/** Loads the default settings from Preferences to set up the dialog. */
  public void legacyLoadDefaults() {
    String defaultsString = Preferences.getDialogDefaults(getDialogName());

    if ((defaultsString != null) && (newImage != null)) {

      try {
        StringTokenizer st = new StringTokenizer(defaultsString, ",");

        textSearchWindowSide.setText("" + MipavUtil.getInt(st));
        textSimilarityWindowSide.setText("" + MipavUtil.getInt(st));
        textNoiseStandardDeviation.setText("" + MipavUtil.getFloat(st));
        textDegree.setText("" + MipavUtil.getFloat(st));
        doRician = MipavUtil.getBoolean(st);
        doRicianCheckBox.setSelected(doRician);
        textDegree.setEnabled(doRician);
        labelDegree.setEnabled(doRician);
        image25DCheckBox.setSelected(MipavUtil.getBoolean(st));

        if (MipavUtil.getBoolean(st)) {
          newImage.setSelected(true);
        } else {
          replaceImage.setSelected(true);
        }

      } catch (Exception ex) {

        // since there was a problem parsing the defaults string, start over with the original
        // defaults
        Preferences.debug("Resetting defaults for dialog: " + getDialogName());
        Preferences.removeProperty(getDialogName());
      }
    }
  }
Пример #2
0
  /**
   * Returns the name of an image output by this algorithm, the image returned depends on the
   * parameter label given (which can be used to retrieve the image object from the image registry).
   *
   * @param imageParamName The output image parameter label for which to get the image name.
   * @return The image name of the requested output image parameter label.
   */
  public String getOutputImageName(final String imageParamName) {
    if (imageParamName.equals(AlgorithmParameters.RESULT_IMAGE)) {
      return getResultImage().getImageName();
    }

    Preferences.debug(
        "Unrecognized output image parameter: " + imageParamName + "\n",
        Preferences.DEBUG_SCRIPTING);

    return null;
  }
  /**
   * Returns the name of an image output by this algorithm, the image returned depends on the
   * parameter label given (which can be used to retrieve the image object from the image registry).
   *
   * @param imageParamName The output image parameter label for which to get the image name.
   * @return The image name of the requested output image parameter label.
   */
  public String getOutputImageName(final String imageParamName) {
    if (imageParamName.equals(AlgorithmParameters.RESULT_IMAGE)) {
      if (getResultImage() != null) {
        // algo produced a new result image
        return getResultImage().getImageName();
      } else {
        // algo was done in place
        return image.getImageName();
      }
    }

    Preferences.debug(
        "Unrecognized output image parameter: " + imageParamName + "\n",
        Preferences.DEBUG_SCRIPTING);

    return null;
  }
Пример #4
0
  /**
   * The top level rendering call. This function calls beforeResampleAll, resampleAll, and
   * mapIntermediateToFinal, all virtual functions that are implemented in derived classes.
   *
   * @param iDS The number of slices to increment during the resampling phase. The value should be
   *     one or larger. If one, all slices of the volume data are resampled. If two, only every
   *     other slice is resampled. An input larger than one is used to allow fast rendering during
   *     rotation of the volume data. Once the rotation terminates, a composite with input of one
   *     should be called.
   */
  public synchronized void composite(int iDS) {
    long startTime = 0, now = 0;
    double elapsedTime = 0d;

    // compute maximum component of the box direction vector
    float fMax = 0.0f;
    int i, iMax = -1;

    for (i = 0; i < 3; i++) {
      float fAbs = Math.abs(m_aafBox[2][i]);

      if (fAbs > fMax) {
        fMax = fAbs;
        iMax = i;
      }
    }

    startTime = System.currentTimeMillis();
    traceInit();

    // composite in the appropriate direction
    if (iMax == 0) {
      beforeResampleAll(1, 2, 0);
    } else if (iMax == 1) {
      beforeResampleAll(2, 0, 1);
    } else {
      beforeResampleAll(0, 1, 2);
    }

    resampleAll(iDS);
    mapIntermediateToFinal();
    now = System.currentTimeMillis();
    elapsedTime = (double) (now - startTime);

    if (elapsedTime <= 0) {
      elapsedTime = (double) 0.0;
    }

    Preferences.debug(
        "Shear elapse time = " + (double) (elapsedTime / 1000.0) + "\n"); // in seconds
  }
  /** Saves the default settings into the Preferences file. */
  public void legacySaveDefaults() {
    String defaultsString = new String(getParameterString(",") + "," + newImage.isSelected());

