1 package jalview.json.binding.biojson.v1;
3 import java.util.ArrayList;
5 import com.github.reinert.jjschema.Attributes;
7 public class SequenceGrpPojo
11 description = "The <a href=\"#colourScheme\">Colour Scheme</a> applied to the Sequence Group")
12 private String colourScheme;
14 @Attributes(required = true, description = "The name assigned to the seqGroup")
15 private String groupName;
17 @Attributes(required = false, description = "Serial version identifier for the <b>seqGroup</b> object model")
18 private String description;
20 @Attributes(required = false, description = "Determines if the seqGroup border should be visible or not")
21 private boolean displayBoxes;
23 @Attributes(required = false, description = "Determines if the texts of the group is displayed or not")
24 private boolean displayText;
26 @Attributes(required = false, description = "Determines if the residues text for the group is coloured")
27 private boolean colourText;
29 @Attributes(required = false, description = "Boolean value indicating whether residues should only be shown <br/>that are different from current reference or consensus sequence")
30 private boolean showNonconserved;
32 @Attributes(required = true, description = "The index of the group’s first residue in the alignment space")
35 @Attributes(required = true, description = "The index of the group’s last residue in the alignment space")
42 description = "An array of the unique id's for the sequences belonging to the group")
43 private ArrayList<String> sequenceRefs = new ArrayList<String>();
45 public String getColourScheme()
50 public void setColourScheme(String colourScheme)
52 this.colourScheme = colourScheme;
55 public String getGroupName()
60 public void setGroupName(String groupName)
62 this.groupName = groupName;
65 public String getDescription()
70 public void setDescription(String description)
72 this.description = description;
75 public boolean isDisplayBoxes()
80 public void setDisplayBoxes(boolean displayBoxes)
82 this.displayBoxes = displayBoxes;
85 public boolean isDisplayText()
90 public void setDisplayText(boolean displayText)
92 this.displayText = displayText;
95 public boolean isColourText()
100 public void setColourText(boolean colourText)
102 this.colourText = colourText;
105 public boolean isShowNonconserved()
107 return showNonconserved;
110 public void setShowNonconserved(boolean showNonconserved)
112 this.showNonconserved = showNonconserved;
115 public int getStartRes()
120 public void setStartRes(int startRes)
122 this.startRes = startRes;
125 public int getEndRes()
130 public void setEndRes(int endRes)
132 this.endRes = endRes;
135 public ArrayList<String> getSequenceRefs()
140 public void setSequenceRefs(ArrayList<String> sequenceRefs)
142 this.sequenceRefs = sequenceRefs;