server/compbio/statistic/CassandraRequester.java

   1 package compbio.statistic;
   2
   3 import java.text.ParseException;
   4 import java.text.SimpleDateFormat;
   5 import java.util.ArrayList;
   6 import java.util.Calendar;
   7 import java.util.Date;
   8 import java.util.List;
   9
  10 import compbio.cassandra.CassandraNativeConnector;
  11 import compbio.cassandra.DataBase;
  12 import compbio.cassandra.Pair;
  13
  14 public class CassandraRequester {
  15         private CassandraNativeConnector DBInstance = new CassandraNativeConnector();
  16         private ArrayList<DataBase> query;
  17         private static long currentDate = 0;
  18         private static long earlestDate = 0;
  19
  20         /*
  21          * query: execution time for the period from date1 till date2
  22          */
  23         public List<DataBase> extractExecutionTime(String date1, String date2) {
  24                 if (null == date1) {
  25                         date1 = "1970/1/1";
  26                 }
  27                 if (null == date2) {
  28                         date1 = "2100/1/1";
  29                 }
  30                 if (!isThisDateValid(date1) || !isThisDateValid(date2)) {
  31                         System.out.println("Wrong date: point 3");
  32                         return null;
  33                 }
  34                 SetDateRange();
  35                 int nbins = 5;
  36                 long dateStart = DateParsing(date1);
  37                 long dateEnd = DateParsing(date2);
  38                 if (dateEnd < earlestDate || dateStart > currentDate || dateStart > dateEnd)
  39                         return null;
  40                 if (dateStart < earlestDate)
  41                         dateStart = earlestDate;
  42                 if (dateEnd > currentDate)
  43                         dateStart = currentDate;
  44
  45                 Calendar start = Calendar.getInstance();
  46                 start.setTime(new Date(dateStart));
  47                 Calendar end = Calendar.getInstance();
  48                 end.setTime(new Date(dateEnd));
  49                 query = new ArrayList<DataBase>();
  50                 List<Integer> totalTime = new ArrayList<Integer>();
  51                 for (int i = 0; i < nbins; i++)
  52                         totalTime.add(i, 0);
  53                 List<Pair<String, String>> res = DBInstance.ReadProteinDataTable();
  54                 List<Pair<Date, Long>> numres = new ArrayList<Pair<Date, Long>>();
  55
  56                 for (Pair<String, String> entry : res) {
  57                         SimpleDateFormat dateformatter = new SimpleDateFormat("yyyy/MM/dd");
  58                         try {
  59                                 Date jobstartdate = dateformatter.parse(entry.getElement0());
  60                                 long date = jobstartdate.getTime();
  61                                 if (dateStart <= date && date <= dateEnd) {
  62                                         SimpleDateFormat datetimeformatter = new SimpleDateFormat("yyyy/MM/dd:H:m:s");
  63                                         Date jobstarttime = datetimeformatter.parse(entry.getElement0());
  64                                         Date jobendtime = datetimeformatter.parse(entry.getElement1());
  65                                         long diff = (jobendtime.getTime() - jobstarttime.getTime()) / 1000;
  66                                         Pair<Date, Long> pair = new Pair<Date, Long>(jobstartdate, Long.valueOf(diff));
  67                                         numres.add(pair);
  68                                 }
  69                         } catch (ParseException e) {
  70                                 e.printStackTrace();
  71                         }
  72                 }
  73
  74                 for (Date date = start.getTime(); !start.after(end); start.add(Calendar.DATE, 1), date = start.getTime()) {
  75                         List<Integer> timeResult = new ArrayList<Integer>();
  76                         for (int i = 0; i < nbins; i++)
  77                                 timeResult.add(i, 0);
  78                         for (Pair<Date, Long> p : numres) {
  79                                 if (date.equals(p.getElement0())) {
  80                                         long lenResult = p.getElement1().longValue();
  81                                         if (lenResult <= 30)
  82                                                 timeResult.set(0, timeResult.get(0) + 1);
  83                                         else if (lenResult > 30 && lenResult <= 60)
  84                                                 timeResult.set(1, timeResult.get(1) + 1);
  85                                         else if (lenResult > 60 && lenResult <= 120)
  86                                                 timeResult.set(2, timeResult.get(2) + 1);
  87                                         else if (lenResult > 120 && lenResult <= 600)
  88                                                 timeResult.set(3, timeResult.get(3) + 1);
  89                                         else {
  90                                                 timeResult.set(4, timeResult.get(4) + 1);
  91                                         }
  92                                 }
  93                         }
  94                         for (int i = 0; i < nbins; i++)
  95                                 totalTime.set(i, totalTime.get(i) + timeResult.get(i));
  96                         DataBase db = new DataBase();
  97                         db.setTimeRez(timeResult);
  98                         db.setDate(DateFormat(date.getTime()));
  99                         query.add(db);
 100                 }
 101
 102                 DataBase db = new DataBase();
 103                 db.setTimeTotalExec(totalTime);
 104                 query.add(db);
 105                 System.out.println("StatisticsProt.readLength: total number of dates = " + query.size());
 106                 return query;
 107         }
 108
 109         /*
 110          * convert String date into long date (miliseconds since the epoch start)
 111          */
 112         private static long DateParsing(String datInput) {
 113                 if (datInput == null) {
 114                         return 0;
 115                 }
 116                 long dateWorkSt = 0;
 117                 SimpleDateFormat formatter = new SimpleDateFormat("yyyy/MM/dd");
 118                 try {
 119                         dateWorkSt = formatter.parse(datInput).getTime();
 120                 } catch (ParseException e) {
 121                         e.printStackTrace();
 122                 }
 123                 return dateWorkSt;
 124         }
 125
 126         // convert long to date in string format
 127         private static String DateFormat(long inDate) {
 128                 SimpleDateFormat datformat = new SimpleDateFormat("dd/MM/yyyy");
 129                 return datformat.format(new Date(inDate));
 130         }
 131
 132         /*
 133          * set earlest date and current dates. earlestDate is static and should be
 134          * set at the 1st call currentDate should be re-calculated every time
 135          */
 136         private static void SetDateRange() {
 137                 Calendar cal = Calendar.getInstance();
 138                 currentDate = DateParsing(cal.get(Calendar.YEAR) + "/" + (cal.get(Calendar.MONTH) + 1) + "/" + cal.get(Calendar.DAY_OF_MONTH));
 139                 if (0 == earlestDate) {
 140                         CassandraRequester cr = new CassandraRequester();
 141                         earlestDate = cr.earliestDate();
 142                         System.out.println("Set earlest Date = " + earlestDate);
 143                 }
 144         }
 145
 146         public boolean isThisDateValid(String dateToValidate) {
 147                 if (dateToValidate == null || dateToValidate.equals("")) {
 148                         System.out.println("Undefined date");
 149                         return false;
 150                 }
 151                 SimpleDateFormat sdf = new SimpleDateFormat("yyyy/MM/dd");
 152                 try {
 153                         // if not valid, this will throw ParseException
 154                         sdf.setLenient(false);
 155                         Date date = sdf.parse(dateToValidate);
 156                 } catch (ParseException e) {
 157                         e.printStackTrace();
 158                         return false;
 159                 }
 160                 return true;
 161         }
 162
 163         /*
 164          * find the earliest date in the database
 165          */
 166         public long earliestDate() {
 167                 earlestDate =  DBInstance.getEarliestDateInDB();
 168                 return earlestDate;
 169         }
 170 }