JAL-2506 relocate Uniprot binding classes, bind to UniprotFeature not

[jalview.git] / src / jalview / datamodel / xdb / uniprot / UniprotSequence.java

diff --git a/src/jalview/datamodel/xdb/uniprot/UniprotSequence.java b/src/jalview/datamodel/xdb/uniprot/UniprotSequence.java
new file mode 100755 (executable)
index 0000000..bdba73f
--- /dev/null
+++ b/src/jalview/datamodel/xdb/uniprot/UniprotSequence.java
@@ -0,0 +1,58 @@
+/*
+ * 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.datamodel.xdb.uniprot;
+
+/**
+ * Data model for the sequence returned by a Uniprot query
+ * 
+ * @see uniprot_mapping.xml
+ */
+public class UniprotSequence
+{
+  private String _content = "";
+
+  /**
+   * Sets the content string, omitting any space characters
+   * 
+   * @param seq
+   */
+  public void setContent(String seq)
+  {
+    if (seq != null)
+    {
+      StringBuilder sb = new StringBuilder(seq.length());
+      for (int i = 0; i < seq.length(); i++)
+      {
+        if (seq.charAt(i) != ' ')
+        {
+          sb.append(seq.charAt(i));
+        }
+      }
+      _content = sb.toString();
+    }
+  }
+
+  public String getContent()
+  {
+    return _content;
+  }
+
+}