*/
package jalview.gui;
+import jalview.api.AlignViewportI;
import jalview.api.AlignmentViewPanel;
import jalview.api.FeatureColourI;
+import jalview.bin.Cache;
import jalview.datamodel.GraphLine;
import jalview.datamodel.features.FeatureAttributes;
import jalview.datamodel.features.FeatureAttributes.Datatype;
import java.awt.event.ItemListener;
import java.awt.event.MouseAdapter;
import java.awt.event.MouseEvent;
+import java.math.BigDecimal;
+import java.math.MathContext;
import java.text.DecimalFormat;
import java.util.ArrayList;
import java.util.List;
import javax.swing.JLabel;
import javax.swing.JPanel;
import javax.swing.JRadioButton;
-import javax.swing.JSlider;
-import javax.swing.JTabbedPane;
import javax.swing.JTextField;
-import javax.swing.SwingConstants;
+import javax.swing.border.EmptyBorder;
import javax.swing.border.LineBorder;
import javax.swing.event.ChangeEvent;
import javax.swing.event.ChangeListener;
-import javax.swing.plaf.basic.BasicArrowButton;
/**
* A dialog where the user can configure colour scheme, and any filters, for one
*/
public class FeatureTypeSettings extends JalviewDialog
{
+ private final static MathContext FOUR_SIG_FIG = new MathContext(4);
+
private final static String LABEL_18N = MessageManager
.getString("label.label");
/*
* FeatureRenderer holds colour scheme and filters for feature types
*/
- private final FeatureRenderer fr; // todo refactor to allow interface type here
+ private final FeatureRenderer fr; // todo refactor to allow interface type
+ // here
/*
* the view panel to update when settings change
private float max;
/*
- * scale factor for conversion between absolute min-max and slider
- */
- private float scaleFactor;
-
- /*
* radio button group, to select what to colour by:
* simple colour, by category (text), or graduated
*/
private JRadioButton graduatedColour = new JRadioButton();
- private JPanel singleColour = new JPanel();
+ /**
+ * colours and filters are shown in tabbed view or single content pane
+ */
+ JPanel coloursPanel, filtersPanel;
+
+ JPanel singleColour = new JPanel();
private JPanel minColour = new JPanel();
private JPanel maxColour = new JPanel();
- private JComboBox<String> threshold = new JComboBox<>();
+ private JComboBox<Object> threshold = new JComboBox<>();
- private JSlider slider = new JSlider();
+ private Slider slider;
private JTextField thresholdValue = new JTextField(20);
/*
* choice of option for 'colour for no value'
*/
- private JComboBox<String> noValueCombo;
+ private JComboBox<Object> noValueCombo;
/*
* choice of what to colour by text (Label or attribute)
*/
- private JComboBox<String> colourByTextCombo;
+ private JComboBox<Object> colourByTextCombo;
/*
* choice of what to colour by range (Score or attribute)
*/
- private JComboBox<String> colourByRangeCombo;
+ private JComboBox<Object> colourByRangeCombo;
private JRadioButton andFilters;
*/
private List<FeatureMatcherI> filters;
- // set white normally, black to debug layout
- private Color debugBorderColour = Color.white;
-
private JPanel chooseFiltersPanel;
- private JTabbedPane tabbedPane;
-
/**
* Constructor
*
*/
public FeatureTypeSettings(FeatureRenderer frender, String theType)
{
- this(frender, false, theType);
- }
-
- /**
- * Constructor, with option to make a blocking dialog (has to complete in the
- * AWT event queue thread). Currently this option is always set to false.
