Using JDBC: transfer data from tar.gz to MySQL db is becoming slow after ~200k entries












1















I have been experimenting quite some time during the last days to transform structured (xml) data from a tar.gz (~1.45M distinct files of rather small size) into a more friendly format into a database.



I am not sure what I may disclose of the data or the usecase but I will try my best to explain my efforts.



I have a table with the following columns-types (MySQL; InnoDB):



int(11) PK NN UQ
varchar(150) NN
varchar(400) NN
text
text NN
varchar(45) NN UQ
varchar(80) NN
date NN
text
varchar(300)
varchar(300)
varchar(500)
varchar(260)
varchar(200)
varchar(45)


Iterating through the entire tar just looking at the data + parsing takes roughly 90 seconds +/-:



try (TarArchiveInputStream tarArchiveInputStream =
new TarArchiveInputStream(
new BufferedInputStream(
new GzipCompressorInputStream(
new FileInputStream(tarLocation))))){

...
while ((entry = tarArchiveInputStream.getNextTarEntry()) != null && processedTarEntries < maxNumber) {
...PARSING + SOME STATISTICS....
}
}


I hope the following piece of code is sufficient insight into my iteration-process; if not I will try to provide more (totalCount is used in this example to generate the artificial id). The prepared statement is a "normal" INSERT INTO statement.



setPreparedStatementValues(preparedStatement, record, totalCount[0]++);

preparedStatement.addBatch();

counter[0]++;

if (counter[0] == BATCH_SIZE){
counter[0] = 0;
preparedStatement.executeBatch();
connection.commit();
watch.stop();
System.out.println("Elapsed time for batch " + (totalCount[0] / BATCH_SIZE) + ": " + watch.getTime());
watch.reset();
watch.start();
}


The relevant part of the sout-output is the following (batchsize 5k/10k didn't really make a difference):



Elapsed time for batch 29: 3430
Elapsed time for batch 30: 3400
Elapsed time for batch 31: 3553
Elapsed time for batch 32: 3405
Elapsed time for batch 33: 3509
Elapsed time for batch 34: 3544
Elapsed time for batch 35: 6124
Elapsed time for batch 36: 5273
Elapsed time for batch 37: 9171
Elapsed time for batch 38: 8922
Elapsed time for batch 39: 24878
Elapsed time for batch 40: 68124
Elapsed time for batch 41: 70886
Elapsed time for batch 42: 78856
Elapsed time for batch 43: 80879
Elapsed time for batch 44: 85223
Elapsed time for batch 45: 92639
Elapsed time for batch 46: 80106


Time seems to be linear until somewhere short before the 40th batch and explodes after that. This output is from an experiment with 300k entries max but where I tried to split it into two seperate runs of 150k entries each. The output is very similar to trying to do all 300k in one go.



I would be very grateful for suggestions what I may be doing wrong if I am or suggestions how to speed this up!










share|improve this question



























    1















    I have been experimenting quite some time during the last days to transform structured (xml) data from a tar.gz (~1.45M distinct files of rather small size) into a more friendly format into a database.



    I am not sure what I may disclose of the data or the usecase but I will try my best to explain my efforts.



    I have a table with the following columns-types (MySQL; InnoDB):



    int(11) PK NN UQ
    varchar(150) NN
    varchar(400) NN
    text
    text NN
    varchar(45) NN UQ
    varchar(80) NN
    date NN
    text
    varchar(300)
    varchar(300)
    varchar(500)
    varchar(260)
    varchar(200)
    varchar(45)


    Iterating through the entire tar just looking at the data + parsing takes roughly 90 seconds +/-:



    try (TarArchiveInputStream tarArchiveInputStream =
    new TarArchiveInputStream(
    new BufferedInputStream(
    new GzipCompressorInputStream(
    new FileInputStream(tarLocation))))){

    ...
    while ((entry = tarArchiveInputStream.getNextTarEntry()) != null && processedTarEntries < maxNumber) {
    ...PARSING + SOME STATISTICS....
    }
    }


