ubuntu - 我遇到数据库恐慌：数据库遇到严重错误，需要重新启动

Question

我们刚刚启动了我们的新公司，我今天早些时候重新启动了数据库服务器并获得了以下日志跟踪。

2018-07-13 11:46:22.204+0000 INFO [o.n.k.i.DiagnosticsManager] --- INITIALIZED diagnostics START ---
2018-07-13 11:46:22.205+0000 INFO [o.n.k.i.DiagnosticsManager] Neo4j Kernel properties:
2018-07-13 11:46:22.205+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.connector.http.enabled=true
2018-07-13 11:46:22.205+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.security.auth_enabled=true
2018-07-13 11:46:22.205+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.windows_service_name=neo4j
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.connector.https.listen_address=0.0.0.0:7594
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] unsupported.dbms.directories.neo4j_home=/var/lib/neo4j
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.connector.bolt.listen_address=0.0.0.0:7288
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.import=/var/lib/neo4j/import
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.memory.heap.initial_size=5g
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.memory.pagecache.size=9g
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.data=/var/lib/neo4j/data
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.run=/var/run/neo4j
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.lib=/usr/share/neo4j/lib
2018-07-13 11:46:22.206+0000 INFO [o.n.k.i.DiagnosticsManager] unsupported.dbms.edition=community
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.logs=/var/log/neo4j
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.connector.bolt.enabled=true
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.certificates=/var/lib/neo4j/certificates
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.connector.https.enabled=true
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.jvm.additional=-Dunsupported.dbms.udc.source=debian
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.directories.plugins=/var/lib/neo4j/plugins
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.tx_log.rotation.retention_policy=1 days
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] dbms.memory.heap.max_size=5g
2018-07-13 11:46:22.207+0000 INFO [o.n.k.i.DiagnosticsManager] Diagnostics providers:
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] org.neo4j.kernel.configuration.Config
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] org.neo4j.kernel.info.DiagnosticsManager
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] SYSTEM_MEMORY
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] JAVA_MEMORY
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] OPERATING_SYSTEM
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] JAVA_VIRTUAL_MACHINE
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] CLASSPATH
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] LIBRARY_PATH
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] SYSTEM_PROPERTIES
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] LINUX_SCHEDULERS
2018-07-13 11:46:22.208+0000 INFO [o.n.k.i.DiagnosticsManager] NETWORK
2018-07-13 11:46:22.209+0000 INFO [o.n.k.i.DiagnosticsManager] System memory information:
2018-07-13 11:46:22.212+0000 INFO [o.n.k.i.DiagnosticsManager] Total Physical memory: 15.67 GB
2018-07-13 11:46:22.212+0000 INFO [o.n.k.i.DiagnosticsManager] Free Physical memory: 9.89 GB
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] Committed virtual memory: 8.06 GB
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] Total swap space: 0.00 B
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] Free swap space: 0.00 B
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] JVM memory information:
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] Free  memory: 4.92 GB
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] Total memory: 5.00 GB
2018-07-13 11:46:22.213+0000 INFO [o.n.k.i.DiagnosticsManager] Max   memory: 5.00 GB
2018-07-13 11:46:22.215+0000 INFO [o.n.k.i.DiagnosticsManager] Garbage Collector: G1 Young Generation: [G1 Eden Space, G1 Survivor Space]
2018-07-13 11:46:22.215+0000 INFO [o.n.k.i.DiagnosticsManager] Garbage Collector: G1 Old Generation: [G1 Eden Space, G1 Survivor Space, G1 Old Gen]
2018-07-13 11:46:22.215+0000 INFO [o.n.k.i.DiagnosticsManager] Memory Pool: Code Cache (Non-heap memory): committed=5.06 MB, used=5.01 MB, max=240.00 MB, threshold=0.00 B
