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CavalliumDBEngine
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A lot of db repair features, rollback SearchEntityHandler, update log4j

This commit is contained in:
Andrea Cavalli 2023-10-02 19:51:28 +02:00
parent a6e73b83d8
commit 6fd7d249de
14 changed files with 658 additions and 168 deletions
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3
pom.xml
View File

@ -574,6 +574,9 @@
<manifest>
<mainClass>it.cavallium.dbengine.repair.Repair</mainClass>
</manifest>
<manifestEntries>
<Multi-Release>true</Multi-Release>
</manifestEntries>
</archive>
</configuration>
<executions>

4
src/main/java/it/cavallium/dbengine/client/VerificationProgress.java
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@ -7,7 +7,9 @@ import org.jetbrains.annotations.Nullable;
public sealed interface VerificationProgress {
record BlockBad(String databaseName, Column column, Buf rawKey, String file, Throwable ex)
implements VerificationProgress {}
record FileOk(String databaseName, Column column, String file)
record FileStart(String databaseName, Column column, String file, @Nullable Long numEntriesEstimate)
implements VerificationProgress {}
record FileOk(String databaseName, Column column, String file, long scanned)
implements VerificationProgress {}
record Progress(String databaseName, Column column, String file,
long scanned, long total,

2
src/main/java/it/cavallium/dbengine/database/LLRange.java
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@ -1,9 +1,7 @@
package it.cavallium.dbengine.database;
import it.cavallium.buffer.Buf;
import it.cavallium.dbengine.database.disk.LiveFileMetadata;
import java.util.Objects;
import java.util.StringJoiner;
import org.jetbrains.annotations.Nullable;
/**

18
src/main/java/it/cavallium/dbengine/database/disk/AbstractRocksDBColumn.java
View File

@ -560,12 +560,18 @@ public sealed abstract class AbstractRocksDBColumn<T extends RocksDB> implements
}
@Override
public Stream<LiveFileMetadata> getAllLiveFiles() throws RocksDBException {
byte[] cfhName = cfh.getName();
return db.getLiveFilesMetaData().stream()
.filter(file -> Arrays.equals(cfhName, file.columnFamilyName()))
.map(file -> new LiveFileMetadata(file.path(), file.fileName(), file.level(), columnName,
file.numEntries(),file.size(), LLRange.of(Buf.wrap(file.smallestKey()), Buf.wrap(file.largestKey()))));
public Stream<RocksDBFile> getAllLiveFiles() throws RocksDBException {
var closeReadLock = closeLock.readLock();
try {
ensureOpen();
db.getLiveFiles(); // flushes the memtable
byte[] cfhName = cfh.getName();
return db.getLiveFilesMetaData().stream()
.filter(file -> Arrays.equals(cfhName, file.columnFamilyName()))
.map(file -> new RocksDBFile(db, cfh, file));
} finally {
closeLock.unlockRead(closeReadLock);
}
}
protected int getLevels() {

17
src/main/java/it/cavallium/dbengine/database/disk/IteratorMetrics.java
View File

@ -1,7 +1,22 @@
package it.cavallium.dbengine.database.disk;
import io.micrometer.core.instrument.Counter;
import io.micrometer.core.instrument.Meter.Id;
import io.micrometer.core.instrument.Meter.Type;
import io.micrometer.core.instrument.Tags;
import io.micrometer.core.instrument.Timer;
import io.micrometer.core.instrument.noop.NoopCounter;
import io.micrometer.core.instrument.noop.NoopTimer;
public record IteratorMetrics(Counter startedIterSeek, Counter endedIterSeek, Timer iterSeekTime,
Counter startedIterNext, Counter endedIterNext, Timer iterNextTime) {}
Counter startedIterNext, Counter endedIterNext, Timer iterNextTime) {
public static final IteratorMetrics NO_OP = new IteratorMetrics(
new NoopCounter(new Id("no-op", Tags.empty(), null, null, Type.COUNTER)),
new NoopCounter(new Id("no-op", Tags.empty(), null, null, Type.COUNTER)),
new NoopTimer(new Id("no-op", Tags.empty(), null, null, Type.TIMER)),
new NoopCounter(new Id("no-op", Tags.empty(), null, null, Type.COUNTER)),
new NoopCounter(new Id("no-op", Tags.empty(), null, null, Type.COUNTER)),
new NoopTimer(new Id("no-op", Tags.empty(), null, null, Type.TIMER))
);
}

