X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fjson%2Fbinding%2Fbiojson%2Fv1%2FSequencePojo.java;fp=src%2Fjalview%2Fjson%2Fbinding%2Fbiojson%2Fv1%2FSequencePojo.java;h=98fed15cfa9a0ebf1ad896b7745fc34beedf38b0;hb=9623cea766a766683243235557ad48e6f7659e6a;hp=0000000000000000000000000000000000000000;hpb=6066400ed6b0fe288ebbea82389f59838a534706;p=jalview.git

diff --git a/src/jalview/json/binding/biojson/v1/SequencePojo.java b/src/jalview/json/binding/biojson/v1/SequencePojo.java
new file mode 100644
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+++ b/src/jalview/json/binding/biojson/v1/SequencePojo.java
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+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+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 &#x201c;.&#x201d;, &#x201c;-&#x201d; or &#x201c;&nbsp;&#x201d;")
+  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;
+  }
+
+}