2 * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
3 * Copyright (C) $$Year-Rel$$ The Jalview Authors
5 * This file is part of Jalview.
7 * Jalview is free software: you can redistribute it and/or
8 * modify it under the terms of the GNU General Public License
9 * as published by the Free Software Foundation, either version 3
10 * of the License, or (at your option) any later version.
12 * Jalview is distributed in the hope that it will be useful, but
13 * WITHOUT ANY WARRANTY; without even the implied warranty
14 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
15 * PURPOSE. See the GNU General Public License for more details.
17 * You should have received a copy of the GNU General Public License
18 * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
19 * The Jalview Authors are detailed in the 'AUTHORS' file.
21 package jalview.structure;
24 * Java bean representing an atom in a PDB (or similar) structure model or
32 // TODO clarify do we want pdbFile here, or pdbId?
33 // compare highlightAtom in 2.8.2 for JalviewJmolBinding and
34 // javascript.MouseOverStructureListener
35 private String pdbFile;
39 private int pdbResNum;
41 private int atomIndex;
51 public AtomSpec(String pdbFile, String chain, int resNo, int atomNo)
53 this.pdbFile = pdbFile;
55 this.pdbResNum = resNo;
56 this.atomIndex = atomNo;
59 public String getPdbFile()
64 public String getChain()
69 public int getPdbResNum()
74 public int getAtomIndex()
80 public String toString()
82 return "pdbFile: " + pdbFile + ", chain: " + chain + ", res: "
83 + pdbResNum + ", atom: " + atomIndex;