135
src/main/java/it/cavallium/dbengine/database/disk/LLLocalDictionary.java
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@ -14,13 +14,16 @@ import static it.cavallium.dbengine.utils.StreamUtils.resourceStream;
import static it.cavallium.dbengine.utils.StreamUtils.streamWhileNonNull;
import static java.util.Objects.requireNonNull;
import static it.cavallium.dbengine.utils.StreamUtils.batches;
import static java.util.Objects.requireNonNullElse;
import com.google.common.primitives.Longs;
import io.micrometer.core.instrument.Counter;
import io.micrometer.core.instrument.Timer;
import it.cavallium.buffer.Buf;
import it.cavallium.dbengine.client.VerificationProgress;
import it.cavallium.dbengine.client.VerificationProgress.BlockBad;
import it.cavallium.dbengine.client.VerificationProgress.FileOk;
import it.cavallium.dbengine.client.VerificationProgress.FileStart;
import it.cavallium.dbengine.client.VerificationProgress.Progress;
import it.cavallium.dbengine.database.ColumnUtils;
import it.cavallium.dbengine.database.LLDelta;
@ -49,7 +52,9 @@ import java.nio.file.Path;
import java.time.Duration;
import java.util.ArrayList;
import java.util.Collections;
import java.util.Comparator;
import java.util.List;
import java.util.Objects;
import java.util.Optional;
import java.util.Set;
import java.util.concurrent.CompletionException;
@ -643,113 +648,43 @@ public class LLLocalDictionary implements LLDictionary {
public Stream<VerificationProgress> verifyChecksum(LLRange rangeFull) {
Set<String> brokenFiles = new ConcurrentHashMap<String, Boolean>().keySet(true);
LongAdder totalScanned = new LongAdder();
AtomicLong totalEstimate = new AtomicLong();
Set<String> filesToSkip = Stream
.of(System.getProperty("filenames.skip.list", "").split(","))
.filter(x -> !x.isBlank())
.map(String::trim)
.collect(Collectors.toUnmodifiableSet());
long totalEstimate;
try {
totalEstimate.set(db.getNumEntries());
} catch (Throwable ex) {
logger.warn("Failed to get total entries count", ex);
{
long totalEstimateTmp = 0;
try {
totalEstimateTmp = db.getNumEntries();
} catch (Throwable ex) {
logger.warn("Failed to get total entries count", ex);
}
totalEstimate = totalEstimateTmp;
}
Column column = ColumnUtils.special(columnName);
try {
record FileRange(String filePath, String filename, @Nullable LLRange range, long countEstimate) {}
return db.getAllLiveFiles()
.map(metadata -> new FileRange(Path.of(metadata.path()).resolve("./" + metadata.fileName()).normalize().toString(),
metadata.fileName().replace("/", ""),
LLRange.intersect(metadata.keysRange(), rangeFull),
metadata.numEntries()
))
.filter(fr -> fr.range != null)
// Skip some files
.filter(fr -> !filesToSkip.contains(fr.filename))
.parallel()
.<VerificationProgress>flatMap(fr -> {
String filename = fr.filename;
String path = fr.filePath;
LLRange rangePartial = fr.range;
AtomicLong fileScanned = new AtomicLong();
final long fileEstimate = fr.countEstimate;
AtomicBoolean streamStarted = new AtomicBoolean(false);
AtomicBoolean streamStarted2 = new AtomicBoolean(false);
AtomicBoolean streamEnded = new AtomicBoolean(false);
totalScanned.add(fileEstimate);
try {
return resourceStream(
() -> LLUtils.generateCustomReadOptions(null, false, isBoundedRange(rangePartial), false),
ro -> {
ro.setFillCache(false);
if (!rangePartial.isSingle()) {
if (LLUtils.MANUAL_READAHEAD) {
ro.setReadaheadSize(32 * 1024);
}
}
ro.setVerifyChecksums(true);
return resourceStream(() -> db.newRocksIterator(ro, rangePartial, false), rocksIterator -> {
return StreamUtils.<Optional<VerificationProgress>>streamWhileNonNull(() -> {
boolean first = streamStarted.compareAndSet(false, true);
boolean second = !first && streamStarted.compareAndSet(false, true);
if (!first && !rocksIterator.isValid()) {
if (streamEnded.compareAndSet(false, true)) {
totalScanned.add(fileScanned.get() - fileEstimate);
return Optional.of(new FileOk(databaseName, column, path));
} else {
//noinspection OptionalAssignedToNull
return null;
}
}
boolean shouldSendStatus;
Buf rawKey = null;
try {
if (second) {
if (PRINT_ALL_CHECKSUM_VERIFICATION_STEPS) {
logger.info("Seeking to {}->{}->first on file {}", databaseName, column.name(), filename);
}
rocksIterator.seekToFirst();
}
if (first) {
shouldSendStatus = true;
} else {
rawKey = rocksIterator.keyBuf().copy();
shouldSendStatus = fileScanned.incrementAndGet() % 1_000_000 == 0;
if (PRINT_ALL_CHECKSUM_VERIFICATION_STEPS) {
logger.info("Checking {}->{}->{} on file {}", databaseName, column.name(), rawKey.toString(), filename);
}
rocksIterator.next();
}
} catch (RocksDBException ex) {
return Optional.of(new BlockBad(databaseName, column, rawKey, path, ex));
}
if (shouldSendStatus) {
long totalScannedValue = totalScanned.sum();
long fileScannedVal = fileScanned.get();
return Optional.of(new Progress(databaseName,
column,
path,
totalScannedValue,
Math.max(totalEstimate.get(), totalScannedValue),
fileScannedVal,
Math.max(fileEstimate, fileScannedVal)
));
} else {
return Optional.empty();
}
}).filter(Optional::isPresent).map(Optional::get).onClose(() -> {
rocksIterator.close();
ro.close();
});
});
}
);
} catch (RocksDBException e) {
return Stream.of(new BlockBad(databaseName, column, null, path, e));
var liveFiles = db.getAllLiveFiles().toList();
var liveFilesCount = liveFiles.size();
ConcurrentHashMap<String, Long> fileToInitialEstimate = new ConcurrentHashMap<>();
return liveFiles.stream()
.sorted(Comparator.reverseOrder())
.flatMap(fr -> fr.verify(databaseName, columnName, rangeFull))
.map(status -> switch (status) {
case FileStart fileStart -> {
Long numEntriesEstimate = Objects.requireNonNullElse(fileStart.numEntriesEstimate(), totalEstimate / liveFilesCount);
totalScanned.add(numEntriesEstimate);
fileToInitialEstimate.put(fileStart.file(), numEntriesEstimate);
yield status;
}
case FileOk fileEnd -> {
long initialNumEntriesEstimate = Objects.requireNonNullElse(fileToInitialEstimate.remove(fileEnd.file()), 0L);
long numEntriesScanned = fileEnd.scanned();
totalScanned.add(numEntriesScanned - initialNumEntriesEstimate);
yield status;
}
case Progress progress -> new Progress(progress.databaseName(), progress.column(), progress.file(), totalScanned.longValue(), totalEstimate, progress.fileScanned(), progress.fileTotal());
default -> status;
})
.filter(err -> !(err instanceof BlockBad blockBad && blockBad.rawKey() == null && !brokenFiles.add(blockBad.file())));
} catch (RocksDBException e) {