2018-07-13 11:46:22.216+0000 INFO [o.n.k.i.DiagnosticsManager] Memory Pool: Metaspace (Non-heap memory): committed=13.63 MB, used=12.71 MB, max=-1.00 B, threshold=0.00 B
2018-07-13 11:46:22.216+0000 INFO [o.n.k.i.DiagnosticsManager] Memory Pool: Compressed Class Space (Non-heap memory): committed=1.88 MB, used=1.65 MB, max=1.00 GB, threshold=0.00 B
2018-07-13 11:46:22.216+0000 INFO [o.n.k.i.DiagnosticsManager] Memory Pool: G1 Eden Space (Heap memory): committed=270.00 MB, used=76.00 MB, max=-1.00 B, threshold=?
2018-07-13 11:46:22.216+0000 INFO [o.n.k.i.DiagnosticsManager] Memory Pool: G1 Survivor Space (Heap memory): committed=0.00 B, used=0.00 B, max=-1.00 B, threshold=?
2018-07-13 11:46:22.216+0000 INFO [o.n.k.i.DiagnosticsManager] Memory Pool: G1 Old Gen (Heap memory): committed=4.74 GB, used=0.00 B, max=5.00 GB, threshold=0.00 B
2018-07-13 11:46:22.216+0000 INFO [o.n.k.i.DiagnosticsManager] Operating system information:
2018-07-13 11:46:22.217+0000 INFO [o.n.k.i.DiagnosticsManager] Operating System: Linux; version: 4.4.0-1062-aws; arch: amd64; cpus: 4
2018-07-13 11:46:22.217+0000 INFO [o.n.k.i.DiagnosticsManager] Max number of file descriptors: 60000
2018-07-13 11:46:22.217+0000 INFO [o.n.k.i.DiagnosticsManager] Number of open file descriptors: 110
2018-07-13 11:46:22.225+0000 INFO [o.n.k.i.DiagnosticsManager] Process id: 19097@ip-172-31-24-163
2018-07-13 11:46:22.225+0000 INFO [o.n.k.i.DiagnosticsManager] Byte order: LITTLE_ENDIAN
2018-07-13 11:46:22.231+0000 INFO [o.n.k.i.DiagnosticsManager] Local timezone: Etc/UTC
2018-07-13 11:46:22.231+0000 INFO [o.n.k.i.DiagnosticsManager] JVM information:
2018-07-13 11:46:22.231+0000 INFO [o.n.k.i.DiagnosticsManager] VM Name: OpenJDK 64-Bit Server VM
2018-07-13 11:46:22.232+0000 INFO [o.n.k.i.DiagnosticsManager] VM Vendor: Oracle Corporation
2018-07-13 11:46:22.232+0000 INFO [o.n.k.i.DiagnosticsManager] VM Version: 25.171-b11
2018-07-13 11:46:22.232+0000 INFO [o.n.k.i.DiagnosticsManager] JIT compiler: HotSpot 64-Bit Tiered Compilers
2018-07-13 11:46:22.232+0000 INFO [o.n.k.i.DiagnosticsManager] VM Arguments: [-Xms5g, -Xmx5g, -XX:+UseG1GC, -XX:-OmitStackTraceInFastThrow, -XX:+AlwaysPreTouch, -XX:+UnlockExperimentalVMOptions, -XX:+TrustFinalNonStaticFields, -XX:+DisableExplicitGC, -Djdk.tls.ephemeralDHKeySize=2048, -Dunsupported.dbms.udc.source=debian, -Dfile.encoding=UTF-8]
2018-07-13 11:46:22.232+0000 INFO [o.n.k.i.DiagnosticsManager] Java classpath:
.......
2018-07-13 11:46:22.239+0000 INFO [o.n.k.i.DiagnosticsManager] /usr/java/packages/lib/amd64
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] /usr/lib/x86_64-linux-gnu/jni
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] /lib/x86_64-linux-gnu
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] /usr/lib/x86_64-linux-gnu
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] /usr/lib/jni
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] /lib
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] /usr/lib
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] System.properties:
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] sun.boot.library.path = /usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] path.separator = :
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] file.encoding.pkg = sun.io
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] user.country = US
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] sun.java.launcher = SUN_STANDARD
2018-07-13 11:46:22.240+0000 INFO [o.n.k.i.DiagnosticsManager] sun.os.patch.level = unknown
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] user.dir = /
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.jnu.encoding = UTF-8
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] unsupported.dbms.udc.source = debian
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.management.compiler = HotSpot 64-Bit Tiered Compilers
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] user.home = /var/lib/neo4j
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] user.timezone = Etc/UTC
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] file.encoding = UTF-8
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] user.name = neo4j
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.java.command = org.neo4j.server.CommunityEntryPoint --home-dir=/var/lib/neo4j --config-dir=/etc/neo4j