    I hope the following piece of code is sufficient insight into my iteration-process; if not I will try to provide more (totalCount is used in this example to generate the artificial id). The prepared statement is a "normal" INSERT INTO statement.



    setPreparedStatementValues(preparedStatement, record, totalCount[0]++);

    preparedStatement.addBatch();

    counter[0]++;

    if (counter[0] == BATCH_SIZE){
    counter[0] = 0;
    preparedStatement.executeBatch();
    connection.commit();
    watch.stop();
    System.out.println("Elapsed time for batch " + (totalCount[0] / BATCH_SIZE) + ": " + watch.getTime());
    watch.reset();
    watch.start();
    }


    The relevant part of the sout-output is the following (batchsize 5k/10k didn't really make a difference):



    Elapsed time for batch 29: 3430
    Elapsed time for batch 30: 3400
    Elapsed time for batch 31: 3553
    Elapsed time for batch 32: 3405
    Elapsed time for batch 33: 3509
    Elapsed time for batch 34: 3544
    Elapsed time for batch 35: 6124
    Elapsed time for batch 36: 5273
    Elapsed time for batch 37: 9171
    Elapsed time for batch 38: 8922
    Elapsed time for batch 39: 24878
    Elapsed time for batch 40: 68124
    Elapsed time for batch 41: 70886
    Elapsed time for batch 42: 78856
    Elapsed time for batch 43: 80879
    Elapsed time for batch 44: 85223
    Elapsed time for batch 45: 92639
    Elapsed time for batch 46: 80106


    Time seems to be linear until somewhere short before the 40th batch and explodes after that. This output is from an experiment with 300k entries max but where I tried to split it into two seperate runs of 150k entries each. The output is very similar to trying to do all 300k in one go.



    I would be very grateful for suggestions what I may be doing wrong if I am or suggestions how to speed this up!










    share|improve this question

























      1












      1








      1








      I have been experimenting quite some time during the last days to transform structured (xml) data from a tar.gz (~1.45M distinct files of rather small size) into a more friendly format into a database.



      I am not sure what I may disclose of the data or the usecase but I will try my best to explain my efforts.



      I have a table with the following columns-types (MySQL; InnoDB):



      int(11) PK NN UQ
      varchar(150) NN
      varchar(400) NN
      text
      text NN
      varchar(45) NN UQ
      varchar(80) NN
      date NN
      text
      varchar(300)
      varchar(300)
      varchar(500)
      varchar(260)
      varchar(200)
      varchar(45)


      Iterating through the entire tar just looking at the data + parsing takes roughly 90 seconds +/-:



      try (TarArchiveInputStream tarArchiveInputStream =
      new TarArchiveInputStream(
      new BufferedInputStream(
      new GzipCompressorInputStream(
      new FileInputStream(tarLocation))))){

      ...
      while ((entry = tarArchiveInputStream.getNextTarEntry()) != null && processedTarEntries < maxNumber) {
      ...PARSING + SOME STATISTICS....
      }
      }


      I hope the following piece of code is sufficient insight into my iteration-process; if not I will try to provide more (totalCount is used in this example to generate the artificial id). The prepared statement is a "normal" INSERT INTO statement.



      setPreparedStatementValues(preparedStatement, record, totalCount[0]++);

      preparedStatement.addBatch();

      counter[0]++;

      if (counter[0] == BATCH_SIZE){
      counter[0] = 0;
      preparedStatement.executeBatch();
      connection.commit();
      watch.stop();
      System.out.println("Elapsed time for batch " + (totalCount[0] / BATCH_SIZE) + ": " + watch.getTime());
      watch.reset();
      watch.start();
      }


      The relevant part of the sout-output is the following (batchsize 5k/10k didn't really make a difference):



