/*
- * Jalview - A Sequence Alignment Editor and Viewer (Development Version 2.4.1)
- * Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
+ * Copyright (C) 2010 J Procter, AM Waterhouse, 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
- * of the License, or (at your option) any later version.
+ * This file is part of Jalview.
*
- * 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 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.
*
- * 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
+ * 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/>.
*/
package jalview.gui;
{
try
{
- // TODO: replace with reference fetching/transfer code (validate PDBentry as a DBRef?)
+ // TODO: replace with reference fetching/transfer code (validate PDBentry
+ // as a DBRef?)
jalview.ws.dbsources.Pdb pdbclient = new jalview.ws.dbsources.Pdb();
AlignmentI pdbseq;
- if ((pdbseq=pdbclient.getSequenceRecords(pdbentry.getId())) != null)
+ if ((pdbseq = pdbclient.getSequenceRecords(pdbentry.getId())) != null)
{
// just transfer the file name from the first seuqence's first PDBEntry
- pdbentry.setFile(((PDBEntry) pdbseq.getSequenceAt(0).getPDBId().elementAt(0)).getFile());
+ pdbentry.setFile(((PDBEntry) pdbseq.getSequenceAt(0).getPDBId()
+ .elementAt(0)).getFile());
initJmol("load " + pdbentry.getFile());
}
else
eval.append(";wireframe 100;" + eval.toString() + " and not hetero;"); // ".*;");
resetLastRes.append(";wireframe 0;" + resetLastRes.toString()
- //+ ".*;spacefill 0;");
+ // + ".*;spacefill 0;");
+ " and not hetero;spacefill 0;");
eval.append("spacefill 200;select none");
-// System.out.println("jmol:\n"+eval+"\n");
+ // System.out.println("jmol:\n"+eval+"\n");
viewer.evalStringQuiet(eval.toString());
}