    Preferences.saveDialogDefaults(getDialogName(), defaultsString);
  }
Пример #6
0
  /** Sets up the GUI (panels, buttons, etc) and displays it on the screen. */
  private void init() {
    if (image.getFileInfo(0).getFileFormat() == FileUtility.DICOM) {
      FileInfoDicom dicomInfo = (FileInfoDicom) image.getFileInfo(0);
      FileDicomTagTable tagTable = dicomInfo.getTagTable();
      if (tagTable.getValue("0018,1310") != null) {
        // Acquisition matrix
        FileDicomTag tag = tagTable.get(new FileDicomKey("0018,1310"));
        Object[] values = tag.getValueList();
        int valNumber = values.length;
        if ((valNumber == 4) && (values instanceof Short[])) {
          int frequencyRows = ((Short) values[0]).intValue();
          Preferences.debug("frequencyRows = " + frequencyRows + "\n");
          int frequencyColumns = ((Short) values[1]).intValue();
          Preferences.debug("frequencyColumns = " + frequencyColumns + "\n");
          int phaseRows = ((Short) values[2]).intValue();
          Preferences.debug("phaseRows = " + phaseRows + "\n");
          int phaseColumns = ((Short) values[3]).intValue();
          Preferences.debug("phaseColumns = " + phaseColumns + "\n");
          if ((frequencyRows > 0) && (phaseRows == 0)) {
            subYDim = frequencyRows;
          } else if ((frequencyRows == 0) && (phaseRows > 0)) {
            subYDim = phaseRows;
          }
          if ((frequencyColumns > 0) && (phaseColumns == 0)) {
            subXDim = frequencyColumns;
          } else if ((frequencyColumns == 0) && (phaseColumns > 0)) {
            subXDim = phaseColumns;
          }
        }
      } // if (tagTable.getValue("0018,1310") != null)
      if (tagTable.getValue("0019,100A") != null) {
        FileDicomTag tag = tagTable.get(new FileDicomKey("0019,100A"));
        Object value = tag.getValue(false);
        if (value instanceof Short) {
          numberOfImagesInMosaic = ((Short) value).intValue();
          Preferences.debug("Number of images in mosaic = " + numberOfImagesInMosaic + "\n");
        }
      } // if (tagTable.getValue("0019,100A") != null)
    } // if (image.getFileInfo(0).getFileFormat() == FileUtility.DICOM)*/
    setForeground(Color.black);
    setTitle("Mosaic To 3D Volume");

    JPanel inputPanel = new JPanel(new GridBagLayout());
    inputPanel.setForeground(Color.black);

    inputPanel.setBorder(buildTitledBorder("Image"));

    JLabel labelUse = new JLabel("Image:");
    labelUse.setForeground(Color.black);
    labelUse.setFont(serif12);

    JLabel labelImage = new JLabel(image.getImageName());
    labelImage.setForeground(Color.black);
    labelImage.setFont(serif12);

    GridBagConstraints gbc = new GridBagConstraints();
    gbc.gridx = 0;
    gbc.gridy = 0;
    gbc.gridheight = 1;
    gbc.gridwidth = 1;
    gbc.anchor = GridBagConstraints.WEST;
    gbc.weightx = 1;
    gbc.insets = new Insets(5, 5, 5, 5);
    inputPanel.add(labelUse, gbc);
    gbc.gridx = 1;
    gbc.fill = GridBagConstraints.HORIZONTAL;
    inputPanel.add(labelImage, gbc);

    JPanel dimensionPanel = new JPanel(new GridBagLayout());
    dimensionPanel.setForeground(Color.black);
    dimensionPanel.setBorder(buildTitledBorder("X and Y Dimensions of Result"));

    JLabel labelXDim = new JLabel("X dimension of slices");
    labelXDim.setForeground(Color.black);
    labelXDim.setFont(serif12);

    textXDim = new JTextField(10);
    if (subXDim != 0) {
      textXDim.setText(String.valueOf(subXDim));
    }
    textXDim.setFont(serif12);
    textXDim.setForeground(Color.black);

    JLabel labelYDim = new JLabel("Y dimension of slices");
    labelYDim.setForeground(Color.black);
    labelYDim.setFont(serif12);

    textYDim = new JTextField(10);
    if (subYDim != 0) {
      textYDim.setText(String.valueOf(subYDim));
    }
    textYDim.setFont(serif12);
    textYDim.setForeground(Color.black);

    JLabel labelNumberImages = new JLabel("Number of images in mosaic");
    labelNumberImages.setForeground(Color.black);
    labelNumberImages.setFont(serif12);

    textNumberImages = new JTextField(10);
    if (numberOfImagesInMosaic != 0) {
      textNumberImages.setText(String.valueOf(numberOfImagesInMosaic));
    }
    textNumberImages.setFont(serif12);
    textNumberImages.setForeground(Color.black);

    gbc.gridx = 0;
    gbc.gridy = 0;
    dimensionPanel.add(labelXDim, gbc);
    gbc.gridx = 1;
    dimensionPanel.add(textXDim, gbc);
    gbc.gridx = 0;
    gbc.gridy = 1;
    dimensionPanel.add(labelYDim, gbc);
    gbc.gridx = 1;
    dimensionPanel.add(textYDim, gbc);
    gbc.gridx = 0;
    gbc.gridy = 2;
    dimensionPanel.add(labelNumberImages, gbc);
    gbc.gridx = 1;
    dimensionPanel.add(textNumberImages, gbc);

    JPanel mainPanel = new JPanel(new BorderLayout());
    mainPanel.add(inputPanel, BorderLayout.NORTH);
    mainPanel.add(dimensionPanel, BorderLayout.CENTER);
    mainPanel.setBorder(BorderFactory.createEmptyBorder(5, 5, 5, 5));

    JPanel buttonPanel = new JPanel();
    buttonPanel.add(buildButtons());

    getContentPane().add(mainPanel);
    getContentPane().add(buttonPanel, BorderLayout.SOUTH);
    pack();
    setVisible(true);
  }