19
src/main/java/it/cavallium/dbengine/database/disk/LLLocalKeyValueDatabase.java
View File

@ -80,6 +80,7 @@ import org.rocksdb.FlushOptions;
import org.rocksdb.IndexType;
import org.rocksdb.InfoLogLevel;
import org.rocksdb.IngestExternalFileOptions;
import org.rocksdb.LiveFileMetaData;
import org.rocksdb.OptimisticTransactionDB;
import org.rocksdb.PersistentCache;
import org.rocksdb.PlainTableConfig;
@ -622,7 +623,23 @@ public class LLLocalKeyValueDatabase extends Backuppable implements LLKeyValueDa
}
}
public List<String> getColumnFiles(Column column, boolean excludeLastLevel) {
public Stream<RocksDBFile> getAllLiveFiles() throws RocksDBException {
var closeReadLock = closeLock.readLock();
try {
ensureOpen();
db.getLiveFiles(); // flushes the memtable
var liveFilesMetadata = db.getLiveFilesMetaData();
List<RocksDBFile> files = new ArrayList<>();
for (LiveFileMetaData file : liveFilesMetadata) {
files.add(new RocksDBFile(db, getCfh(file.columnFamilyName()), file));
}
return files.stream();
} finally {
closeLock.unlockRead(closeReadLock);
}
}
public List<RocksDBFile> getColumnFiles(Column column, boolean excludeLastLevel) {
var closeReadLock = closeLock.readLock();
try {
ensureOpen();

8
src/main/java/it/cavallium/dbengine/database/disk/LiveFileMetadata.java
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@ -1,8 +0,0 @@
package it.cavallium.dbengine.database.disk;
import it.cavallium.dbengine.database.LLRange;
public record LiveFileMetadata(String path, String fileName, int level, String columnName, long numEntries, long size,
LLRange keysRange) {
}

2
src/main/java/it/cavallium/dbengine/database/disk/RocksDBColumn.java
View File

@ -54,7 +54,7 @@ public sealed interface RocksDBColumn permits AbstractRocksDBColumn {
@NotNull RocksIteratorObj newIterator(@NotNull LLReadOptions readOptions, @Nullable Buf min, @Nullable Buf max);
Stream<LiveFileMetadata> getAllLiveFiles() throws RocksDBException;
Stream<RocksDBFile> getAllLiveFiles() throws RocksDBException;
@NotNull UpdateAtomicResult updateAtomic(@NotNull LLReadOptions readOptions,
@NotNull LLWriteOptions writeOptions,

215
src/main/java/it/cavallium/dbengine/database/disk/RocksDBFile.java Normal file
View File

