package compbio.cassandra;
+import java.text.ParseException;
+import java.text.SimpleDateFormat;
+import java.util.Calendar;
+import java.util.Date;
+import java.util.List;
+
import org.apache.log4j.Logger;
import com.datastax.driver.core.ResultSet;
public class CassandraRemover {
private Session session;
+ static SimpleDateFormat dateformatter = new SimpleDateFormat("yyyy/MM/dd");
private static Logger log = Logger.getLogger(CassandraNativeConnector.class);
public CassandraRemover() {
}
/*
- * getting a record from CF for current jobId
+ * delete a record from CF for current jobId
*/
- public StructureJobLog ReadJobLog(String jobid) {
- final long startTime = System.currentTimeMillis();
- String com = "SELECT Protein, StartTime FROM ProteinLog WHERE JobID = '" + jobid + "';";
+ private void RemoveJob(String jobid, long date) {
+ String com0 = "DELETE FROM ProteinLog WHERE JobID = '" + jobid + "';";
+ System.out.println("Command: " + com0);
+ session.execute(com0);
+ String com1 = "DELETE FROM ProteinRow WHERE JobID = '" + jobid + "';";
+ System.out.println("Command: " + com1);
+ session.execute(com1);
+ String com2 = "DELETE FROM ProteinData WHERE JobID = '" + jobid + "' AND jobtime = " + date + ";";
+ System.out.println("Command: " + com2);
+ session.execute(com2);
+ String com3 = "UPDATE jpredarchive SET finalstatus = 'DELETED' WHERE JobID = '" + jobid + "' ;";
+ System.out.println("Command: " + com3);
+ session.execute(com3);
+ String com = "SELECT total FROM JobDateInfo WHERE jobday = " + date + ";";
+ System.out.println("Command: " + com);
+ ResultSet results = session.execute(com);
+ long njobs = results.one().getLong("total");
+ System.out.println("njobs: " + njobs);
+ String com4 = "INSERT INTO JobDateInfo " + "(jobday, Total)" + " VALUES (" + date + "," + (njobs -1) + ");";
+ System.out.println("Command: " + com4);
+ session.execute(com4);
+ System.out.println("Remove jobs: " + jobid);
+ }
+
+ public void RemoveJobById (String jobid) {
+ if (jobid == null)
+ return;
+ Long date = FindDate(jobid);
+ if (date == null)
+ return;
+ RemoveJob(jobid, date);
+ }
+
+ public void RemoveJobByDate (String date1, String date2) {
+ System.out.println("Start " + date1 + ", " + date2);
+ if (date1 == null || date2 == null)
+ return;
+ Long dateBegin = convertDate(date1);
+ Long dateEnd = convertDate(date2);
+ System.out.println("Date to long done!: ");
+ if (dateBegin == null || dateEnd == null)
+ return;
+ Calendar start = Calendar.getInstance();
+ start.setTime(new Date(dateBegin));
+ Calendar end = Calendar.getInstance();
+ end.setTime(new Date(dateEnd));
+ System.out.println("Date to cal done!: ");
+ for (Date date = start.getTime(); !start.after(end); start.add(Calendar.DATE, 1), date = start.getTime()) {
+ String com = "SELECT JobID FROM ProteinData WHERE jobtime = " + date.getTime() + ";";
+ System.out.println("Command: " + com);
+ ResultSet results = session.execute(com);
+ if (!results.isExhausted()) {
+ List<Row> rows = results.all();
+ for (Row r : rows) {
+ String jobid = r.getString("JobID");
+ if (jobid != null)
+ RemoveJob(jobid, date.getTime());
+ }
+ }
+ }
+ }
+
+
+ public void RemoveJobByIp (String ip) {
+ if (ip == null)
+ return;
+ String com = "SELECT databegin, JobID FROM ProteinLog WHERE ip = '" + ip + "';";
+ System.out.println("Command: " + com);
+ ResultSet results = session.execute(com);
+ if (!results.isExhausted()) {
+ List<Row> rows = results.all();
+ for (Row r : rows) {
+ Long date = convertDate(r.getString("databegin"));
+ String jobid = r.getString("JobID");
+ if (date == null || jobid == null)
+ continue;
+ RemoveJob(jobid, date);
+ }
+ }
+ }
+
+ public void RemoveJobBySequence (String seq) {
+ if (seq == null)
+ return;
+ String com = "SELECT JobID FROM ProteinRow WHERE Protein = '" + seq + "';";
+ System.out.println("Command: " + com);
+ ResultSet results = session.execute(com);
+ if (!results.isExhausted()) {
+ List<Row> rows = results.all();
+ for (Row r : rows) {
+ String jobid = r.getString("JobID");
+ if (jobid == null)
+ continue;
+ Long date = FindDate(jobid);
+ if (date == null)
+ continue;
+ RemoveJob(jobid, date);
+ }
+ }
+ }
+
+ private Long FindDate(String jobid) {
+ String com = "SELECT databegin FROM ProteinLog WHERE JobID = '" + jobid + "';";
System.out.println("Command: " + com);
ResultSet results = session.execute(com);
if (results.isExhausted())
return null;
- final long queryTime = System.currentTimeMillis();
- Row row = results.one();
- String com1 = "SELECT * FROM ProteinRow WHERE JobID = '" + jobid + "' ALLOW FILTERING;";
- System.out.println("Command: " + com1);
- ResultSet results1 = session.execute(com1);
- if (results1.isExhausted())
- return null;
- Row row1 = results1.one();
- StructureJobLog res = new StructureJobLog(row.getString("Protein"), row.getString("JobID"), row.getString("DataBegin"),
- row.getString("DataEnd"), row.getString("ip"), row1.getMap("Predictions", String.class, String.class));
- System.out.println("Query time is " + (queryTime - startTime) + " msec");
- final long endTime = System.currentTimeMillis();
- System.out.println(" rows analysed, execution time is " + (endTime - startTime) + " msec");
- return res;
+ Long date = convertDate(results.one().getString("databegin"));
+ return date;
}
+ protected long convertDate (String d) {
+ try {
+ if (null != d) {
+ Date startdate = dateformatter.parse(d);
+ return startdate.getTime();
+ }
+ } catch (ParseException e) {
+ e.printStackTrace();
+ }
+ return 0L;
+ }
}
git://source.jalview.org / proteocache.git / blobdiff