolean shouldFlushInMemory(MutableSegment currActive, Cell cellToAdd,
MemStoreSizing memstoreSizing) {
long cellSize = MutableSegment.getCellLength(cellToAdd);
long segmentDataSize = currActive.getDataSize();
while (segmentDataSize + cellSize < inmemoryFlushSize || inWalReplay) {
// when replaying edits from WAL there is no need in in-memory flush regardless the size
// otherwise size below flush threshold try to update atomically
if (currActive.compareAndSetDataSize(segmentDataSize, segmentDataSize + cellSize)) {
if (memstoreSizing != null) {
memstoreSizing.incMemStoreSize(cellSize, 0, 0, 0);
}
// enough space for cell - no need to flush
return false;
}
segmentDataSize = currActive.getDataSize();
}
// size above flush threshold
return true;
}
/**
* The request to cancel the compaction asynchronous task (caused by in-memory flush)
* The compaction may still happen if the request was sent too late
@ -528,10 +536,6 @@ public class CompactingMemStore extends AbstractMemStore {
}
}
protected void pushActiveToPipeline(MutableSegment currActive) {
pushActiveToPipeline(currActive, true);
}
/**
* NOTE: When {@link CompactingMemStore#flushInMemory(MutableSegment)} calls this method, due to
* concurrent writes and because we first add cell size to currActive.getDataSize and then

2
hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/CompactionPipeline.java
View File

@ -229,7 +229,7 @@ public class CompactionPipeline {
if ( s.canBeFlattened() ) {
s.waitForUpdates(); // to ensure all updates preceding s in-memory flush have completed
if (s.isEmpty()) {
// after s.waitForUpdates() is called, there is no updates preceding,if no cells in s,
// after s.waitForUpdates() is called, there is no updates pending,if no cells in s,
// we can skip it.
continue;
}

6
hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/TestCompactingToCellFlatMapMemStore.java
View File

@ -823,11 +823,11 @@ public class TestCompactingToCellFlatMapMemStore extends TestCompactingMemStore
// The in-memory flush size is bigger than the size of a single cell,
// but smaller than the size of two cells.
// Therefore, the two created cells are flattened together.
// Therefore, the two created cells are flushed together as a single CSLMImmutableSegment and
// flattened.
totalHeapSize = MutableSegment.DEEP_OVERHEAD
+ CellChunkImmutableSegment.DEEP_OVERHEAD_CCM
+ 1 * oneCellOnCSLMHeapSize
+ 1 * oneCellOnCCMHeapSize;
+ 2 * oneCellOnCCMHeapSize;
assertEquals(totalHeapSize, ((CompactingMemStore) memstore).heapSize());
}

267
hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/TestHStore.java
View File

@ -50,6 +50,10 @@ import java.util.concurrent.ThreadPoolExecutor;
import java.util.concurrent.TimeUnit;
import java.util.concurrent.atomic.AtomicBoolean;
import java.util.concurrent.atomic.AtomicInteger;
import java.util.concurrent.atomic.AtomicLong;
import java.util.concurrent.atomic.AtomicReference;
import java.util.function.IntBinaryOperator;
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.fs.FSDataOutputStream;
import org.apache.hadoop.fs.FileStatus;
@ -1727,8 +1731,11 @@ public class TestHStore {
assertArrayEquals(table, hFileContext.getTableName());
}
// This test is for HBASE-26026, HBase Write be stuck when active segment has no cell
// but its dataSize exceeds inmemoryFlushSize
@Test
public void testCompactingMemStoreStuckBug26026() throws IOException, InterruptedException {
public void testCompactingMemStoreNoCellButDataSizeExceedsInmemoryFlushSize()
throws IOException, InterruptedException {
Configuration conf = HBaseConfiguration.create();
byte[] smallValue = new byte[3];
@ -1752,12 +1759,15 @@ public class TestHStore {
MyCompactingMemStore2 myCompactingMemStore = ((MyCompactingMemStore2) store.memstore);
assertTrue((int) (myCompactingMemStore.getInmemoryFlushSize()) == flushByteSize);
myCompactingMemStore.smallCellPreUpdateCounter.set(0);
myCompactingMemStore.smallCellPostUpdateCounter.set(0);
myCompactingMemStore.largeCellPreUpdateCounter.set(0);
myCompactingMemStore.largeCellPostUpdateCounter.set(0);
final AtomicReference<Throwable> exceptionRef = new AtomicReference<Throwable>();
Thread smallCellThread = new Thread(() -> {
store.add(smallCell, new NonThreadSafeMemStoreSizing());
try {
store.add(smallCell, new NonThreadSafeMemStoreSizing());
} catch (Throwable exception) {
exceptionRef.set(exception);
}
});
smallCellThread.setName(MyCompactingMemStore2.SMALL_CELL_THREAD_NAME);
smallCellThread.start();
@ -1765,9 +1775,9 @@ public class TestHStore {
String oldThreadName = Thread.currentThread().getName();
try {
/**
* 1.smallCellThread enters CompactingMemStore.shouldFlushInMemory first, when largeCellThread
* enters CompactingMemStore.shouldFlushInMemory, CompactingMemStore.active.getDataSize could
* not accommodate cellToAdd and CompactingMemStore.shouldFlushInMemory return true.
