2 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
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3 * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
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5 * This file is part of Jalview.
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7 * Jalview is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU General Public License
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9 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
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11 * Jalview is distributed in the hope that it will be useful, but
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12 * WITHOUT ANY WARRANTY; without even the implied warranty
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13 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
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14 * PURPOSE. See the GNU General Public License for more details.
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16 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
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18 package jalview.ws.dbsources;
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20 import java.io.BufferedReader;
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21 import java.io.File;
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22 import java.io.FileReader;
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24 import com.stevesoft.pat.Regex;
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26 import jalview.datamodel.AlignmentI;
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27 import jalview.ws.seqfetcher.DbSourceProxyImpl;
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29 public abstract class EbiFileRetrievedProxy extends DbSourceProxyImpl
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33 * temp path to retrieved file
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35 protected String file = null;
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37 public StringBuffer getRawRecords()
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41 StringBuffer bf = null;
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44 File f = new File(file);
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47 bf = new StringBuffer();
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48 BufferedReader breader = new BufferedReader(new FileReader(f));
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50 while (breader.ready() && (line = breader.readLine()) != null)
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56 } catch (Exception e)
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58 System.err.println("Warning: problems reading temp file " + file);
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