@ -0,0 +1,215 @@
package it.cavallium.dbengine.database.disk;
import static it.cavallium.dbengine.database.LLUtils.isBoundedRange;
import static it.cavallium.dbengine.database.disk.LLLocalKeyValueDatabase.PRINT_ALL_CHECKSUM_VERIFICATION_STEPS;
import static it.cavallium.dbengine.utils.StreamUtils.resourceStream;
import static java.util.Objects.requireNonNull;
import com.google.common.primitives.Longs;
import it.cavallium.buffer.Buf;
import it.cavallium.dbengine.client.VerificationProgress;
import it.cavallium.dbengine.client.VerificationProgress.BlockBad;
import it.cavallium.dbengine.client.VerificationProgress.FileOk;
import it.cavallium.dbengine.client.VerificationProgress.FileStart;
import it.cavallium.dbengine.client.VerificationProgress.Progress;
import it.cavallium.dbengine.database.LLRange;
import it.cavallium.dbengine.database.LLUtils;
import it.cavallium.dbengine.database.disk.rocksdb.LLReadOptions;
import it.cavallium.dbengine.rpc.current.data.Column;
import it.cavallium.dbengine.utils.StreamUtils;
import java.nio.charset.StandardCharsets;
import java.nio.file.Path;
import java.util.Objects;
import java.util.Optional;
import java.util.StringJoiner;
import java.util.concurrent.atomic.AtomicBoolean;
import java.util.concurrent.atomic.AtomicLong;
import java.util.stream.Stream;
import org.apache.logging.log4j.LogManager;
import org.apache.logging.log4j.Logger;
import org.jetbrains.annotations.NotNull;
import org.jetbrains.annotations.Nullable;
import org.rocksdb.ColumnFamilyHandle;
import org.rocksdb.LiveFileMetaData;
import org.rocksdb.RocksDB;
import org.rocksdb.RocksDBException;
import org.rocksdb.SstFileMetaData;
public class RocksDBFile implements Comparable<RocksDBFile> {
protected static final Logger logger = LogManager.getLogger(RocksDBFile.class);
private final RocksDB db;
private final ColumnFamilyHandle cfh;
private final RocksDBFileMetadata metadata;
private final Long sstNumber;
public RocksDBFile(RocksDB db, ColumnFamilyHandle cfh, RocksDBFileMetadata metadata) {
this.db = db;
this.cfh = cfh;
this.metadata = metadata;
String fileName = metadata.fileName().replace("/", "");
int extensionIndex = fileName.indexOf(".");
Long sstNumber = null;
if (extensionIndex != -1) {
String numberRaw = fileName.substring(0, extensionIndex);
//noinspection UnstableApiUsage
this.sstNumber = Longs.tryParse(numberRaw);
} else {
this.sstNumber = null;
}
}
public <T extends RocksDB> RocksDBFile(T db, ColumnFamilyHandle cfh, LiveFileMetaData file) {
this(db,
cfh,
new RocksDBFileMetadata(file.path(),
file.fileName(),
file.level(),
new String(file.columnFamilyName(), StandardCharsets.UTF_8),
file.numEntries(),
file.size(),
decodeRange(file.smallestKey(), file.largestKey())
)
);
}
public <T extends RocksDB> RocksDBFile(T db, ColumnFamilyHandle cfh, SstFileMetaData file, byte[] columnFamilyName, int level) {
this(db,
cfh,
new RocksDBFileMetadata(file.path(),
file.fileName(),
level,
new String(columnFamilyName, StandardCharsets.UTF_8),
file.numEntries(),
file.size(),
decodeRange(file.smallestKey(), file.largestKey())
)
);
}
private static LLRange decodeRange(byte[] smallestKey, byte[] largestKey) {
return LLRange.of(Buf.wrap(smallestKey), Buf.wrap(largestKey));
}
public RocksDBFileMetadata getMetadata() {
return metadata;
}
public record VerificationFileRange(String filePath, String filename, @Nullable LLRange range, long countEstimate,
@Nullable Long sstNumber) {}
public Stream<VerificationProgress> verify(String databaseDisplayName, String columnDisplayName, LLRange rangeFull) {
var intersectedRange = LLRange.intersect(metadata.keysRange(), rangeFull);
// Ignore the file if it's outside the requested range
if (intersectedRange == null) {
return Stream.of();
}
String filePath = Path.of(metadata.path()).resolve("./" + metadata.fileName()).normalize().toString();
var fr = new VerificationFileRange(filePath,
metadata.fileName().replace("/", ""),
intersectedRange,
metadata.numEntries(),
sstNumber
);
return verify(databaseDisplayName, columnDisplayName, rangeFull, fr);
}
private Stream<VerificationProgress> verify(String databaseDisplayName, String columnDisplayName, LLRange rangeFull, VerificationFileRange fr) {
var columnObj = Column.of(columnDisplayName);
Stream<VerificationProgress> streamInit = Stream.of(new FileStart(databaseDisplayName, columnObj, fr.filePath, fr.countEstimate > 0 ? fr.countEstimate : null));
Stream<VerificationProgress> streamContent;
Objects.requireNonNull(fr.range);
String filename = fr.filename;
String path = fr.filePath;
LLRange rangePartial = fr.range;
AtomicLong fileScanned = new AtomicLong();
final long fileEstimate = fr.countEstimate;
AtomicBoolean mustSeek = new AtomicBoolean(true);
AtomicBoolean streamEnded = new AtomicBoolean(false);
streamContent = resourceStream(
() -> LLUtils.generateCustomReadOptions(null, false, isBoundedRange(rangePartial), false),
ro -> {
ro.setIterateLowerBound(rangePartial.getMin() != null ? requireNonNull(LLUtils.asArray(rangePartial.getMin())) : null);
ro.setIterateUpperBound(rangePartial.getMax() != null ? requireNonNull(LLUtils.asArray(rangePartial.getMax())) : null);
ro.setFillCache(false);
if (!rangePartial.isSingle()) {
if (LLUtils.MANUAL_READAHEAD) {
ro.setReadaheadSize(32 * 1024);
}
}
ro.setVerifyChecksums(true);
return resourceStream(() -> ro.newIterator(db, cfh, IteratorMetrics.NO_OP), rocksIterator -> StreamUtils
.<Optional<VerificationProgress>>streamWhileNonNull(() -> {
boolean mustSeekVal = mustSeek.compareAndSet(true, false);
if (!mustSeekVal && !rocksIterator.isValid()) {
if (streamEnded.compareAndSet(false, true)) {
return Optional.of(new FileOk(databaseDisplayName, columnObj, path, fileScanned.get()));
} else {
//noinspection OptionalAssignedToNull
return null;
}
}
boolean shouldSendStatus;
Buf rawKey = null;
try {
if (mustSeekVal) {
if (PRINT_ALL_CHECKSUM_VERIFICATION_STEPS) {
logger.info("Seeking to {}->{}->first on file {}", databaseDisplayName, columnDisplayName, filename);
}
rocksIterator.seekToFirst();
shouldSendStatus = true;
} else {
rawKey = rocksIterator.keyBuf().copy();
shouldSendStatus = fileScanned.incrementAndGet() % 1_000_000 == 0;
if (PRINT_ALL_CHECKSUM_VERIFICATION_STEPS) {
logger.info("Checking {}->{}->{} on file {}", databaseDisplayName, columnDisplayName, rawKey.toString(), filename);
}
rocksIterator.next();
}
} catch (RocksDBException ex) {
return Optional.of(new BlockBad(databaseDisplayName, columnObj, rawKey, path, ex));
}
if (shouldSendStatus) {
long fileScannedVal = fileScanned.get();
return Optional.of(new Progress(databaseDisplayName,
columnObj,
path,
-1,
-1,
fileScannedVal,
Math.max(fileEstimate, fileScannedVal)
));
} else {
return Optional.empty();
}
}).filter(Optional::isPresent).map(Optional::get).onClose(() -> {
rocksIterator.close();
ro.close();
}));
}
);
return Stream.concat(streamInit, streamContent);
}
@Override
public String toString() {
return new StringJoiner(", ", RocksDBFile.class.getSimpleName() + "[", "]")
.add("fileMetadata=" + metadata)
.toString();
}
@Override
public int compareTo(@NotNull RocksDBFile o) {
if (this.sstNumber == null && o.sstNumber == null) {
return 0;
} else if (this.sstNumber == null) {
return 1;
} else if (o.sstNumber == null) {
return -1;
}
return Long.compare(this.sstNumber, o.sstNumber);
}
}