* 1.smallCellThread enters CompactingMemStore.checkAndAddToActiveSize first, then
* largeCellThread enters CompactingMemStore.checkAndAddToActiveSize, and then largeCellThread
* invokes flushInMemory.
* <p/>
* 2. After largeCellThread finished CompactingMemStore.flushInMemory method, smallCellThread
* can add cell to currentActive . That is to say when largeCellThread called flushInMemory
@ -1786,6 +1796,143 @@ public class TestHStore {
Thread.currentThread().setName(oldThreadName);
}
assertTrue(exceptionRef.get() == null);
}
// This test is for HBASE-26210, HBase Write be stuck when there is cell which size exceeds
// InmemoryFlushSize
@Test(timeout = 60000)
public void testCompactingMemStoreCellExceedInmemoryFlushSize()
throws IOException, InterruptedException {
Configuration conf = HBaseConfiguration.create();
conf.set(HStore.MEMSTORE_CLASS_NAME, CompactingMemStore.class.getName());
init(name.getMethodName(), conf, ColumnFamilyDescriptorBuilder.newBuilder(family)
.setInMemoryCompaction(MemoryCompactionPolicy.BASIC).build());
int size = (int) ((CompactingMemStore) store.memstore).getInmemoryFlushSize();
byte[] value = new byte[size + 1];
MemStoreSizing memStoreSizing = new NonThreadSafeMemStoreSizing();
long timestamp = EnvironmentEdgeManager.currentTime();
long seqId = 100;
Cell cell = createCell(qf1, timestamp, seqId, value);
int cellByteSize = MutableSegment.getCellLength(cell);
store.add(cell, memStoreSizing);
assertTrue(memStoreSizing.getCellsCount() == 1);
assertTrue(memStoreSizing.getDataSize() == cellByteSize);
}
// This test is for HBASE-26210 also, test write large cell and small cell concurrently when
// InmemoryFlushSize is smaller,equal with and larger than cell size.
@Test
public void testCompactingMemStoreWriteLargeCellAndSmallCellConcurrently()
throws IOException, InterruptedException {
doWriteTestLargeCellAndSmallCellConcurrently(
(smallCellByteSize, largeCellByteSize) -> largeCellByteSize - 1);
doWriteTestLargeCellAndSmallCellConcurrently(
(smallCellByteSize, largeCellByteSize) -> largeCellByteSize);
doWriteTestLargeCellAndSmallCellConcurrently(
(smallCellByteSize, largeCellByteSize) -> smallCellByteSize + largeCellByteSize - 1);
doWriteTestLargeCellAndSmallCellConcurrently(
(smallCellByteSize, largeCellByteSize) -> smallCellByteSize + largeCellByteSize);
doWriteTestLargeCellAndSmallCellConcurrently(
(smallCellByteSize, largeCellByteSize) -> smallCellByteSize + largeCellByteSize + 1);
}
private void doWriteTestLargeCellAndSmallCellConcurrently(
IntBinaryOperator getFlushByteSize)
throws IOException, InterruptedException {
Configuration conf = HBaseConfiguration.create();
byte[] smallValue = new byte[3];
byte[] largeValue = new byte[100];
final long timestamp = EnvironmentEdgeManager.currentTime();
final long seqId = 100;
final Cell smallCell = createCell(qf1, timestamp, seqId, smallValue);
final Cell largeCell = createCell(qf2, timestamp, seqId, largeValue);
int smallCellByteSize = MutableSegment.getCellLength(smallCell);
int largeCellByteSize = MutableSegment.getCellLength(largeCell);
int flushByteSize = getFlushByteSize.applyAsInt(smallCellByteSize, largeCellByteSize);
boolean flushByteSizeLessThanSmallAndLargeCellSize =
flushByteSize < (smallCellByteSize + largeCellByteSize);
conf.set(HStore.MEMSTORE_CLASS_NAME, MyCompactingMemStore3.class.getName());
conf.setDouble(CompactingMemStore.IN_MEMORY_FLUSH_THRESHOLD_FACTOR_KEY, 0.005);
conf.set(HConstants.HREGION_MEMSTORE_FLUSH_SIZE, String.valueOf(flushByteSize * 200));
init(name.getMethodName(), conf, ColumnFamilyDescriptorBuilder.newBuilder(family)
.setInMemoryCompaction(MemoryCompactionPolicy.BASIC).build());
MyCompactingMemStore3 myCompactingMemStore = ((MyCompactingMemStore3) store.memstore);
assertTrue((int) (myCompactingMemStore.getInmemoryFlushSize()) == flushByteSize);
myCompactingMemStore.disableCompaction();
if (flushByteSizeLessThanSmallAndLargeCellSize) {
myCompactingMemStore.flushByteSizeLessThanSmallAndLargeCellSize = true;
} else {
myCompactingMemStore.flushByteSizeLessThanSmallAndLargeCellSize = false;
}
