src/jalview/io/xdb/genbank/GenBankFeature.java

   1 package jalview.io.xdb.genbank;
   2
   3 import java.util.Enumeration;
   4 import java.util.Hashtable;
   5
   6 public class GenBankFeature {
   7         public static final String MISC_TYPE = "misc_feature";
   8         public static final String SOURCE = "source";
   9         public static final String CDS = "CDS";
  10         public static final String GENE = "gene";
  11         public static final String EXON = "exon";
  12         public static final String INTRON = "intron";
  13         public static final String PRIM_TRANSCRIPT = "prim_transcript";
  14         public static final String mRNA = "mRNA";
  15         public static final String MOBILE_ELEMENT = "mobile_element";
  16         public static final String VARIATION = "variation";
  17
  18         private String type;
  19         private Hashtable<String,String> qualifiers = new Hashtable<String,String>();
  20         private GenBankLocation location = null;
  21
  22         public GenBankFeature() {
  23                 super();
  24         }
  25
  26         public GenBankFeature(String type) {
  27                 super();
  28                 this.type = type;
  29         }
  30
  31         public void addQualifier(String key, String value){
  32                 this.qualifiers.put(key, value);
  33         }
  34         public void updateQualifier(String key, String newValue){
  35                 this.qualifiers.remove(key);
  36                 this.qualifiers.put(key, newValue);
  37         }
  38
  39         public String getQualifier(String key){
  40                 return this.qualifiers.get(key);
  41         }
  42
  43         public String getType() {
  44                 return type;
  45         }
  46
  47         public void setType(String type) {
  48                 this.type = type;
  49         }
  50         public Enumeration<String> getQualifiersNames(){
  51                 return this.qualifiers.keys();
  52         }
  53         public int getQualifiersSize(){
  54                 return this.qualifiers.size();
  55         }
  56
  57         public Hashtable<String, String> getFields() {
  58                 return qualifiers;
  59         }
  60
  61         public GenBankLocation getLocation() {
  62                 return location;
  63         }
  64
  65         public void setLocation(GenBankLocation location) {
  66                 this.location = location;
  67         }
  68 }