2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
3 * Copyright (C) 2014 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;
23 import jalview.datamodel.*;
25 public class StructureMapping
27 String mappingDetails;
37 // Mapping index 0 is resNum, index 1 is atomNo
40 public StructureMapping(SequenceI seq, String pdbfile, String pdbid,
41 String chain, int[][] mapping, String mappingDetails)
44 this.pdbfile = pdbfile;
46 this.pdbchain = chain;
47 this.mapping = mapping;
48 this.mappingDetails = mappingDetails;
51 public SequenceI getSequence()
56 public String getChain()
61 public String getPdbId()
66 public int getAtomNum(int seqpos)
68 if (mapping.length > seqpos)
70 return mapping[seqpos][1];
78 public int getPDBResNum(int seqpos)
80 if (mapping.length > seqpos)
82 return mapping[seqpos][0];
90 public int getSeqPos(int pdbResNum)
92 for (int i = 0; i < mapping.length; i++)
94 if (mapping[i][0] == pdbResNum)