- *
- * @param frender
- * @param blocking
- * @param theType
- */
- FeatureTypeSettings(FeatureRenderer frender, boolean blocking,
- String theType)
- {
this.fr = frender;
this.featureType = theType;
ap = fr.ap;
originalFilter = fr.getFeatureFilter(theType);
originalColour = fr.getFeatureColours().get(theType);
-
+
adjusting = true;
-
+
try
{
initialise();
ex.printStackTrace();
return;
}
-
+
updateColoursTab();
-
+
updateFiltersTab();
-
+
adjusting = false;
-
+
colourChanged(false);
-
+
String title = MessageManager
.formatMessage("label.display_settings_for", new String[]
{ theType });
- initDialogFrame(this, true, blocking, title, 600, 360);
-
+ initDialogFrame(this, true, false, title, 580, 500);
waitForInput();
}
*/
if (fc.isSimpleColour())
{
- simpleColour.setSelected(true);
singleColour.setBackground(fc.getColour());
singleColour.setForeground(fc.getColour());
+ simpleColour.setSelected(true);
}
/*
if (fc.isColourByAttribute())
{
String[] attributeName = fc.getAttributeName();
- colourByTextCombo
- .setSelectedItem(toAttributeDisplayName(attributeName));
+ colourByTextCombo.setSelectedItem(
+ FeatureMatcher.toAttributeDisplayName(attributeName));
}
else
{
* Graduated colour, by score or attribute value range
*/
graduatedColour.setSelected(true);
+ updateColourMinMax(); // ensure min, max are set
colourByRangeCombo.setEnabled(colourByRangeCombo.getItemCount() > 1);
minColour.setEnabled(true);
maxColour.setEnabled(true);
if (fc.isColourByAttribute())
{
String[] attributeName = fc.getAttributeName();
- colourByRangeCombo
- .setSelectedItem(toAttributeDisplayName(attributeName));
+ colourByRangeCombo.setSelectedItem(
+ FeatureMatcher.toAttributeDisplayName(attributeName));
}
else
{
* update min-max scaling if there is a range to work with,
* else disable the widgets (this shouldn't happen if only
* valid options are offered in the combo box)
+ * offset slider to have only non-negative values if necessary (JAL-2983)
*/
- scaleFactor = (max == min) ? 1f : 100f / (max - min);
- float range = (max - min) * scaleFactor;
- slider.setMinimum((int) (min * scaleFactor));
- slider.setMaximum((int) (max * scaleFactor));
- slider.setMajorTickSpacing((int) (range / 10f));
+ slider.setSliderModel(min, max, min);
+ slider.setMajorTickSpacing(
+ (int) ((slider.getMaximum() - slider.getMinimum()) / 10f));
threshline = new GraphLine((max - min) / 2f, "Threshold",
Color.black);
fc.isAboveThreshold() ? ABOVE_THRESHOLD_OPTION
: BELOW_THRESHOLD_OPTION);
slider.setEnabled(true);
- slider.setValue((int) (fc.getThreshold() * scaleFactor));
- thresholdValue.setText(String.valueOf(getRoundedSliderValue()));
+ slider.setSliderValue(fc.getThreshold());
+ setThresholdValueText(fc.getThreshold());
thresholdValue.setEnabled(true);
thresholdIsMin.setEnabled(true);
}
private void initialise()
{
this.setLayout(new BorderLayout());
- tabbedPane = new JTabbedPane();
- this.add(tabbedPane, BorderLayout.CENTER);
/*
* an ActionListener that applies colour changes
};
/*
- * first tab: colour options
+ * first panel/tab: colour options
*/
JPanel coloursPanel = initialiseColoursPanel();
- tabbedPane.addTab(MessageManager.getString("action.colour"),
- coloursPanel);
+ this.add(coloursPanel, BorderLayout.NORTH);
/*
- * second tab: filter options
+ * second panel/tab: filter options
*/
JPanel filtersPanel = initialiseFiltersPanel();
- tabbedPane.addTab(MessageManager.getString("label.filters"),
- filtersPanel);
+ this.add(filtersPanel, BorderLayout.CENTER);
JPanel okCancelPanel = initialiseOkCancelPanel();
{
// colour by attribute range
minMax = FeatureAttributes.getInstance().getMinMax(featureType,
- fromAttributeDisplayName(attName));
+ FeatureMatcher.fromAttributeDisplayName(attName));
}
return minMax;
}
maxColour.setBorder(new LineBorder(Color.black));
/*
- * default max colour to current colour (if a plain colour),
- * or to Black if colour by label; make min colour a pale
- * version of max colour
+ * if not set, default max colour to last plain colour,