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.arch.data.model = 64
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] user.language = en
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] awt.toolkit = sun.awt.X11.XToolkit
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] jdk.tls.ephemeralDHKeySize = 2048
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] file.separator = /
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.io.unicode.encoding = UnicodeLittle
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.cpu.endian = little
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] sun.cpu.isalist = 
2018-07-13 11:46:22.241+0000 INFO [o.n.k.i.DiagnosticsManager] Linux scheduler information:
2018-07-13 11:46:22.246+0000 INFO [o.n.k.i.DiagnosticsManager] none
....
2018-07-13 11:46:22.251+0000 INFO [o.n.k.i.DiagnosticsManager] none
2018-07-13 11:46:22.251+0000 INFO [o.n.k.i.DiagnosticsManager] Network information:
2018-07-13 11:46:22.252+0000 INFO [o.n.k.i.DiagnosticsManager] Interface eth0:
2018-07-13 11:46:22.252+0000 INFO [o.n.k.i.DiagnosticsManager]     address: fe80:0:0:0:4d8:83ff:fe41:b7cc%eth0
2018-07-13 11:46:22.252+0000 INFO [o.n.k.i.DiagnosticsManager]     address: 172.31.24.163
2018-07-13 11:46:22.253+0000 INFO [o.n.k.i.DiagnosticsManager] Interface lo:
2018-07-13 11:46:22.253+0000 INFO [o.n.k.i.DiagnosticsManager]     address: 0:0:0:0:0:0:0:1%lo
2018-07-13 11:46:22.253+0000 INFO [o.n.k.i.DiagnosticsManager]     address: 127.0.0.1
2018-07-13 11:46:22.253+0000 INFO [o.n.k.i.DiagnosticsManager] --- INITIALIZED diagnostics END ---
2018-07-13 11:46:22.395+0000 INFO [o.n.b.v.r.WorkerFactory] Bolt Server extension loaded.
2018-07-13 11:46:22.395+0000 INFO [o.n.b.v.r.WorkerFactory] Bolt enabled on 0.0.0.0:7288.
2018-07-13 11:46:22.651+0000 INFO [o.n.k.i.s.f.RecordFormatSelector] Selected RecordFormat:StandardV3_2[v0.A.8] record format from store /var/lib/neo4j/data/databases/graph.db
2018-07-13 11:46:22.674+0000 INFO [o.n.k.i.s.f.RecordFormatSelector] Selected RecordFormat:StandardV3_2[v0.A.8] record format from store /var/lib/neo4j/data/databases/graph.db
2018-07-13 11:46:22.674+0000 INFO [o.n.k.i.s.f.RecordFormatSelector] Format not configured. Selected format from the store: RecordFormat:StandardV3_2[v0.A.8]
2018-07-13 11:46:23.384+0000 INFO [o.n.k.i.a.i.IndexingService] IndexingService.init: indexes not specifically mentioned above are ONLINE
2018-07-13 11:46:23.391+0000 INFO [o.n.k.NeoStoreDataSource] Commits found after last check point (which is at LogPosition{logVersion=89, byteOffset=8450364}). First txId after last checkpoint: 8788240 
2018-07-13 11:46:23.391+0000 INFO [o.n.k.NeoStoreDataSource] Recovery required from position LogPosition{logVersion=89, byteOffset=8450364}
2018-07-13 11:46:23.446+0000 ERROR [o.n.k.i.DatabaseHealth] Database panic: The database has encountered a critical error, and needs to be restarted. Please see database logs for more details. Failed to apply transaction: null
org.neo4j.kernel.api.exceptions.TransactionApplyKernelException: Failed to apply transaction: null
    at org.neo4j.kernel.impl.storageengine.impl.recordstorage.RecordStorageEngine.apply(RecordStorageEngine.java:334)
    at org.neo4j.kernel.recovery.DefaultRecoverySPI.lambda$getRecoveryApplier$0(DefaultRecoverySPI.java:86)
    at org.neo4j.kernel.impl.api.TransactionQueue.empty(TransactionQueue.java:68)
    at org.neo4j.kernel.recovery.DefaultRecoverySPI$RecoveryVisitor.close(DefaultRecoverySPI.java:143)
    at org.neo4j.kernel.recovery.Recovery.init(Recovery.java:133)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.init(LifeSupport.java:406)
    at org.neo4j.kernel.lifecycle.LifeSupport.init(LifeSupport.java:62)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:98)
    at org.neo4j.kernel.NeoStoreDataSource.start(NeoStoreDataSource.java:524)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:445)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
    at org.neo4j.kernel.impl.transaction.state.DataSourceManager.start(DataSourceManager.java:100)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:445)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
    at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.initFacade(GraphDatabaseFacadeFactory.java:207)
