merge from develop

[jalview.git] / src / jalview / json / binding / biojson / v1 / SequencePojo.java

diff --git a/src/jalview/json/binding/biojson/v1/SequencePojo.java b/src/jalview/json/binding/biojson/v1/SequencePojo.java
new file mode 100644 (file)
index 0000000..9d39d42
--- /dev/null
+++ b/src/jalview/json/binding/biojson/v1/SequencePojo.java
@@ -0,0 +1,117 @@
+package jalview.json.binding.biojson.v1;
+
+import com.github.reinert.jjschema.Attributes;
+
+
+
+public class SequencePojo
+{
+  @Attributes(
+    required = true,
+    minLength = 3,
+    maxLength = 2147483647,
+    description = "Sequence residue characters. An aligned sequence may contain <br>one of the following gap characters “.”, “-” or “ ”")
+  private String seq;
+
+  @Attributes(required = true, description = "Sequence name")
+  private String name;
+
+  @Attributes(required = false, description = "Sequence type", enums = {"DNA", "RNA", "Protein"})
+  private String type;
+
+  @Attributes(required = true, description = "Unique identifier for a given Sequence")
+  private String id;
+  
+  @Attributes(required = false, description = "The order/position of a sequence in the alignment space")
+  private int order;
+  
+  @Attributes(required = true, description = "The index of the sequence’s first residue in its source database, <br>using a one-based numbering index system")
+  private int start;
+
+  @Attributes(required = true, description = "The index of the sequence’s last residue in its source database, <br>using a one-based numbering index system")
+  private int end;
+
+
+  public SequencePojo()
+  {
+  }
+
+  public SequencePojo(int start, int end, String id, String name, String seq)
+  {
+    this.id = id;
+    this.name = name;
+    this.seq = seq;
+  }
+  public String getSeq()
+  {
+    return seq;
+  }
+
+  public void setSeq(String seq)
+  {
+    this.seq = seq;
+  }
+
+  public String getName()
+  {
+
+    return name;
+  }
+
+  public void setName(String name)
+  {
+    this.name = name;
+  }
+
+  public String getId()
+  {
+    return id;
+  }
+
+  public void setId(String id)
+  {
+    this.id = id;
+  }
+
+  public int getStart()
+  {
+    return start;
+  }
+
+  public void setStart(int start)
+  {
+    this.start = start;
+  }
+
+  public int getEnd()
+  {
+    return end;
+  }
+
+  public void setEnd(int end)
+  {
+    this.end = end;
+  }
+
+  public int getOrder()
+  {
+    return order;
+  }
+
+  public void setOrder(int order)
+  {
+    this.order = order;
+  }
+
+
+  public String getType()
+  {
+    return type;
+  }
+
+  public void setType(String type)
+  {
+    this.type = type;
+  }
+
+}