+ * and make min colour a pale version of max colour
*/
- FeatureColourI fc = fr.getFeatureColours().get(featureType);
- Color bg = fc.isSimpleColour() ? fc.getColour() : Color.BLACK;
- maxColour.setBackground(bg);
- minColour.setBackground(ColorUtils.bleachColour(bg, 0.9f));
+ Color max = originalColour.getMaxColour();
+ if (max == null)
+ {
+ max = originalColour.getColour();
+ minColour.setBackground(ColorUtils.bleachColour(max, 0.9f));
+ }
+ else
+ {
+ maxColour.setBackground(max);
+ minColour.setBackground(originalColour.getMinColour());
+ }
noValueCombo = new JComboBox<>();
noValueCombo.addItem(MessageManager.getString("label.no_colour"));
thresholdValue_actionPerformed();
}
});
+ slider = new Slider(0f, 100f, 50f);
slider.setPaintLabels(false);
slider.setPaintTicks(true);
slider.setBackground(Color.white);
{
if (!adjusting)
{
- thresholdValue
- .setText(String.valueOf(slider.getValue() / scaleFactor));
+ setThresholdValueText(slider.getSliderValue());
+ thresholdValue.setBackground(Color.white); // to reset red for invalid
sliderValueChanged();
}
}
*/
if (ap != null)
{
- ap.paintAlignment(true, true);
+ refreshDisplay(true);
}
}
});
private JPanel initialiseColoursPanel()
{
JPanel colourByPanel = new JPanel();
+ colourByPanel.setBackground(Color.white);
colourByPanel.setLayout(new BoxLayout(colourByPanel, BoxLayout.Y_AXIS));
+ JvSwingUtils.createTitledBorder(colourByPanel,
+ MessageManager.getString("action.colour"), true);
/*
* simple colour radio button and colour picker
*/
JPanel simpleColourPanel = new JPanel(new FlowLayout(FlowLayout.LEFT));
simpleColourPanel.setBackground(Color.white);
- JvSwingUtils.createTitledBorder(simpleColourPanel,
- MessageManager.getString("label.simple"), true);
colourByPanel.add(simpleColourPanel);
simpleColour = new JRadioButton(
{
if (simpleColour.isSelected() && !adjusting)
{
- showColourChooser(singleColour, "label.select_colour");
+ colourChanged(true);
}
}
-
});
-
+
singleColour.setFont(JvSwingUtils.getLabelFont());
singleColour.setBorder(BorderFactory.createLineBorder(Color.black));
singleColour.setPreferredSize(new Dimension(40, 20));
+ // if (originalColour.isGraduatedColour())
+ // {
+ // singleColour.setBackground(originalColour.getMaxColour());
+ // singleColour.setForeground(originalColour.getMaxColour());
+ // }
+ // else
+ // {
+ singleColour.setBackground(originalColour.getColour());
+ singleColour.setForeground(originalColour.getColour());
+ // }
singleColour.addMouseListener(new MouseAdapter()
{
@Override
}
/**
- * Constructs and sets the selected colour options as the colour for the feature
- * type, and repaints the alignment, and optionally the Overview and/or
- * structure viewer if open
+ * Constructs and sets the selected colour options as the colour for the
+ * feature type, and repaints the alignment, and optionally the Overview
+ * and/or structure viewer if open
*
* @param updateStructsAndOverview
*/
* save the colour, and repaint stuff
*/
fr.setColour(featureType, acg);
- ap.paintAlignment(updateStructsAndOverview, updateStructsAndOverview);
+ refreshDisplay(updateStructsAndOverview);
updateColoursTab();
}
private FeatureColourI makeColourFromInputs()
{
/*
- * easiest case - a single colour
- */
- if (simpleColour.isSelected())
- {
- return new FeatureColour(singleColour.getBackground());
- }
-
- /*
- * next easiest case - colour by Label, or attribute text
- */
- if (byCategory.isSelected())
- {
- Color c = this.getBackground();
- FeatureColourI fc = new FeatureColour(c, c, null, 0f, 0f);
- fc.setColourByLabel(true);
- String byWhat = (String) colourByTextCombo.getSelectedItem();
- if (!LABEL_18N.equals(byWhat))
- {
- fc.setAttributeName(fromAttributeDisplayName(byWhat));
- }
- return fc;
- }
-
- /*
- * remaining case - graduated colour by score, or attribute value
+ * min-max range is to (or from) threshold value if
+ * 'threshold is min/max' is selected
*/
- Color noColour = null;
- if (noValueCombo.getSelectedIndex() == MIN_COLOUR_OPTION)
- {
- noColour = minColour.getBackground();
