Convert Java String to sql.Timestamp

Have you tried using Timestamp.valueOf(String)? It looks like it should do almost exactly what you want - you just need to change the separator between your date and time to a space, and the ones between hours and minutes, and minutes and hours, to colons:

import java.sql.*;

public class Test {
    public static void main(String[] args) {
        String text = "2011-10-02 18:48:05.123456";
        Timestamp ts = Timestamp.valueOf(text);
        System.out.println(ts.getNanos());
    }
}

Assuming you've already validated the string length, this will convert to the right format:

static String convertSeparators(String input) {
    char[] chars = input.toCharArray();
    chars[10] = ' ';
    chars[13] = ':';
    chars[16] = ':';
    return new String(chars);
}

Alternatively, parse down to milliseconds by taking a substring and using Joda Time or SimpleDateFormat (I vastly prefer Joda Time, but your mileage may vary). Then take the remainder of the string as another string and parse it with Integer.parseInt. You can then combine the values pretty easily:

Date date = parseDateFromFirstPart();
int micros = parseJustLastThreeDigits();

Timestamp ts = new Timestamp(date.getTime());
ts.setNanos(ts.getNanos() + micros * 1000);

You could use Timestamp.valueOf(String). The documentation states that it understands timestamps in the format yyyy-mm-dd hh:mm:ss[.f...], so you might need to change the field separators in your incoming string.

Then again, if you're going to do that then you could just parse it yourself and use the setNanos method to store the microseconds.