2 * Jalview - A Sequence Alignment Editor and Viewer
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3 * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
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5 * This program is free software; you can redistribute it and/or
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6 * modify it under the terms of the GNU General Public License
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7 * as published by the Free Software Foundation; either version 2
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8 * of the License, or (at your option) any later version.
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10 * This program is distributed in the hope that it will be useful,
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11 * but WITHOUT ANY WARRANTY; without even the implied warranty of
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12 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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13 * GNU General Public License for more details.
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15 * You should have received a copy of the GNU General Public License
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16 * along with this program; if not, write to the Free Software
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17 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
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38 public Atom(StringTokenizer str) {
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39 this.number = (new Integer(str.nextToken())).intValue();
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40 this.name = str.nextToken();
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41 this.resName = str.nextToken();
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43 String tmpstr = new String();
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46 tmpstr = str.nextToken();
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48 this.resNumber = (new Integer(tmpstr).intValue());
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50 this.color = Color.green;
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51 } catch (NumberFormatException e) {
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52 this.chain = tmpstr;
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54 if (tmpstr.equals("A")) {
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55 this.color = new Color((float) Math.random(),
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56 (float) Math.random(), (float) Math.random());
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58 this.color = Color.red;
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61 this.resNumber = (new Integer(str.nextToken()).intValue());
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64 this.x = (double) (new Double(str.nextToken()).floatValue());
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65 this.y = (double) (new Double(str.nextToken()).floatValue());
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66 this.z = (double) (new Double(str.nextToken()).floatValue());
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69 public void setColor(Color col) {
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