8
src/main/java/it/cavallium/dbengine/database/disk/RocksDBFileMetadata.java Normal file
View File

@ -0,0 +1,8 @@
package it.cavallium.dbengine.database.disk;
import it.cavallium.dbengine.database.LLRange;
public record RocksDBFileMetadata(String path, String fileName, int level, String columnName, long numEntries, long size,
LLRange keysRange) {
}

15
src/main/java/it/cavallium/dbengine/database/disk/RocksDBUtils.java
View File

@ -26,15 +26,15 @@ public class RocksDBUtils {
return db.numberLevels(cfh);
}
public static List<String> getColumnFiles(RocksDB db, ColumnFamilyHandle cfh, boolean excludeLastLevel) {
List<String> files = new ArrayList<>();
public static List<RocksDBFile> getColumnFiles(RocksDB db, ColumnFamilyHandle cfh, boolean excludeLastLevel) {
List<RocksDBFile> files = new ArrayList<>();
var meta = db.getColumnFamilyMetaData(cfh);
var lastLevelId = excludeLastLevel ? (getLevels(db, cfh) - 1) : -1;
for (LevelMetaData level : meta.levels()) {
if (!excludeLastLevel || level.level() < lastLevelId) {
for (SstFileMetaData file : level.files()) {
if (file.fileName().endsWith(".sst")) {
files.add(file.fileName());
files.add(new RocksDBFile(db, cfh, file, meta.name(), level.level()));
}
}
}
@ -51,18 +51,18 @@ public class RocksDBUtils {
.setCompression(CompressionType.LZ4_COMPRESSION)
.setMaxSubcompactions(0)
.setOutputFileSizeLimit(2 * SizeUnit.GB)) {
List<String> filesToCompact = getColumnFiles(db, cfh, true);
var filesToCompact = getColumnFiles(db, cfh, true);
if (!filesToCompact.isEmpty()) {
var partitionSize = filesToCompact.size() / Runtime.getRuntime().availableProcessors();
List<List<String>> partitions;
List<List<RocksDBFile>> partitions;
if (partitionSize > 0) {
partitions = partition(filesToCompact, partitionSize);
} else {
partitions = List.of(filesToCompact);
}
int finalBottommostLevelId = getLevels(db, cfh) - 1;
for (List<String> partition : partitions) {
for (List<RocksDBFile> partition : partitions) {
logger.info("Compacting {} files in database {} in column family {} to level {}",
partition.size(),
logDbName,
@ -72,7 +72,8 @@ public class RocksDBUtils {
if (!partition.isEmpty()) {
var coi = new CompactionJobInfo();
try {
db.compactFiles(co, cfh, partition, finalBottommostLevelId, volumeId, coi);
var partitionFileNames = partition.stream().map(x -> x.getMetadata().fileName()).toList();
db.compactFiles(co, cfh, partitionFileNames, finalBottommostLevelId, volumeId, coi);
logger.info("Compacted {} files in database {} in column family {} to level {}: {}",
partition.size(),
logDbName,

194
src/repair/java/it/cavallium/dbengine/repair/DataSize.java Normal file
View File

