Neo4j批量導入“ neo4j-admin import” OutOfMemoryError：Java堆空間和OutOfMemoryError：超出了GC開銷限制

Question

我的單機可用資源是：

Total machine memory: 2.00 TB
Free machine memory: 1.81 TB
Max heap memory : 910.50 MB
Processors: 192
Configured max memory: 1.63 TB

我的file1.csv文件大小為600GB

我的csv文件中的條目數= 3000000

標題結構

attempt1 
item_col1:ID(label),item_col2,item_col3:IGNORE,item_col4:IGNORE,item_col5,item_col6,item_col7,item_col8:IGNORE
Attempt2
item_col1:ID,item_col2,item_col3:IGNORE,item_col4:IGNORE,item_col5,item_col6,item_col7,item_col8:IGNORE
Attempt3
item_col1:ID,item_col2,item_col3:IGNORE,item_col4:IGNORE,item_col5:LABEL,item_col6,item_col7,item_col8:IGNORE`

Neo4j版本：3.2.1

嘗試過配置組合1

 cat ../conf/neo4j.conf | grep "memory"
 dbms.memory.heap.initial_size=16000m
 dbms.memory.heap.max_size=16000m
 dbms.memory.pagecache.size=40g

嘗試過配置組合2

cat ../conf/neo4j.conf | grep "memory"
dbms.memory.heap.initial_size=900m
dbms.memory.heap.max_size=900m
dbms.memory.pagecache.size=4g

嘗試過配置組合3

dbms.memory.heap.initial_size=1000m
dbms.memory.heap.max_size=1000m
dbms.memory.pagecache.size=1g

嘗試過配置組合4

dbms.memory.heap.initial_size=10g
dbms.memory.heap.max_size=10g 
dbms.memory.pagecache.size=10g

嘗試使用配置組合5（已注釋）（無輸出）

   # dbms.memory.heap.initial_size=10g
   # dbms.memory.heap.max_size=10g 
   # dbms.memory.pagecache.size=10g

嘗試過的命令

kaushik@machine1:/neo4j/import$ cl
kaushik@machine1:/neo4j/import$ rm -r ../data/databases/
kaushik@machine1:/neo4j/import$ mkdir ../data/databases/
kaushik@machine1:/neo4j/import$ cat ../conf/neo4j.conf | grep active
dbms.active_database=graph.db


kaushik@machine1:/neo4j/import$ ../bin/neo4j-admin import --mode csv --    database social.db --nodes head.csv,file1.csv
Neo4j version: 3.2.1
Importing the contents of these files into /neo4j/data/databases/social.db:
Nodes:
  /neo4j/import/head.csv
  /neo4j/import/file1.csv



Available resources:
Total machine memory: 2.00 TB
Free machine memory: 1.79 TB
Max heap memory : 910.50 MB
Processors: 192
Configured max memory: 1.61 TB

錯誤1

Nodes, started 2017-07-14 05:32:51.736+0000
[*NODE:7.63 MB---------------------------------------------------|PROPERTIE|LABEL SCAN--------]    0 ?    0
Done in 40s 439ms
Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded
at org.neo4j.csv.reader.Extractors$StringArrayExtractor.extract0(Extractors.java:739)
at org.neo4j.csv.reader.Extractors$ArrayExtractor.extract(Extractors.java:680)
at org.neo4j.csv.reader.BufferedCharSeeker.tryExtract(BufferedCharSeeker.java:239)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.deserializeNextFromSource(InputEntityDeserializer.java:138)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:77)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:41)
at org.neo4j.helpers.collection.PrefetchingIterator.peek(PrefetchingIterator.java:60)
at org.neo4j.helpers.collection.PrefetchingIterator.hasNext(PrefetchingIterator.java:46)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer.lambda$new$0(ParallelInputEntityDeserializer.java:106)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer$$Lambda$150/1372918763.apply(Unknown Source)
at org.neo4j.unsafe.impl.batchimport

錯誤2

Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded
at org.neo4j.csv.reader.Extractors$StringArrayExtractor.extract0(Extractors.java:739)
at org.neo4j.csv.reader.Extractors$ArrayExtractor.extract(Extractors.java:680)
at org.neo4j.csv.reader.BufferedCharSeeker.tryExtract(BufferedCharSeeker.java:239)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.deserializeNextFromSource(InputEntityDeserializer.java:138)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:77)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:41)
at org.neo4j.helpers.collection.PrefetchingIterator.peek(PrefetchingIterator.java:60)
at org.neo4j.helpers.collection.PrefetchingIterator.hasNext(PrefetchingIterator.java:46)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer.lambda$new$0(ParallelInputEntityDeserializer.java:106)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer$$Lambda$150/1372918763.apply(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing.lambda$submit$0(TicketedProcessing.java:110)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing$$Lambda$154/1949503798.run(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.executor.DynamicTaskExecutor$Processor.run(DynamicTaskExecutor.java:237)

