1 package compbio.controllers;
6 import org.springframework.stereotype.Controller;
7 import org.springframework.web.bind.annotation.RequestMapping;
8 import org.springframework.web.bind.annotation.RequestMethod;
9 import org.springframework.web.bind.annotation.RequestParam;
11 import compbio.cassandra.DataBase;
13 import compbio.statistic.CassandraRequester;
16 * @author Alexander Sherstnev
17 * @author Natasha Sherstneva
20 public class SequenceController {
22 @RequestMapping(value = "/sequence/query1", method = RequestMethod.GET)
23 public String formSequenceQuery(Map<String, Object> model) {
24 model.put("value", "AAAAA");
25 return "queryProteinSequence";
28 @RequestMapping(value = "/sequence/query2", method = RequestMethod.GET)
29 public String formCounterQuery(Map<String, Object> model) {
30 model.put("value", 5);
31 return "queryProteinSequenceCounter";
34 @RequestMapping(value = "/sequence/querysequence", method = RequestMethod.GET)
35 public String findSequence(@RequestParam("sequence") String sequence, @RequestParam("protein") String flag, Map<String, Object> model) {
36 final long startTime = System.currentTimeMillis();
38 String trimmedsequence = sequence.replaceAll("\\s", "");
39 model.put("njobs", 0);
40 model.put("prot", trimmedsequence);
41 model.put("flag", flag);
43 if (0 < trimmedsequence.length()) {
44 CassandraRequester cr = new CassandraRequester();
45 List<DataBase> r = cr.readProteins(trimmedsequence, flag);
46 model.put("results", r);
48 System.out.println("result size = " + r.size());
49 model.put("njobs", r.size());
52 final long endTime = System.currentTimeMillis();
53 model.put("timeExecution", (endTime - startTime));
54 return "reportProteinSequences";
57 @RequestMapping(value = "/sequence/querycounter", method = RequestMethod.GET)
58 public String countSequences(@RequestParam("counterJob") String counter, Map<String, Object> model) {
59 final long startTime = System.currentTimeMillis();
61 if (counter.equals("")) {
62 model.put("error", "The value must not be empty");
63 model.put("value", counter);
64 return "queryIPStatistics";
69 realcounter = Integer.parseInt(counter.trim());
70 } catch (NumberFormatException e) {
71 model.put("error", "The value must be an integer number");
72 model.put("value", counter);
73 return "queryIPStatistics";
76 if (realcounter < 1) {
77 model.put("error", "The value must be greater than 0");
78 model.put("value", counter);
79 return "queryIPStatistics";
82 CassandraRequester cr = new CassandraRequester();
83 List<DataBase> r = cr.readProteinByCounter(realcounter);
84 model.put("results", r);
85 model.put("njobs", 0);
87 model.put("njobs", r.size());
89 final long endTime = System.currentTimeMillis();
90 model.put("timeExecution", (endTime - startTime));
91 model.put("counter", realcounter);
92 return "reportProteinSequencesCounter";