final ThreadSafeMemStoreSizing memStoreSizing = new ThreadSafeMemStoreSizing();
final AtomicLong totalCellByteSize = new AtomicLong(0);
final AtomicReference<Throwable> exceptionRef = new AtomicReference<Throwable>();
Thread smallCellThread = new Thread(() -> {
try {
for (int i = 1; i <= MyCompactingMemStore3.CELL_COUNT; i++) {
long currentTimestamp = timestamp + i;
Cell cell = createCell(qf1, currentTimestamp, seqId, smallValue);
totalCellByteSize.addAndGet(MutableSegment.getCellLength(cell));
store.add(cell, memStoreSizing);
}
} catch (Throwable exception) {
exceptionRef.set(exception);
}
});
smallCellThread.setName(MyCompactingMemStore3.SMALL_CELL_THREAD_NAME);
smallCellThread.start();
String oldThreadName = Thread.currentThread().getName();
try {
/**
* When flushByteSizeLessThanSmallAndLargeCellSize is true:
* </p>
* 1.smallCellThread enters MyCompactingMemStore3.checkAndAddToActiveSize first, then
* largeCellThread enters MyCompactingMemStore3.checkAndAddToActiveSize, and then
* largeCellThread invokes flushInMemory.
* <p/>
* 2. After largeCellThread finished CompactingMemStore.flushInMemory method, smallCellThread
* can run into MyCompactingMemStore3.checkAndAddToActiveSize again.
* <p/>
* When flushByteSizeLessThanSmallAndLargeCellSize is false: smallCellThread and
* largeCellThread concurrently write one cell and wait each other, and then write another
* cell etc.
*/
Thread.currentThread().setName(MyCompactingMemStore3.LARGE_CELL_THREAD_NAME);
for (int i = 1; i <= MyCompactingMemStore3.CELL_COUNT; i++) {
long currentTimestamp = timestamp + i;
Cell cell = createCell(qf2, currentTimestamp, seqId, largeValue);
totalCellByteSize.addAndGet(MutableSegment.getCellLength(cell));
store.add(cell, memStoreSizing);
}
smallCellThread.join();
assertTrue(exceptionRef.get() == null);
assertTrue(memStoreSizing.getCellsCount() == (MyCompactingMemStore3.CELL_COUNT * 2));
assertTrue(memStoreSizing.getDataSize() == totalCellByteSize.get());
if (flushByteSizeLessThanSmallAndLargeCellSize) {
assertTrue(myCompactingMemStore.flushCounter.get() == MyCompactingMemStore3.CELL_COUNT);
} else {
assertTrue(
myCompactingMemStore.flushCounter.get() <= (MyCompactingMemStore3.CELL_COUNT - 1));
}
} finally {
Thread.currentThread().setName(oldThreadName);
}
}
private HStoreFile mockStoreFileWithLength(long length) {
@ -1889,7 +2036,7 @@ public class TestHStore {
return new ArrayList<>(capacity);
}
@Override
protected void pushActiveToPipeline(MutableSegment active) {
protected void pushActiveToPipeline(MutableSegment active, boolean checkEmpty) {
if (START_TEST.get()) {
try {
getScannerLatch.await();
@ -1898,7 +2045,7 @@ public class TestHStore {
}
}
super.pushActiveToPipeline(active);
super.pushActiveToPipeline(active, checkEmpty);
if (START_TEST.get()) {
snapshotLatch.countDown();
}
@ -1995,8 +2142,6 @@ public class TestHStore {
private final CyclicBarrier postCyclicBarrier = new CyclicBarrier(2);
private final AtomicInteger largeCellPreUpdateCounter = new AtomicInteger(0);
private final AtomicInteger smallCellPreUpdateCounter = new AtomicInteger(0);
private final AtomicInteger largeCellPostUpdateCounter = new AtomicInteger(0);
private final AtomicInteger smallCellPostUpdateCounter = new AtomicInteger(0);
public MyCompactingMemStore2(Configuration conf, CellComparatorImpl cellComparator,
HStore store, RegionServicesForStores regionServices,
@ -2004,16 +2149,17 @@ public class TestHStore {
super(conf, cellComparator, store, regionServices, compactionPolicy);
}
protected boolean shouldFlushInMemory(MutableSegment currActive, Cell cellToAdd,
@Override
protected boolean checkAndAddToActiveSize(MutableSegment currActive, Cell cellToAdd,
MemStoreSizing memstoreSizing) {
if (Thread.currentThread().getName().equals(LARGE_CELL_THREAD_NAME)) {
int currentCount = largeCellPreUpdateCounter.incrementAndGet();
if (currentCount <= 1) {
try {
/**
* smallCellThread enters super.shouldFlushInMemory first, when largeCellThread enters
* super.shouldFlushInMemory, currActive.getDataSize could not accommodate cellToAdd and
* super.shouldFlushInMemory return true.