錯誤3

Nodes, started 2017-07-14 05:39:48.602+0000
[NODE:7.63 MB-----------------------------------------------|PROPER|*LABEL SCAN---------------]    0 ?    0
Done in 42s 140ms
Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded
at java.util.Arrays.copyOfRange(Arrays.java:3664)
at java.lang.String.<init>(String.java:207)
at org.neo4j.csv.reader.Extractors$StringExtractor.extract0(Extractors.java:328)
at org.neo4j.csv.reader.Extractors$AbstractSingleValueExtractor.extract(Extractors.java:287)
at org.neo4j.csv.reader.BufferedCharSeeker.tryExtract(BufferedCharSeeker.java:239)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.deserializeNextFromSource(InputEntityDeserializer.java:138)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:77)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:41)
at org.neo4j.helpers.collection.PrefetchingIterator.peek(PrefetchingIterator.java:60)
at org.neo4j.helpers.collection.PrefetchingIterator.hasNext(PrefetchingIterator.java:46)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer.lambda$new$0(ParallelInputEntityDeserializer.java:106)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer$$Lambda$150/310855317.apply(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing.lambda$submit$0(TicketedProcessing.java:110)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing$$Lambda$154/679112060.run(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.executor.DynamicTaskExecutor$Processor.run(DynamicTaskExecutor.java:237)

錯誤4

Exception in thread "main" java.lang.OutOfMemoryError: GC overhead limit exceeded
at org.neo4j.csv.reader.Extractors$StringExtractor.extract0(Extractors.java:328)
at org.neo4j.csv.reader.Extractors$AbstractSingleValueExtractor.extract(Extractors.java:287)
at org.neo4j.csv.reader.BufferedCharSeeker.tryExtract(BufferedCharSeeker.java:239)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.deserializeNextFromSource(InputEntityDeserializer.java:138)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:77)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:41)
at org.neo4j.helpers.collection.PrefetchingIterator.peek(PrefetchingIterator.java:60)
at org.neo4j.helpers.collection.PrefetchingIterator.hasNext(PrefetchingIterator.java:46)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer.lambda$new$0(ParallelInputEntityDeserializer.java:106)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer$$Lambda$118/69048864.apply(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing.lambda$submit$0(TicketedProcessing.java:110)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing$$Lambda$122/951451297.run(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.executor.DynamicTaskExecutor$Processor.run(DynamicTaskExecutor.java:237) 

錯誤5

Exception in thread "main" java.lang.OutOfMemoryError: Java heap space
at java.util.Arrays.copyOfRange(Arrays.java:3664)
at java.lang.String.<init>(String.java:207)
at org.neo4j.csv.reader.Extractors$StringExtractor.extract0(Extractors.java:328)
at org.neo4j.csv.reader.Extractors$AbstractSingleValueExtractor.extract(Extractors.java:287)
at org.neo4j.csv.reader.BufferedCharSeeker.tryExtract(BufferedCharSeeker.java:239)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.deserializeNextFromSource(InputEntityDeserializer.java:138)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:77)
at org.neo4j.unsafe.impl.batchimport.input.csv.InputEntityDeserializer.fetchNextOrNull(InputEntityDeserializer.java:41)
at org.neo4j.helpers.collection.PrefetchingIterator.peek(PrefetchingIterator.java:60)
at org.neo4j.helpers.collection.PrefetchingIterator.hasNext(PrefetchingIterator.java:46)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer.lambda$new$0(ParallelInputEntityDeserializer.java:106)
at org.neo4j.unsafe.impl.batchimport.input.csv.ParallelInputEntityDeserializer$$Lambda$118/950986004.apply(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing.lambda$submit$0(TicketedProcessing.java:110)
at org.neo4j.unsafe.impl.batchimport.staging.TicketedProcessing$$Lambda$122/151277029.run(Unknown Source)
at org.neo4j.unsafe.impl.batchimport.executor.DynamicTaskExecutor$Processor.run(DynamicTaskExecutor.java:237)

一般而言，如果您可以解釋第9章，性能9.1。 通過示例進行內存調優，這對很多初學者將很有幫助。 https://neo4j.com/docs/operations-manual/current/performance/

您能否舉一個示例來計算一個500 GB的示例數據集的dbms.memory.heap.initial_size，dbms.memory.heap.max_size，dbms.memory.pagecache.size以及在1TB RAM中具有30億條具有10列相等大小的條目的示例數據集機器和100個處理器。

Answer 1

實際上，如果只做節點，則計算非常簡單：

3 * 10^9 * 20 / 1024^3

因此，我將使用至少55Gb的堆大小。 你可以試試看嗎？

問候，湯姆