    at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.newFacade(GraphDatabaseFacadeFactory.java:126)
    at org.neo4j.server.CommunityNeoServer.lambda$static$0(CommunityNeoServer.java:58)
    at org.neo4j.server.database.LifecycleManagingDatabase.start(LifecycleManagingDatabase.java:88)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:445)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
    at org.neo4j.server.AbstractNeoServer.start(AbstractNeoServer.java:211)
    at org.neo4j.server.ServerBootstrapper.start(ServerBootstrapper.java:111)
    at org.neo4j.server.ServerBootstrapper.start(ServerBootstrapper.java:79)
    at org.neo4j.server.CommunityEntryPoint.main(CommunityEntryPoint.java:32)
Caused by: java.io.IOException: Failed to flush index updates
    at org.neo4j.kernel.impl.transaction.command.IndexBatchTransactionApplier.applyPendingLabelAndIndexUpdates(IndexBatchTransactionApplier.java:103)
    at org.neo4j.kernel.impl.transaction.command.IndexBatchTransactionApplier.close(IndexBatchTransactionApplier.java:124)
    at org.neo4j.kernel.impl.api.BatchTransactionApplierFacade.close(BatchTransactionApplierFacade.java:70)
    at org.neo4j.kernel.impl.storageengine.impl.recordstorage.RecordStorageEngine.apply(RecordStorageEngine.java:331)
    ... 23 more
Caused by: java.util.concurrent.ExecutionException: org.neo4j.kernel.impl.store.UnderlyingStorageException: IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}
    at org.neo4j.concurrent.WorkSync.checkFailure(WorkSync.java:182)
    at org.neo4j.concurrent.WorkSync.apply(WorkSync.java:91)
    at org.neo4j.kernel.impl.transaction.command.IndexBatchTransactionApplier.applyPendingLabelAndIndexUpdates(IndexBatchTransactionApplier.java:99)
    ... 26 more
Caused by: org.neo4j.kernel.impl.store.UnderlyingStorageException: IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}
    at org.neo4j.kernel.impl.transaction.command.IndexUpdatesWork.apply(IndexUpdatesWork.java:67)
    at org.neo4j.kernel.impl.transaction.command.IndexUpdatesWork.apply(IndexUpdatesWork.java:42)
    at org.neo4j.concurrent.WorkSync.doSynchronizedWork(WorkSync.java:231)
    at org.neo4j.concurrent.WorkSync.tryDoWork(WorkSync.java:157)
    ... 28 more
Caused by: IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.assertNoConflict(NativeSchemaNumberIndexUpdater.java:148)
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.processAdd(NativeSchemaNumberIndexUpdater.java:138)
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.processUpdate(NativeSchemaNumberIndexUpdater.java:93)
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.process(NativeSchemaNumberIndexUpdater.java:65)
    at org.neo4j.kernel.impl.index.schema.fusion.FusionIndexUpdater.process(FusionIndexUpdater.java:48)
    at org.neo4j.kernel.impl.api.index.IndexingService.processUpdate(IndexingService.java:454)
    at org.neo4j.kernel.impl.api.index.IndexingService.apply(IndexingService.java:417)
    at org.neo4j.kernel.impl.api.index.IndexingService.apply(IndexingService.java:397)
    at org.neo4j.kernel.impl.transaction.command.IndexUpdatesWork.apply(IndexUpdatesWork.java:63)
    ... 31 more
2018-07-13 11:46:23.485+0000 WARN [o.n.k.NeoStoreDataSource] Exception occurred while starting the datasource. Attempting to close things down. Component 'org.neo4j.kernel.recovery.Recovery@4038cd3a' failed to initialize. Please see the attached cause exception "Both node 12156867 and node 12167147 share the property value ( Long(9) )".
org.neo4j.kernel.lifecycle.LifecycleException: Component 'org.neo4j.kernel.recovery.Recovery@4038cd3a' failed to initialize. Please see the attached cause exception "Both node 12156867 and node 12167147 share the property value ( Long(9) )".
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.init(LifeSupport.java:427)
    at org.neo4j.kernel.lifecycle.LifeSupport.init(LifeSupport.java:62)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:98)
    at org.neo4j.kernel.NeoStoreDataSource.start(NeoStoreDataSource.java:524)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:445)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
    at org.neo4j.kernel.impl.transaction.state.DataSourceManager.start(DataSourceManager.java:100)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:445)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