- }
- else if (noValueCombo.getSelectedIndex() == MAX_COLOUR_OPTION)
- {
- noColour = maxColour.getBackground();
- }
float thresh = 0f;
try
{
// invalid inputs are already handled on entry
}
-
- /*
- * min-max range is to (or from) threshold value if
- * 'threshold is min/max' is selected
- */
float minValue = min;
float maxValue = max;
final int thresholdOption = threshold.getSelectedIndex();
{
maxValue = thresh;
}
+ Color noColour = null;
+ if (noValueCombo.getSelectedIndex() == MIN_COLOUR_OPTION)
+ {
+ noColour = minColour.getBackground();
+ }
+ else if (noValueCombo.getSelectedIndex() == MAX_COLOUR_OPTION)
+ {
+ noColour = maxColour.getBackground();
+ }
/*
- * make the graduated colour
+ * construct a colour that 'remembers' all the options, including
+ * those not currently selected
*/
- FeatureColourI fc = new FeatureColour(minColour.getBackground(),
- maxColour.getBackground(), noColour, minValue, maxValue);
+ FeatureColourI fc = new FeatureColour(singleColour.getBackground(),
+ minColour.getBackground(), maxColour.getBackground(), noColour,
+ minValue, maxValue);
/*
+ * easiest case - a single colour
+ */
+ if (simpleColour.isSelected())
+ {
+ ((FeatureColour) fc).setGraduatedColour(false);
+ return fc;
+ }
+
+ /*
+ * next easiest case - colour by Label, or attribute text
+ */
+ if (byCategory.isSelected())
+ {
+ fc.setColourByLabel(true);
+ String byWhat = (String) colourByTextCombo.getSelectedItem();
+ if (!LABEL_18N.equals(byWhat))
+ {
+ fc.setAttributeName(
+ FeatureMatcher.fromAttributeDisplayName(byWhat));
+ }
+ return fc;
+ }
+
+ /*
+ * remaining case - graduated colour by score, or attribute value;
* set attribute to colour by if selected
*/
String byWhat = (String) colourByRangeCombo.getSelectedItem();
if (!SCORE_18N.equals(byWhat))
{
- fc.setAttributeName(fromAttributeDisplayName(byWhat));
+ fc.setAttributeName(FeatureMatcher.fromAttributeDisplayName(byWhat));
}
/*
return fc;
}
- /**
- * A helper method that converts a 'compound' attribute name from its display
- * form, e.g. CSQ:PolyPhen to array form, e.g. { "CSQ", "PolyPhen" }
- *
- * @param attribute
- * @return
- */
- private String[] fromAttributeDisplayName(String attribute)
- {
- return attribute == null ? null : attribute.split(COLON);
- }
-
- /**
- * A helper method that converts a 'compound' attribute name to its display
- * form, e.g. CSQ:PolyPhen from its array form, e.g. { "CSQ", "PolyPhen" }
- *
- * @param attName
- * @return
- */
- private String toAttributeDisplayName(String[] attName)
- {
- return attName == null ? "" : String.join(COLON, attName);
- }
-
@Override
protected void raiseClosed()
{
{
fr.setColour(featureType, originalColour);
fr.setFeatureFilter(featureType, originalFilter);
- ap.paintAlignment(true, true);
+ refreshDisplay(true);
}
/**
{
try
{
+ /*
+ * set 'adjusting' flag while moving the slider, so it
+ * doesn't then in turn change the value (with rounding)
+ */
adjusting = true;
float f = Float.parseFloat(thresholdValue.getText());
- slider.setValue((int) (f * scaleFactor));
+ f = Float.max(f, this.min);
+ f = Float.min(f, this.max);
+ setThresholdValueText(f);
+ slider.setSliderValue(f);
threshline.value = f;
thresholdValue.setBackground(Color.white); // ok
-
- /*
- * force repaint of any Overview window or structure
- */
- ap.paintAlignment(true, true);
+ adjusting = false;
+ colourChanged(true);
} catch (NumberFormatException ex)
{
thresholdValue.setBackground(Color.red); // not ok
- } finally
- {
adjusting = false;
}
}
/**
+ * Sets the text field for threshold value, rounded to four significant figures
+ *
+ * @param f
+ */
+ void setThresholdValueText(float f)
+ {
+ BigDecimal formatted = new BigDecimal(f).round(FOUR_SIG_FIG)
+ .stripTrailingZeros();
+ thresholdValue.setText(formatted.toPlainString());
+ }
+
+ /**
* Action on change of threshold slider value. This may be done interactively
* (by moving the slider), or programmatically (to update the slider after
* manual input of a threshold value).
