datamodel/compbio/data/sequence/Score.java

   1 package compbio.data.sequence;\r
   2 \r
   3 import java.io.BufferedWriter;\r
   4 import java.io.IOException;\r
   5 import java.io.OutputStream;\r
   6 import java.io.OutputStreamWriter;\r
   7 import java.text.NumberFormat;\r
   8 import java.util.Arrays;\r
   9 import java.util.List;\r
  10 import java.util.Locale;\r
  11 import java.util.Set;\r
  12 \r
  13 import javax.xml.bind.annotation.XmlAccessType;\r
  14 import javax.xml.bind.annotation.XmlAccessorType;\r
  15 \r
  16 import compbio.util.annotation.Immutable;\r
  17 \r
  18 @XmlAccessorType(XmlAccessType.FIELD)\r
  19 @Immutable\r
  20 public class Score {\r
  21 \r
  22         public static final NumberFormat NUMBER_FORMAT = NumberFormat\r
  23                         .getNumberInstance(Locale.UK);\r
  24         static {\r
  25                 NUMBER_FORMAT.setGroupingUsed(false);\r
  26                 NUMBER_FORMAT.setMaximumFractionDigits(3);\r
  27         }\r
  28 \r
  29         private ConservationMethod method;\r
  30 \r
  31         private List<Float> scores;\r
  32 \r
  33         private Score() {\r
  34                 // JaXB default constructor\r
  35         }\r
  36 \r
  37         public Score(ConservationMethod method, List<Float> scores) {\r
  38                 this.method = method;\r
  39                 this.scores = scores;\r
  40         }\r
  41 \r
  42         public ConservationMethod getMethod() {\r
  43                 return method;\r
  44         }\r
  45 \r
  46         public List<Float> getScores() {\r
  47                 return scores;\r
  48         }\r
  49 \r
  50         @Override\r
  51         public String toString() {\r
  52                 return "Score [method=" + method + ", scores=" + scores + "]";\r
  53         }\r
  54 \r
  55         @Override\r
  56         public int hashCode() {\r
  57                 final int prime = 31;\r
  58                 int result = 1;\r
  59                 result = prime * result + ((method == null) ? 0 : method.hashCode());\r
  60                 result = prime * result + ((scores == null) ? 0 : scores.hashCode());\r
  61                 return result;\r
  62         }\r
  63 \r
  64         /*\r
  65          * TODO test ! (non-Javadoc)\r
  66          * \r
  67          * @see java.lang.Object#equals(java.lang.Object)\r
  68          */\r
  69         @Override\r
  70         public boolean equals(Object obj) {\r
  71                 if (this == obj)\r
  72                         return true;\r
  73                 if (obj == null)\r
  74                         return false;\r
  75                 if (getClass() != obj.getClass())\r
  76                         return false;\r
  77                 Score other = (Score) obj;\r
  78                 if (method != other.method)\r
  79                         return false;\r
  80                 if (scores == other.scores) {\r
  81                         return true;\r
  82                 }\r
  83                 if (scores == null) {\r
  84                         return false;\r
  85                 }\r
  86                 if (!Arrays.deepEquals(scores.toArray(), other.scores.toArray()))\r
  87                         return false;\r
  88                 return true;\r
  89         }\r
  90 \r
  91         public static void write(Set<Score> scores, OutputStream output)\r
  92                         throws IOException {\r
  93                 BufferedWriter writer = new BufferedWriter(new OutputStreamWriter(\r
  94                                 output));\r
  95                 for (Score score : scores) {\r
  96                         writer.write("#" + score.method + " ");\r
  97                         for (Float scoreVal : score.getScores()) {\r
  98                                 writer.write(NUMBER_FORMAT.format(scoreVal) + " ");\r
  99                         }\r
 100                         writer.write("\n");\r
 101                 }\r
 102                 writer.flush();\r
 103         }\r
 104 }\r