/*
- * Jalview - A Sequence Alignment Editor and Viewer
- * Copyright (C) 2007 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
- *
- * This program 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 2
+ * 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.
- *
- * This program 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.
- *
+ *
+ * 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 this program; if not, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.datamodel;
-import java.util.*;
+import java.util.Hashtable;
public class PDBEntry
{
- String file;
- String type;
- String id;
+ private String file;
+
+ private String type;
+
+ private String id;
+
+ private String chainCode;
+
+ public enum Type
+ {
+ PDB, FILE
+ }
Hashtable properties;
+ /*
+ * (non-Javadoc)
+ *
+ * @see java.lang.Object#equals(java.lang.Object)
+ */
+ @Override
+ public boolean equals(Object obj)
+ {
+ if (obj == null || !(obj instanceof PDBEntry))
+ {
+ return false;
+ }
+ if (obj == this)
+ {
+ return true;
+ }
+ PDBEntry o = (PDBEntry) obj;
+ return /*
+ * (file == o.file || (file != null && o.file != null && o.file
+ * .equals(file))) &&
+ */
+ (type == o.type || (type != null && o.type != null && o.type
+ .equals(type)))
+ && (id == o.id || (id != null && o.id != null && o.id
+ .equalsIgnoreCase(id)))
+ && (chainCode == o.chainCode || (chainCode != null
+ && o.chainCode != null && o.chainCode
+ .equalsIgnoreCase(chainCode)))
+ && (properties == o.properties || (properties != null
+ && o.properties != null && properties
+ .equals(o.properties)));
+ }
+
+ /**
+ * Default constructor
+ */
public PDBEntry()
- {}
- public PDBEntry(PDBEntry entry) {
+ {
+ }
+
+ /**
+ * Constructor given file path and PDB id.
+ *
+ * @param filePath
+ */
+ // public PDBEntry(String filePath, String pdbId)
+ // {
+ // this.file = filePath;
+ // this.id = pdbId;
+ // }
+
+ public PDBEntry(String pdbId, String chain, PDBEntry.Type type,
+ String filePath)
+ {
+ this.id = pdbId;
+ this.chainCode = chain;
+ this.type = type == null ? null : type.toString();
+ this.file = filePath;
+ }
+
+ /**
+ * Copy constructor.
+ *
+ * @param entry
+ */
+ public PDBEntry(PDBEntry entry)
+ {
file = entry.file;
type = entry.type;
id = entry.id;
- if (entry.properties!=null)
+ chainCode = entry.chainCode;
+ if (entry.properties != null)
{
properties = (Hashtable) entry.properties.clone();
}
}
+
public void setFile(String file)
{
this.file = file;
return file;
}
- public void setType(String type)
+ public void setType(String t)
+ {
+ this.type = t;
+ }
+ public void setType(PDBEntry.Type type)
{
- this.type = type;
+ this.type = type == null ? null : type.toString();
}
public String getType()
return properties;
}
+ public String getChainCode()
+ {
+ return chainCode;
+ }
+
+ public void setChainCode(String chainCode)
+ {
+ this.chainCode = chainCode;
+ }
+
}