@ -0,0 +1,194 @@
package it.cavallium.dbengine.repair;
import java.io.Serial;
import java.text.CharacterIterator;
import java.text.StringCharacterIterator;
import org.jetbrains.annotations.NotNull;
@SuppressWarnings("unused")
public final class DataSize extends Number implements Comparable<DataSize> {
@Serial
private static final long serialVersionUID = 7213411239846723568L;
public static DataSize ZERO = new DataSize(0L);
public static DataSize ONE = new DataSize(1L);
public static DataSize KIB = new DataSize(1024L);
public static DataSize KB = new DataSize(1000L);
public static DataSize MIB = new DataSize(1024L * 1024);
public static DataSize MB = new DataSize(1000L * 1000);
public static DataSize GIB = new DataSize(1024L * 1024 * 1024);
public static DataSize GB = new DataSize(1000L * 1000 * 1000);
public static DataSize TIB = new DataSize(1024L * 1024 * 1024 * 1024);
public static DataSize TB = new DataSize(1000L * 1000 * 1000 * 1024);
public static DataSize PIB = new DataSize(1024L * 1024 * 1024 * 1024 * 1024);
public static DataSize PB = new DataSize(1000L * 1000 * 1000 * 1024 * 1024);
public static DataSize EIB = new DataSize(1024L * 1024 * 1024 * 1024 * 1024 * 1024);
public static DataSize EB = new DataSize(1000L * 1000 * 1000 * 1024 * 1024 * 1024);
public static DataSize MAX_VALUE = new DataSize(Long.MAX_VALUE);
private final long size;
public DataSize(long size) {
this.size = size;
}
public DataSize(String size) {
size = size.replaceAll("\\s|_", "");
switch (size) {
case "", "0", "-0", "+0" -> {
this.size = 0;
return;
}
case "∞", "inf", "infinite", "∞b" -> {
this.size = Long.MAX_VALUE;
return;
}
}
int numberStartOffset = 0;
int numberEndOffset = 0;
boolean negative = false;
{
boolean firstChar = true;
boolean numberMode = true;
for (char c : size.toCharArray()) {
if (c == '-') {
if (firstChar) {
negative = true;
numberStartOffset++;
numberEndOffset++;
} else {
throw new IllegalArgumentException("Found a minus character after index 0");
}
} else if (Character.isDigit(c)) {
if (numberMode) {
numberEndOffset++;
} else {
throw new IllegalArgumentException("Found a number after the unit");
}
} else if (Character.isLetter(c)) {
if (numberEndOffset - numberStartOffset <= 0) {
throw new IllegalArgumentException("No number found");
}
if (numberMode) {
numberMode = false;
}
} else {
throw new IllegalArgumentException("Unsupported character");
}
if (firstChar) {
firstChar = false;
}
}
}
var number = Long.parseUnsignedLong(size, numberStartOffset, numberEndOffset, 10);
if (numberEndOffset == size.length()) {
// No measurement
this.size = (negative ? -1 : 1) * number;
return;
}
// Measurements are like B, MB, or MiB, not longer
if (size.length() - numberEndOffset > 3) {
throw new IllegalArgumentException("Wrong measurement unit");
}
var scaleChar = size.charAt(numberEndOffset);
boolean powerOf2 = numberEndOffset + 1 < size.length() && size.charAt(numberEndOffset + 1) == 'i';
int k = powerOf2 ? 1024 : 1000;
var scale = switch (scaleChar) {
case 'B' -> 1;
case 'b' -> throw new IllegalArgumentException("Bits are not allowed");
case 'K', 'k' -> k;
case 'M', 'm' -> k * k;
case 'G', 'g' -> k * k * k;
case 'T', 't' -> k * k * k * k;
case 'P', 'p' -> k * k * k * k * k;
case 'E', 'e' -> k * k * k * k * k * k;
case 'Z', 'z' -> k * k * k * k * k * k * k;
case 'Y', 'y' -> k * k * k * k * k * k * k * k;
default -> throw new IllegalStateException("Unexpected value: " + scaleChar);
};
// if scale is 1, the unit should be "B", nothing more
if (scale == 1 && numberEndOffset + 1 != size.length()) {
throw new IllegalArgumentException("Invalid unit");
}
this.size = (negative ? -1 : 1) * number * scale;
}
public static Long get(DataSize value) {
if (value == null) {
return null;
} else {
return value.size;
}
}
public static long getOrElse(DataSize value, @NotNull DataSize defaultValue) {
if (value == null) {
return defaultValue.size;
} else {
return value.size;
}
}
@Override
public int intValue() {
if (size >= Integer.MAX_VALUE) {
return Integer.MAX_VALUE;
}
return (int) size;
}
@Override
public long longValue() {
return size;
}
@Override
public float floatValue() {
return size;
}
@Override
public double doubleValue() {
return size;
}
@Override
public String toString() {
return toString(true);
}
public String toString(boolean precise) {
boolean siUnits = size % 1000 == 0;
int k = siUnits ? 1000 : 1024;
long lSize = size;
CharacterIterator ci = new StringCharacterIterator((siUnits ? "k" : "K") + "MGTPEZY");
while ((precise ? lSize % k == 0 : lSize > k) && lSize != 0) {
lSize /= k;
ci.next();
}
if (lSize == size) {
return lSize + "B";
}
return lSize + "" + ci.previous() + (siUnits ? "B" : "iB");
}
@Override
public int compareTo(@NotNull DataSize anotherLong) {
return Long.compare(this.size, anotherLong.size);
}
@Override
public boolean equals(Object obj) {
if (obj instanceof DataSize) {
return size == ((DataSize)obj).size;
}
return false;
}
@Override
public int hashCode() {
return Long.hashCode(size);
}
}

