Examples with VCMetaDataDataType - cbit.vcell.biomodel.meta.VCMetaDataMiriamManager.VCMetaDataDataType

Example 1 with VCMetaDataDataType

use of cbit.vcell.biomodel.meta.VCMetaDataMiriamManager.VCMetaDataDataType in project vcell by virtualcell.

the class AnnotationsPanel method updateInterface.

private void updateInterface() {
    if (bioModel == null) {
        return;
    }
    Identifiable entity = getIdentifiable(selectedObject);
    if (selectedObject != null && entity != null) {
        getJComboBoxURI().setEnabled(true);
        getJTextFieldFormalID().setEnabled(true);
        getJButtonAddRef().setEnabled(true);
        getJButtonRemoveText().setEnabled(true);
        VCMetaDataDataType mdt = (VCMetaDataDataType) getJComboBoxURI().getSelectedItem();
        miriamTreeModel.createTree(entity);
        String freeText = bioModel.getVCMetaData().getFreeTextAnnotation(entity);
        if (freeText == null || freeText.isEmpty()) {
            annotationTextArea.setText(null);
        } else {
            annotationTextArea.setText(freeText);
        }
        annotationTextArea.setEditable(true);
        annotationTextArea.setCaretPosition(0);
    } else {
        getJComboBoxURI().setEnabled(false);
        getJTextFieldFormalID().setEnabled(false);
        getJButtonAddRef().setEnabled(false);
        getJButtonRemoveText().setEnabled(false);
        miriamTreeModel.createTree(null);
        annotationTextArea.setText(null);
        annotationTextArea.setEditable(false);
    }
}

Also used : VCMetaDataDataType(cbit.vcell.biomodel.meta.VCMetaDataMiriamManager.VCMetaDataDataType) Identifiable(org.vcell.util.document.Identifiable)

Example 2 with VCMetaDataDataType

use of cbit.vcell.biomodel.meta.VCMetaDataMiriamManager.VCMetaDataDataType in project vcell by virtualcell.

the class AnnotationsPanel method getJPanelNewIdentifier.

private JPanel getJPanelNewIdentifier() {
    jPanelNewIdentifier = new JPanel();
    jPanelNewIdentifier.setLayout(new GridBagLayout());
    // jPanelNewIdentifier.setPreferredSize(new Dimension(725, 37));
    // jPanelNewIdentifier.setBorder(BorderFactory.createLineBorder(SystemColor.windowBorder, 2));
    VCMetaDataDataType mdt = (VCMetaDataDataType) getJComboBoxURI().getSelectedItem();
    int gridx = 0;
    int gridy = 0;
    GridBagConstraints gbc = new GridBagConstraints();
    // top left bottom right
    gbc.insets = new Insets(3, 15, 3, 0);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.anchor = GridBagConstraints.WEST;
    jPanelNewIdentifier.add(new JLabel("Provider: "), gbc);
    gridx++;
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 5, 3, 4);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.anchor = GridBagConstraints.WEST;
    jPanelNewIdentifier.add(new JLabel("<html><b>" + mdt.getDataTypeName() + "</b></html>"), gbc);
    // ------------------------------------- Qualifier combobox  -----------------------------
    gridx++;
    gbc = new GridBagConstraints();
    // top left bottom right
    gbc.insets = new Insets(3, 15, 3, 0);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    jPanelNewIdentifier.add(new JLabel("Qualifier"), gbc);
    gridx++;
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 5, 3, 4);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    jPanelNewIdentifier.add(getJComboBoxQualifier(), gbc);
    // -------------------------------------------------------------------------------
    gridx++;
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 15, 3, 0);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.anchor = GridBagConstraints.WEST;
    jPanelNewIdentifier.add(new JLabel("Identifier ID"), gbc);
    gridx++;
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 5, 3, 4);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.anchor = GridBagConstraints.WEST;
    jPanelNewIdentifier.add(getJTextFieldFormalID(), gbc);
    getJTextFieldFormalID().setText("NewID");
    gridx++;
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 15, 3, 0);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.anchor = GridBagConstraints.WEST;
    jPanelNewIdentifier.add(new JLabel("<html>Example: <b>" + mdt.getExample() + "</b></html>"), gbc);
    gridx++;
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 15, 3, 0);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.weightx = 1.0;
    gbc.anchor = GridBagConstraints.EAST;
    jPanelNewIdentifier.add(new JLabel(), gbc);
    // ---------------------------------------------------------------------
    gridx = 0;
    gridy++;
    JLabel linkLabel = new JLabel();
    String s = "<html>" + "Navigate to" + "&nbsp;<font color=\"" + "blue" + "\"><a href=" + mdt.getDataTypeURL() + ">" + mdt.getDataTypeURL() + "</a></font>&nbsp;&nbsp;";
    s += "and find the identifier ID, then paste it in the box above." + "</html>";
    linkLabel.setToolTipText("Double-click to open link");
    linkLabel.setText(s);
    linkLabel.addMouseListener(new MouseAdapter() {

