server/compbio/controllers/ProteomeController.java

   1 package compbio.controllers;
   2
   3 import java.util.Map;
   4
   5 import org.springframework.stereotype.Controller;
   6 import org.springframework.web.bind.annotation.RequestMapping;
   7 import org.springframework.web.bind.annotation.RequestMethod;
   8 import org.springframework.web.bind.annotation.RequestParam;
   9
  10 import compbio.statistic.CassandraRequester;
  11
  12 /**
  13  * Spring controller for dealing with proteomes. This version works in the
  14  * servlet style.
  15  *
  16  * @author Alexander Sherstnev
  17  * @author Natasha Sherstneva
  18  *
  19  * @since 0.5
  20  * @version 1.0 December 2014
  21  */
  22 @Controller
  23 @RequestMapping("/proteomes")
  24 public class ProteomeController extends BasicController {
  25
  26         @RequestMapping(value = "/load", method = RequestMethod.GET)
  27         public String loadProteome(Map<String, Object> model) {
  28                 model.put("username", getPrincipalName());
  29                 return "support/Notimplemented";
  30         }
  31
  32         @RequestMapping(value = "view", method = RequestMethod.GET)
  33         public String viewProteome(Map<String, Object> model) {
  34                 model.put("username", getPrincipalName());
  35                 return "support/Notimplemented";
  36         }
  37
  38         @RequestMapping(value = "launch", method = RequestMethod.GET)
  39         public String launchjobProteome(Map<String, Object> model) {
  40                 model.put("username", getPrincipalName());
  41                 return "support/Notimplemented";
  42         }
  43
  44         @RequestMapping(value = "load/result", method = RequestMethod.GET)
  45         public String countSequences(@RequestParam("TypeFeatures") String typeFeature, @RequestParam("Percent") String percent,
  46                         Map<String, Object> model) {
  47                 model.put("username", getPrincipalName());
  48                 final long startTime = System.currentTimeMillis();
  49
  50                 if (percent.equals("")) {
  51                         model.put("error", "The value must not be empty");
  52                         model.put("type", typeFeature);
  53                         model.put("value", percent);
  54                         return "query/SSFeatures";
  55                 }
  56
  57                 int realpercent;
  58                 try {
  59                         realpercent = Integer.parseInt(percent.trim());
  60                 } catch (NumberFormatException e) {
  61                         model.put("error", "The value must be an integer number");
  62                         model.put("value", percent);
  63                         return "query/SSFeatures";
  64                 }
  65
  66                 if (realpercent < 1) {
  67                         model.put("error", "The value must be greater than 0");
  68                         model.put("value", percent);
  69                         return "query/SSFeatures";
  70                 }
  71
  72                 if (realpercent > 100) {
  73                         model.put("error", "The value must be less than 100");
  74                         model.put("value", percent);
  75                         return "query/SSFeatures";
  76                 }
  77
  78                 CassandraRequester cr = new CassandraRequester();
  79                 Map<String, String> r = cr.readProteinsPrediction(typeFeature, realpercent);
  80                 model.put("results", r);
  81                 model.put("njobs", 0);
  82                 if (null != r) {
  83                         model.put("njobs", r.size());
  84                 }
  85                 final long endTime = System.currentTimeMillis();
  86                 model.put("timeExecution", (endTime - startTime));
  87                 model.put("feature", typeFeature);
  88                 model.put("percent", realpercent);
  89                 return "reports/SSFeatures";
  90         }
  91
  92 }