186
src/repair/java/it/cavallium/dbengine/repair/Repair.java
View File

@ -1,24 +1,23 @@
package it.cavallium.dbengine.repair;
import io.micrometer.core.instrument.Clock;
import io.micrometer.core.instrument.Meter;
import io.micrometer.core.instrument.MeterRegistry;
import io.micrometer.core.instrument.logging.LoggingMeterRegistry;
import io.micrometer.core.instrument.noop.NoopMeter;
import io.micrometer.core.instrument.simple.SimpleMeterRegistry;
import it.cavallium.datagen.nativedata.NullableString;
import it.cavallium.datagen.nativedata.Nullableboolean;
import it.cavallium.datagen.nativedata.Nullableint;
import it.cavallium.datagen.nativedata.Nullablelong;
import it.cavallium.dbengine.client.Compression;
import it.cavallium.dbengine.client.VerificationProgress;
import it.cavallium.dbengine.client.VerificationProgress.BlockBad;
import it.cavallium.dbengine.client.VerificationProgress.FileOk;
import it.cavallium.dbengine.client.VerificationProgress.FileStart;
import it.cavallium.dbengine.client.VerificationProgress.Progress;
import it.cavallium.dbengine.database.LLRange;
import it.cavallium.dbengine.database.UpdateMode;
import it.cavallium.dbengine.database.disk.LLLocalDatabaseConnection;
import it.cavallium.dbengine.database.disk.LLLocalDictionary;
import it.cavallium.dbengine.database.disk.LLLocalKeyValueDatabase;
import it.cavallium.dbengine.database.disk.RocksDBFile;
import it.cavallium.dbengine.rpc.current.data.Column;
import it.cavallium.dbengine.rpc.current.data.DatabaseOptionsBuilder;
import it.cavallium.dbengine.rpc.current.data.DatabaseVolume;
@ -26,18 +25,22 @@ import it.cavallium.dbengine.rpc.current.data.DefaultColumnOptions;
import it.cavallium.dbengine.rpc.current.data.NamedColumnOptions;
import it.cavallium.dbengine.rpc.current.data.nullables.NullableCompression;
import it.cavallium.dbengine.rpc.current.data.nullables.NullableFilter;
import it.cavallium.dbengine.utils.StreamUtils;
import it.unimi.dsi.fastutil.objects.ObjectArrayList;
import it.unimi.dsi.fastutil.objects.ObjectList;
import java.io.BufferedWriter;
import java.io.IOException;
import java.nio.charset.StandardCharsets;
import java.nio.file.Files;
import java.nio.file.Path;
import java.nio.file.StandardOpenOption;
import java.util.Base64;
import java.util.Comparator;
import java.util.List;
import java.util.Locale;
import java.util.Map;
import java.util.concurrent.atomic.AtomicBoolean;
import java.util.stream.Stream;
import org.apache.commons.lang3.exception.ExceptionUtils;
import org.rocksdb.InfoLogLevel;
import org.rocksdb.Options;
import org.rocksdb.RocksDB;
@ -47,7 +50,7 @@ public class Repair {
public static final MeterRegistry METER = new SimpleMeterRegistry(); // LoggingMeterRegistry.builder(key -> null).clock(Clock.SYSTEM).loggingSink(System.err::println).build();
public static void main(String[] argsArray) throws RocksDBException {
public static void main(String[] argsArray) throws RocksDBException, IOException {
System.setProperty("it.cavallium.dbengine.checks.compression", "true");
System.setProperty("it.cavallium.dbengine.checks.paranoid", "true");
System.setProperty("it.cavallium.dbengine.checks.filesize", "true");
@ -62,7 +65,7 @@ public class Repair {
args = args.subList(1, args.size());
switch (command.toLowerCase(Locale.ROOT)) {
case "list-column-families" -> {
if (args.size() < 3) {
if (args.size() != 2) {
printHelp(initialArgs);
}
Path path = Path.of(args.get(0));
@ -80,41 +83,87 @@ public class Repair {
var conn = new LLLocalDatabaseConnection(METER, path, false);
conn.connect();
LLLocalKeyValueDatabase db = getDatabase(conn, dbName, columnNames);
db.getAllColumnFamilyHandles().forEach((column, cfh) -> {
System.err.printf("Scanning column: %s%n", column.name());
LLLocalDictionary dict = db.getDictionary(column.name().getBytes(StandardCharsets.UTF_8), UpdateMode.DISALLOW);
StreamUtils.collectOn(StreamUtils.ROCKSDB_POOL, dict.verifyChecksum(LLRange.all()), StreamUtils.executing(block -> {
synchronized (Repair.class) {
switch (block) {
case null -> {}
case BlockBad blockBad -> {
System.err.println("[ ! ] Bad block found: " + block.databaseName() + (block.column() != null ? "->" + block.column().name() : "") + "->" + blockBad.rawKey() + "->" + block.file());
if (blockBad.ex() != null) {
if (blockBad.ex() instanceof RocksDBException ex) {
System.err.println("\t" + ex);
} else {
blockBad.ex().printStackTrace(System.err);
}
}
Path cwd = Path.of(".");
String errorsFileNamePrefix = "errors-" + dbName;
String errorsFileNameSuffix = ".log";
Path errorsFile;
if (Files.isWritable(cwd)) {
errorsFile = cwd.resolve(errorsFileNamePrefix + "-" + System.currentTimeMillis() + errorsFileNameSuffix);
} else {
errorsFile = Files.createTempFile(errorsFileNamePrefix, errorsFileNameSuffix);
}
try (var os = Files.newBufferedWriter(errorsFile,
StandardCharsets.UTF_8,
StandardOpenOption.CREATE,
StandardOpenOption.TRUNCATE_EXISTING,
StandardOpenOption.DSYNC
)) {
db.getAllColumnFamilyHandles().forEach((column, cfh) -> {
System.err.printf("Scanning column: %s%n", column.name());
LLLocalDictionary dict = db.getDictionary(column.name().getBytes(StandardCharsets.UTF_8), UpdateMode.DISALLOW);
consumeVerification(os, dict.verifyChecksum(LLRange.all()));
});
}
}
case "scan-files" -> {
if (args.size() < 3) {
printHelp(initialArgs);
}
Path path = Path.of(args.get(0)).toAbsolutePath();
