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.datamodel;
24 * A bean that models a point with (x, y, z) coordinates and a reference to a
27 public class SequencePoint
30 * Associated alignment sequence, or dummy sequence object
32 private final SequenceI sequence;
35 * x, y, z position in 3-D space
45 public SequencePoint(SequenceI sequence, Point pt)
47 this.sequence = sequence;
52 * Constructor given a sequence and an array of x, y, z coordinate positions
56 * @throws ArrayIndexOutOfBoundsException
57 * if array length is less than 3
59 public SequencePoint(SequenceI sequence, float[] coords)
61 this(sequence, new Point(coords[0], coords[1], coords[2]));
64 public SequenceI getSequence()
70 * Applies a negative translation of the 'shift' (x, y, z) coordinates
74 public void translateBack(Point shift)
76 float x = coord.x - shift.x;
77 float y = coord.y - shift.y;
78 float z = coord.z - shift.z;
80 coord = new Point(x, y, z);
84 * Applies a positive translation of the 'shift' (x, y, z) coordinates
88 public void translate(Point shift)
90 float x = coord.x + shift.x;
91 float y = coord.y + shift.y;
92 float z = coord.z + shift.z;
94 coord = new Point(x, y, z);