Program: 5654
Project: 5654
Buggy source:
@Override protected void persist(NavigableMap<byte[],NavigableMap<byte[],Update>> updates) throws Exception {
  if (updates.isEmpty()) {
    return;
  }
  List<Put> puts=Lists.newArrayList();
  for (  Map.Entry<byte[],NavigableMap<byte[],Update>> row : updates.entrySet()) {
    PutBuilder put=tableUtil.buildPut(row.getKey());
    Put incrementPut=null;
    for (    Map.Entry<byte[],Update> column : row.getValue().entrySet()) {
      if (tx != null) {
        Update val=column.getValue();
        if (val instanceof IncrementValue) {
          incrementPut=getIncrementalPut(incrementPut,row.getKey());
          incrementPut.add(columnFamily,column.getKey(),tx.getWritePointer(),Bytes.toBytes(((IncrementValue)val).getValue()));
        }
 else         if (val instanceof PutValue) {
          put.add(columnFamily,column.getKey(),tx.getWritePointer(),wrapDeleteIfNeeded(((PutValue)val).getValue()));
        }
      }
 else {
        Update val=column.getValue();
        if (val instanceof IncrementValue) {
          incrementPut=getIncrementalPut(incrementPut,row.getKey());
          incrementPut.add(columnFamily,column.getKey(),Bytes.toBytes(((IncrementValue)val).getValue()));
        }
 else         if (val instanceof PutValue) {
          put.add(columnFamily,column.getKey(),((PutValue)val).getValue());
        }
      }
    }
    if (incrementPut != null) {
      puts.add(incrementPut);
    }
    if (!put.isEmpty()) {
      puts.add(put.build());
    }
  }
  if (!puts.isEmpty()) {
    hbasePut(puts);
  }
 else {
    LOG.info("String_Node_Str");
  }
}

Fixed version (ground truth):
@Override protected void persist(NavigableMap<byte[],NavigableMap<byte[],Update>> updates) throws Exception {
  if (updates.isEmpty()) {
    return;
  }
  List<Mutation> mutations=new ArrayList<>();
  for (  Map.Entry<byte[],NavigableMap<byte[],Update>> row : updates.entrySet()) {
    PutBuilder put=null;
    PutBuilder incrementPut=null;
    IncrementBuilder increment=null;
    for (    Map.Entry<byte[],Update> column : row.getValue().entrySet()) {
      if (tx != null) {
        Update val=column.getValue();
        if (val instanceof IncrementValue) {
          if (safeReadlessIncrements) {
            increment=getIncrement(increment,row.getKey(),true);
            increment.add(columnFamily,column.getKey(),tx.getWritePointer(),((IncrementValue)val).getValue());
          }
 else {
            incrementPut=getPutForIncrement(incrementPut,row.getKey());
            incrementPut.add(columnFamily,column.getKey(),tx.getWritePointer(),Bytes.toBytes(((IncrementValue)val).getValue()));
          }
        }
 else         if (val instanceof PutValue) {
          put=getPut(put,row.getKey());
          put.add(columnFamily,column.getKey(),tx.getWritePointer(),wrapDeleteIfNeeded(((PutValue)val).getValue()));
        }
      }
 else {
        Update val=column.getValue();
        if (val instanceof IncrementValue) {
          incrementPut=getPutForIncrement(incrementPut,row.getKey());
          incrementPut.add(columnFamily,column.getKey(),Bytes.toBytes(((IncrementValue)val).getValue()));
        }
 else         if (val instanceof PutValue) {
          put=getPut(put,row.getKey());
          put.add(columnFamily,column.getKey(),((PutValue)val).getValue());
        }
      }
    }
    if (incrementPut != null) {
      mutations.add(incrementPut.build());
    }
    if (increment != null) {
      mutations.add(increment.build());
    }
    if (put != null) {
      mutations.add(put.build());
    }
  }
  if (!hbaseFlush(mutations)) {
    LOG.info("String_Node_Str");
  }
}