      Elapsed time for batch 29: 3430
      Elapsed time for batch 30: 3400
      Elapsed time for batch 31: 3553
      Elapsed time for batch 32: 3405
      Elapsed time for batch 33: 3509
      Elapsed time for batch 34: 3544
      Elapsed time for batch 35: 6124
      Elapsed time for batch 36: 5273
      Elapsed time for batch 37: 9171
      Elapsed time for batch 38: 8922
      Elapsed time for batch 39: 24878
      Elapsed time for batch 40: 68124
      Elapsed time for batch 41: 70886
      Elapsed time for batch 42: 78856
      Elapsed time for batch 43: 80879
      Elapsed time for batch 44: 85223
      Elapsed time for batch 45: 92639
      Elapsed time for batch 46: 80106


      Time seems to be linear until somewhere short before the 40th batch and explodes after that. This output is from an experiment with 300k entries max but where I tried to split it into two seperate runs of 150k entries each. The output is very similar to trying to do all 300k in one go.



      I would be very grateful for suggestions what I may be doing wrong if I am or suggestions how to speed this up!










      share|improve this question














      I have been experimenting quite some time during the last days to transform structured (xml) data from a tar.gz (~1.45M distinct files of rather small size) into a more friendly format into a database.



      I am not sure what I may disclose of the data or the usecase but I will try my best to explain my efforts.



      I have a table with the following columns-types (MySQL; InnoDB):



      int(11) PK NN UQ
      varchar(150) NN
      varchar(400) NN
      text
      text NN
      varchar(45) NN UQ
      varchar(80) NN
      date NN
      text
      varchar(300)
      varchar(300)
      varchar(500)
      varchar(260)
      varchar(200)
      varchar(45)


      Iterating through the entire tar just looking at the data + parsing takes roughly 90 seconds +/-:



      try (TarArchiveInputStream tarArchiveInputStream =
      new TarArchiveInputStream(
      new BufferedInputStream(
      new GzipCompressorInputStream(
      new FileInputStream(tarLocation))))){

      ...
      while ((entry = tarArchiveInputStream.getNextTarEntry()) != null && processedTarEntries < maxNumber) {
      ...PARSING + SOME STATISTICS....
      }
      }


      I hope the following piece of code is sufficient insight into my iteration-process; if not I will try to provide more (totalCount is used in this example to generate the artificial id). The prepared statement is a "normal" INSERT INTO statement.



      setPreparedStatementValues(preparedStatement, record, totalCount[0]++);

      preparedStatement.addBatch();

      counter[0]++;

      if (counter[0] == BATCH_SIZE){
      counter[0] = 0;
      preparedStatement.executeBatch();
      connection.commit();
      watch.stop();
      System.out.println("Elapsed time for batch " + (totalCount[0] / BATCH_SIZE) + ": " + watch.getTime());
      watch.reset();
      watch.start();
      }


      The relevant part of the sout-output is the following (batchsize 5k/10k didn't really make a difference):



      Elapsed time for batch 29: 3430
      Elapsed time for batch 30: 3400
      Elapsed time for batch 31: 3553
      Elapsed time for batch 32: 3405
      Elapsed time for batch 33: 3509
      Elapsed time for batch 34: 3544
      Elapsed time for batch 35: 6124
      Elapsed time for batch 36: 5273
      Elapsed time for batch 37: 9171
      Elapsed time for batch 38: 8922
      Elapsed time for batch 39: 24878
      Elapsed time for batch 40: 68124
      Elapsed time for batch 41: 70886
      Elapsed time for batch 42: 78856
      Elapsed time for batch 43: 80879
      Elapsed time for batch 44: 85223
      Elapsed time for batch 45: 92639
      Elapsed time for batch 46: 80106


      Time seems to be linear until somewhere short before the 40th batch and explodes after that. This output is from an experiment with 300k entries max but where I tried to split it into two seperate runs of 150k entries each. The output is very similar to trying to do all 300k in one go.



      I would be very grateful for suggestions what I may be doing wrong if I am or suggestions how to speed this up!







      java mysql jdbc






      share|improve this question













      share|improve this question











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      asked Nov 25 '18 at 11:39









      WolfoneWolfone

      404412




      404412
























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