String dbName = args.get(1);
List<String> fileNames = args.subList(2, args.size());
List<String> columnNames = getColumnFamilyNames(path, dbName).toList();
System.err.printf("Scanning database \"%s\" at \"%s\", files:%n%s%n", dbName, path, String.join("\n", fileNames));
var conn = new LLLocalDatabaseConnection(METER, path, false);
conn.connect();
LLLocalKeyValueDatabase db = getDatabase(conn, dbName, columnNames);
Path cwd = Path.of(".");
String errorsFileNamePrefix = "errors-" + dbName;
String errorsFileNameSuffix = ".log";
Path errorsFile;
if (Files.isWritable(cwd)) {
errorsFile = cwd.resolve(errorsFileNamePrefix + "-" + System.currentTimeMillis() + errorsFileNameSuffix);
} else {
errorsFile = Files.createTempFile(errorsFileNamePrefix, errorsFileNameSuffix);
}
try (var os = Files.newBufferedWriter(errorsFile,
StandardCharsets.UTF_8,
StandardOpenOption.CREATE,
StandardOpenOption.TRUNCATE_EXISTING,
StandardOpenOption.DSYNC
)) {
consumeVerification(os, db.getAllLiveFiles()
.filter(file -> {
if (fileNames.contains(file.getMetadata().fileName())) {
return true;
} else {
System.err.printf("Ignoring file: \"%s\"%n", file.getMetadata().fileName());
return false;
}
case FileOk fileOk -> {
System.err.println("File is ok: " + block.databaseName() + (block.column() != null ? "->" + block.column().name() : "") + "->" + block.file());
}
case Progress progress -> {
System.err.printf("Progress: [%d/%d] file: [%d/%d] %s%s->%s%n",
progress.scanned(),
progress.total(),
progress.fileScanned(),
progress.fileTotal(),
block.databaseName(),
block.column() != null ? "->" + block.column().name() : "",
block.file()
);
}
default -> throw new IllegalStateException("Unexpected value: " + block);
}
}
}));
})
.flatMap(file -> file.verify(dbName, "any", LLRange.all())));
}
}
case "list-files" -> {
if (args.size() != 2) {
printHelp(initialArgs);
}
Path path = Path.of(args.get(0)).toAbsolutePath();
String dbName = args.get(1);
List<String> columnNames = getColumnFamilyNames(path, dbName).toList();
System.err.printf("Getting files of database \"%s\" at \"%s\"%n", dbName, path);
System.out.println("Name \tPath \tColumn name \tKeys range \tSize \tEntries \tLevel");
var conn = new LLLocalDatabaseConnection(METER, path, false);
conn.connect();
LLLocalKeyValueDatabase db = getDatabase(conn, dbName, columnNames);
db.getAllLiveFiles().sorted(Comparator
.<RocksDBFile>comparingInt(x -> x.getMetadata().level())
.thenComparingLong(x -> x.getMetadata().size())
.thenComparingLong(x -> x.getMetadata().numEntries())
.thenComparing(x -> x.getMetadata().fileName())
).forEach(file -> {
var meta = file.getMetadata();
System.out.printf("%s\t%s\t%s\t%s\t%s\t%d\t%d%n", meta.fileName(), meta.path(), meta.columnName(), meta.keysRange(), new DataSize(meta.size()).toString(false), meta.numEntries(), meta.level());
});
}
case "dump-all" -> {
@ -175,6 +224,59 @@ public class Repair {
System.exit(0);
}
private static void consumeVerification(BufferedWriter os, Stream<VerificationProgress> verificationProgressStream) {
var showProgress = !Boolean.getBoolean("it.cavallium.dbengine.repair.hideprogress");
verificationProgressStream.parallel().forEach(block -> {
synchronized (Repair.class) {
switch (block) {
case null -> {}
case BlockBad blockBad -> {
StringBuilder errorLineBuilder = new StringBuilder()
.append("File scan ended with error, bad block found: ")
.append(block.databaseName())
.append(block.column() != null ? "->" + block.column().name() : "")
.append("->")
.append(blockBad.rawKey())
.append("->")
.append(block.file());
if (blockBad.ex() != null) {
if (blockBad.ex() instanceof RocksDBException ex) {
errorLineBuilder.append("\n\t").append(ex);
} else {
errorLineBuilder.append("\n").append(ExceptionUtils.getStackTrace(blockBad.ex()));
}
}
String errorLine = errorLineBuilder.toString();
System.err.println("[ ! ] " + errorLine);
try {
os.write(errorLine);
os.flush();
} catch (IOException e) {
System.err.println("Can't write to errors file: " + e);
}
}
case FileOk ignored ->
System.err.println("File scan ended with success: " + block.databaseName() + (block.column() != null ? "->" + block.column().name() : "") + "->" + block.file());
case FileStart ignored ->
System.err.println("File scan begin: " + block.databaseName() + (block.column() != null ? "->" + block.column().name() : "") + "->" + block.file());
case Progress progress -> {
if (showProgress) {
System.err.printf("Progress: %s[%d/%d] %s%s->%s%n",
progress.total() != -1 ? "[%d/%d] file: ".formatted(progress.scanned(), progress.total()) : "",
progress.fileScanned(),
progress.fileTotal(),
block.databaseName(),
block.column() != null ? "->" + block.column().name() : "",
block.file()
);
}
}
default -> throw new IllegalStateException("Unexpected value: " + block);
}
}
});
}
private static Stream<String> getColumnFamilyNames(Path path, String dbName) throws RocksDBException {
String dbPath = path.resolve("database_" + dbName).toString();
System.err.printf("Listing column families of database: %s%n", dbPath);
@ -249,6 +351,8 @@ public class Repair {
or: repair dump-all DIRECTORY DB_NAME COLUMN_NAME...
or: repair verify-checksum DIRECTORY DB_NAME
or: repair list-column-families DIRECTORY DB_NAME
or: repair scan-files DIRECTORY DB_NAME FILE-NAME...
or: repair list-files DIRECTORY DB_NAME
""");
System.exit(1);
}