    at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.initFacade(GraphDatabaseFacadeFactory.java:207)
    at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.newFacade(GraphDatabaseFacadeFactory.java:126)
    at org.neo4j.server.CommunityNeoServer.lambda$static$0(CommunityNeoServer.java:58)
    at org.neo4j.server.database.LifecycleManagingDatabase.start(LifecycleManagingDatabase.java:88)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:445)
    at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
    at org.neo4j.server.AbstractNeoServer.start(AbstractNeoServer.java:211)
    at org.neo4j.server.ServerBootstrapper.start(ServerBootstrapper.java:111)
    at org.neo4j.server.ServerBootstrapper.start(ServerBootstrapper.java:79)
    at org.neo4j.server.CommunityEntryPoint.main(CommunityEntryPoint.java:32)
Caused by: org.neo4j.kernel.api.exceptions.TransactionApplyKernelException: Failed to apply transaction: null
    at org.neo4j.kernel.impl.storageengine.impl.recordstorage.RecordStorageEngine.apply(RecordStorageEngine.java:334)
    at org.neo4j.kernel.recovery.DefaultRecoverySPI.lambda$getRecoveryApplier$0(DefaultRecoverySPI.java:86)
    at org.neo4j.kernel.impl.api.TransactionQueue.empty(TransactionQueue.java:68)
    at org.neo4j.kernel.recovery.DefaultRecoverySPI$RecoveryVisitor.close(DefaultRecoverySPI.java:143)
    at org.neo4j.kernel.recovery.Recovery.init(Recovery.java:133)
    at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.init(LifeSupport.java:406)
    ... 18 more
Caused by: java.io.IOException: Failed to flush index updates
    at org.neo4j.kernel.impl.transaction.command.IndexBatchTransactionApplier.applyPendingLabelAndIndexUpdates(IndexBatchTransactionApplier.java:103)
    at org.neo4j.kernel.impl.transaction.command.IndexBatchTransactionApplier.close(IndexBatchTransactionApplier.java:124)
    at org.neo4j.kernel.impl.api.BatchTransactionApplierFacade.close(BatchTransactionApplierFacade.java:70)
    at org.neo4j.kernel.impl.storageengine.impl.recordstorage.RecordStorageEngine.apply(RecordStorageEngine.java:331)
    ... 23 more
Caused by: java.util.concurrent.ExecutionException: org.neo4j.kernel.impl.store.UnderlyingStorageException: IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}
    at org.neo4j.concurrent.WorkSync.checkFailure(WorkSync.java:182)
    at org.neo4j.concurrent.WorkSync.apply(WorkSync.java:91)
    at org.neo4j.kernel.impl.transaction.command.IndexBatchTransactionApplier.applyPendingLabelAndIndexUpdates(IndexBatchTransactionApplier.java:99)
    ... 26 more
Caused by: org.neo4j.kernel.impl.store.UnderlyingStorageException: IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}
    at org.neo4j.kernel.impl.transaction.command.IndexUpdatesWork.apply(IndexUpdatesWork.java:67)
    at org.neo4j.kernel.impl.transaction.command.IndexUpdatesWork.apply(IndexUpdatesWork.java:42)
    at org.neo4j.concurrent.WorkSync.doSynchronizedWork(WorkSync.java:231)
    at org.neo4j.concurrent.WorkSync.tryDoWork(WorkSync.java:157)
    ... 28 more
Caused by: IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.assertNoConflict(NativeSchemaNumberIndexUpdater.java:148)
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.processAdd(NativeSchemaNumberIndexUpdater.java:138)
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.processUpdate(NativeSchemaNumberIndexUpdater.java:93)
    at org.neo4j.kernel.impl.index.schema.NativeSchemaNumberIndexUpdater.process(NativeSchemaNumberIndexUpdater.java:65)
    at org.neo4j.kernel.impl.index.schema.fusion.FusionIndexUpdater.process(FusionIndexUpdater.java:48)
    at org.neo4j.kernel.impl.api.index.IndexingService.processUpdate(IndexingService.java:454)
    at org.neo4j.kernel.impl.api.index.IndexingService.apply(IndexingService.java:417)
    at org.neo4j.kernel.impl.api.index.IndexingService.apply(IndexingService.java:397)
    at org.neo4j.kernel.impl.transaction.command.IndexUpdatesWork.apply(IndexUpdatesWork.java:63)
    ... 31 more
2018-07-13 11:46:23.486+0000 INFO [o.n.k.i.DiagnosticsManager] --- STOPPING diagnostics START ---
2018-07-13 11:46:23.487+0000 INFO [o.n.k.i.DiagnosticsManager] --- STOPPING diagnostics END ---
2018-07-13 11:46:23.487+0000 INFO [o.n.k.i.f.GraphDatabaseFacadeFactory] Shutdown started
2018-07-13 11:46:25.812+0000 INFO [o.n.k.i.f.CommunityEditionModule] No locking implementation specified, defaulting to 'community'

