2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
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3 * Copyright (C) 2008 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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19 package jalview.ws.dbsources;
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21 import java.io.BufferedReader;
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22 import java.io.File;
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23 import java.io.FileReader;
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25 import com.stevesoft.pat.Regex;
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27 import jalview.datamodel.AlignmentI;
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28 import jalview.ws.seqfetcher.DbSourceProxyImpl;
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30 public abstract class EbiFileRetrievedProxy extends DbSourceProxyImpl
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34 * temp path to retrieved file
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36 protected String file = null;
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38 public StringBuffer getRawRecords()
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42 StringBuffer bf = null;
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45 File f = new File(file);
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48 bf = new StringBuffer();
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49 BufferedReader breader = new BufferedReader(new FileReader(f));
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51 while (breader.ready() && (line = breader.readLine()) != null)
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57 } catch (Exception e)
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59 System.err.println("Warning: problems reading temp file " + file);
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