private void CopyAllFiles(String csvFilename) throws IOException, NoSuchAlgorithmException {
    ResultsTable table = ResultsTable.open(csvFilename);

    int size = table.getCounter();
    for (int i = 0; i < size; i++) {
      String source = table.getStringValue("OriginaFile", i);
      String destination = table.getStringValue("WorkingFile", i);
      print(i + 1 + " Move from: " + source + " to ------> " + destination);
      // print("to ------> " + destination);
      // imp =  new ImagePlus(source);
      // IJ.save(imp, destination);
      CopyFile(source, destination);
      StringBuffer sb1 = CheckSum(source);
      StringBuffer sb2 = CheckSum(destination);
      // CheckSum(source);
      // check SHA1
      writeChecksum(sb1, sb2, table, i);
    }
    table.saveAs(csvFilename);
  }
Exemple #2
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  public static void main(String[] args) {
    String mriImage = args[0];
    String outImage = args[1];
    String segArgs = args[2];
    String outTable = args[3];
    String pdxArgs = args[4];

    System.out.println("Open: " + mriImage);
    IJ.open(mriImage);
    COPD_LungSegment tjPlug = new COPD_LungSegment();
    ImagePlus cImage = IJ.getImage();
    tjPlug.setup(segArgs, cImage);
    tjPlug.run(cImage.getProcessor());
    IJ.save(cImage, outImage);
    COPD_PDxLAAx pdxPlug = new COPD_PDxLAAx();
    pdxPlug.setup("", cImage);
    pdxPlug.run(cImage.getProcessor());
    ResultsTable rt = Analyzer.getResultsTable();
    try {
      rt.saveAs(outTable);
    } catch (IOException e) {
      e.printStackTrace();
    }

    System.out.println("Results Table\n");
    String prefix = "rtout, ";

    for (int i = 0; i < ResultsTable.MAX_COLUMNS; i++) {
      if (!rt.columnExists(i)) break;
      String tempOut = rt.getColumnHeading(i);
      for (double d : rt.getColumnAsDoubles(i)) {
        tempOut += ", " + d;
      }
      System.out.println(prefix + tempOut);
    }
  }