datadb/compbio/cassandra/ProteinBean.java

   1 package compbio.cassandra;
   2
   3 import java.util.ArrayList;
   4 import java.util.LinkedHashMap;
   5 import java.util.List;
   6 import java.util.Map;
   7
   8 public class ProteinBean implements PredictionIndex{
   9         private String sequence;
  10         private String jnetpred;
  11         private List<String> jobid;
  12         private LinkedHashMap<String,String> predictions;
  13         private List<String> subProt;           // protein sequence divided by several parts for highlighting the particular part
  14         private int size;
  15
  16         public ProteinBean (String seq, Map<String,String> pred) {
  17                 this.sequence = seq;
  18                 this.predictions = new LinkedHashMap<String,String>();
  19                 this.jobid = new ArrayList<String>();
  20                 setPredictions(pred);
  21         }
  22
  23         public void setSequence (String seq) {
  24                 this.sequence = seq;
  25         }
  26
  27         public void setPredictions(Map<String,String> pred) {
  28                 if (predictions == null)
  29                         predictions = new LinkedHashMap<String,String>();
  30                 for (String index : predIndex) {
  31                         this.predictions.put(index, pred.get(index));
  32                 }
  33                 this.size = predictions.size();
  34         }
  35
  36         public String getSequence () {
  37                 return sequence;
  38         }
  39
  40         public String getJnetpred () {
  41                 return jnetpred;
  42         }
  43
  44         public void setJnetpred (Map<String,String> pred) {
  45                 if (pred != null) {
  46                         if (pred.containsKey("jnetpred"))
  47                                 jnetpred = pred.get("jnetpred");
  48                 }
  49         }
  50
  51         public List<String> getJobid () {
  52                 return jobid;
  53         }
  54
  55         public void setJobid (String id) {
  56                 this.jobid.add(id);
  57         }
  58
  59         public int getSize () {
  60                 return size;
  61         }
  62
  63         public LinkedHashMap<String,String> getPredictions () {
  64                 return predictions;
  65         }
  66
  67         public void setSubProt(List<String> subProt) {
  68                 this.subProt = subProt;
  69         }
  70
  71         public List<String> getSubProt() {
  72                 return subProt;
  73         }
  74
  75 }