看来这里的关键线是：

Database panic: The database has encountered a critical error, and needs to be restarted. Please see database logs for more details. Failed to apply transaction: null
org.neo4j.kernel.api.exceptions.TransactionApplyKernelException: Failed to apply transaction: null

我找不到任何有关此的信息。

Ubuntu 服务器 16.04

Neo4j 3.3.1

内存 16GB

硬盘 16GB

硬盘可用空间：9.4GB

内存配置：

dbms.memory.heap.initial_size=5g

dbms.memory.heap.max_size=5g

dbms.memory.pagecache.size=9g

实际图表使用情况（按此处计算）：

Lucene 索引：66MB

页面大小：3.6GB + 3.6GB = 7.2G

该错误发生在我设置内存配置之前（在它是默认值之前），并且在我设置内存配置之后仍然发生。

我再也无法从数据库中获得任何服务，因为它无法启动。我需要更多内存吗？还有什么我应该考虑的。

标签： ubuntuneo4j

Answer 1

在启动过程中，neo4j 试图应用文件系统上的最后一个事务，但它失败了！

为什么 ？因为您的索引有问题：IndexEntryConflictException{propertyValues=( Long(9) ), addedNodeId=12167147, existingNodeId=12156867}

所以你可以尝试删除index和schema文件夹，然后启动 Neo4j。