        public void mousePressed(MouseEvent e) {
            if (e.getClickCount() == 2) {
                showBrowseToLink(mdt);
            }
        }
    });
    gbc = new GridBagConstraints();
    gbc.insets = new Insets(3, 15, 3, 0);
    gbc.gridx = gridx;
    gbc.gridy = gridy;
    gbc.gridwidth = 8;
    gbc.anchor = GridBagConstraints.WEST;
    jPanelNewIdentifier.add(linkLabel, gbc);
    // ---------------------------------------------------------------------
    List<String> rows = new ArrayList<>();
    String value = mdt.getDescription();
    StringTokenizer tokenizer = new StringTokenizer(value, " ");
    String row = "";
    while (tokenizer.hasMoreTokens()) {
        String word = tokenizer.nextToken();
        if ((row.length() + word.length()) > MAX_DESCRIPTION_LENGTH) {
            rows.add(row);
            row = word + " ";
        } else {
            row += word + " ";
        }
    }
    if (!row.isEmpty()) {
        rows.add(row);
    }
    for (String currentRow : rows) {
        gridx = 0;
        gridy++;
        gbc = new GridBagConstraints();
        gbc.insets = new Insets(3, 15, 3, 0);
        gbc.gridx = gridx;
        gbc.gridy = gridy;
        gbc.gridwidth = 8;
        gbc.fill = GridBagConstraints.HORIZONTAL;
        gbc.weightx = 1.0;
        jPanelNewIdentifier.add(new JLabel(currentRow), gbc);
    }
    return jPanelNewIdentifier;
}

Also used : JPanel(javax.swing.JPanel) GridBagConstraints(java.awt.GridBagConstraints) Insets(java.awt.Insets) MouseEvent(java.awt.event.MouseEvent) GridBagLayout(java.awt.GridBagLayout) MouseAdapter(java.awt.event.MouseAdapter) ArrayList(java.util.ArrayList) JLabel(javax.swing.JLabel) StringTokenizer(java.util.StringTokenizer) VCMetaDataDataType(cbit.vcell.biomodel.meta.VCMetaDataMiriamManager.VCMetaDataDataType)

Aggregations

VCMetaDataDataType (cbit.vcell.biomodel.meta.VCMetaDataMiriamManager.VCMetaDataDataType)2 GridBagConstraints (java.awt.GridBagConstraints)1 GridBagLayout (java.awt.GridBagLayout)1 Insets (java.awt.Insets)1 MouseAdapter (java.awt.event.MouseAdapter)1 MouseEvent (java.awt.event.MouseEvent)1 ArrayList (java.util.ArrayList)1 StringTokenizer (java.util.StringTokenizer)1 JLabel (javax.swing.JLabel)1 JPanel (javax.swing.JPanel)1 Identifiable (org.vcell.util.document.Identifiable)1