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 boolean isSelected = false;
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40 public Atom(StringTokenizer str)
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42 str.nextToken(); // Number, not used in MCview
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43 this.name = str.nextToken(); // Name, not used in MCview
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45 this.resName = str.nextToken();
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47 String token1 = str.nextToken();
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49 String token2 = str.nextToken();
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53 this.chain = token1;
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54 resNumber = Integer.parseInt(token2);
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56 this.x = (float) (new Float(str.nextToken()).floatValue());
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57 this.y = (float) (new Float(str.nextToken()).floatValue());
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58 this.z = (float) (new Float(str.nextToken()).floatValue());
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60 }catch(NumberFormatException ex)
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63 resNumber = Integer.parseInt(token1);
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64 this.x = (float) (new Float(token2).floatValue());
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65 this.y = (float) (new Float(str.nextToken()).floatValue());
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66 this.z = (float) (new Float(str.nextToken()).floatValue());
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71 public void setColor(Color col) {
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