* smallCellThread enters CompactingMemStore.checkAndAddToActiveSize first, then
* largeCellThread enters CompactingMemStore.checkAndAddToActiveSize, and then
* largeCellThread invokes flushInMemory.
*/
preCyclicBarrier.await();
} catch (Throwable e) {
@ -2022,7 +2168,7 @@ public class TestHStore {
}
}
boolean returnValue = super.shouldFlushInMemory(currActive, cellToAdd, memstoreSizing);
boolean returnValue = super.checkAndAddToActiveSize(currActive, cellToAdd, memstoreSizing);
if (Thread.currentThread().getName().equals(SMALL_CELL_THREAD_NAME)) {
try {
preCyclicBarrier.await();
@ -2065,4 +2211,93 @@ public class TestHStore {
}
}
public static class MyCompactingMemStore3 extends CompactingMemStore {
private static final String LARGE_CELL_THREAD_NAME = "largeCellThread";
private static final String SMALL_CELL_THREAD_NAME = "smallCellThread";
private final CyclicBarrier preCyclicBarrier = new CyclicBarrier(2);
private final CyclicBarrier postCyclicBarrier = new CyclicBarrier(2);
private final AtomicInteger flushCounter = new AtomicInteger(0);
private static final int CELL_COUNT = 5;
private boolean flushByteSizeLessThanSmallAndLargeCellSize = true;
public MyCompactingMemStore3(Configuration conf, CellComparatorImpl cellComparator,
HStore store, RegionServicesForStores regionServices,
MemoryCompactionPolicy compactionPolicy) throws IOException {
super(conf, cellComparator, store, regionServices, compactionPolicy);
}
@Override
protected boolean checkAndAddToActiveSize(MutableSegment currActive, Cell cellToAdd,
MemStoreSizing memstoreSizing) {
if (!flushByteSizeLessThanSmallAndLargeCellSize) {
return super.checkAndAddToActiveSize(currActive, cellToAdd, memstoreSizing);
}
if (Thread.currentThread().getName().equals(LARGE_CELL_THREAD_NAME)) {
try {
preCyclicBarrier.await();
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
boolean returnValue = super.checkAndAddToActiveSize(currActive, cellToAdd, memstoreSizing);
if (Thread.currentThread().getName().equals(SMALL_CELL_THREAD_NAME)) {
try {
preCyclicBarrier.await();
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
return returnValue;
}
@Override
protected void postUpdate(MutableSegment currentActiveMutableSegment) {
super.postUpdate(currentActiveMutableSegment);
if (!flushByteSizeLessThanSmallAndLargeCellSize) {
try {
postCyclicBarrier.await();
} catch (Throwable e) {
throw new RuntimeException(e);
}
return;
}
if (Thread.currentThread().getName().equals(SMALL_CELL_THREAD_NAME)) {
try {
postCyclicBarrier.await();
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
}
@Override
protected void flushInMemory(MutableSegment currentActiveMutableSegment) {
super.flushInMemory(currentActiveMutableSegment);
flushCounter.incrementAndGet();
if (!flushByteSizeLessThanSmallAndLargeCellSize) {
return;
}
assertTrue(Thread.currentThread().getName().equals(LARGE_CELL_THREAD_NAME));
try {
postCyclicBarrier.await();
} catch (Throwable e) {
throw new RuntimeException(e);
}
}
void disableCompaction() {
allowCompaction.set(false);
}
void enableCompaction() {
allowCompaction.set(true);
}
}
}