*/
protected void sliderValueChanged()
{
- threshline.value = getRoundedSliderValue();
+ threshline.value = slider.getSliderValue();
/*
* repaint alignment, but not Overview or structure,
colourChanged(false);
}
- /**
- * Converts the slider value to its absolute value by dividing by the
- * scaleFactor. Rounding errors are squashed by forcing min/max of slider range
- * to the actual min/max of feature score range
- *
- * @return
- */
- private float getRoundedSliderValue()
- {
- int value = slider.getValue();
- float f = value == slider.getMaximum() ? max
- : (value == slider.getMinimum() ? min : value / scaleFactor);
- return f;
- }
-
void addActionListener(ActionListener listener)
{
if (featureSettings != null)
}
/**
- * A helper method to build the drop-down choice of attributes for a feature. If
- * 'withRange' is true, then Score, and any attributes with a min-max range, are
- * added. If 'withText' is true, Label and any known attributes are added. This
- * allows 'categorical numerical' attributes e.g. codon position to be coloured
- * by text.
+ * A helper method to build the drop-down choice of attributes for a feature.
+ * If 'withRange' is true, then Score, and any attributes with a min-max
+ * range, are added. If 'withText' is true, Label and any known attributes are
+ * added. This allows 'categorical numerical' attributes e.g. codon position
+ * to be coloured by text.
* <p>
* Where metadata is available with a description for an attribute, that is
* added as a tooltip.
* @param withRange
* @param withText
*/
- protected JComboBox<String> populateAttributesDropdown(
+ protected JComboBox<Object> populateAttributesDropdown(
List<String[]> attNames, boolean withRange, boolean withText)
{
List<String> displayAtts = new ArrayList<>();
{
continue;
}
- displayAtts.add(toAttributeDisplayName(attName));
+ displayAtts.add(FeatureMatcher.toAttributeDisplayName(attName));
String desc = fa.getDescription(featureType, attName);
if (desc != null && desc.length() > MAX_TOOLTIP_LENGTH)
{
tooltips.add(desc == null ? "" : desc);
}
- JComboBox<String> attCombo = JvSwingUtils
- .buildComboWithTooltips(displayAtts, tooltips);
-
+ // now convert String List to Object List for buildComboWithTooltips
+ List<Object> displayAttsObjects = new ArrayList<>(displayAtts);
+ JComboBox<Object> attCombo = JvSwingUtils
+ .buildComboWithTooltips(displayAttsObjects, tooltips);
+
return attCombo;
}
{
JPanel andOrPanel = new JPanel(new FlowLayout(FlowLayout.LEFT));
andOrPanel.setBackground(Color.white);
- andOrPanel.setBorder(BorderFactory.createLineBorder(debugBorderColour));
andFilters = new JRadioButton(MessageManager.getString("label.and"));
orFilters = new JRadioButton(MessageManager.getString("label.or"));
ActionListener actionListener = new ActionListener()
for (FeatureMatcherI filter : filters)
{
JPanel row = addFilter(filter, attNames, filterIndex);
- row.setBorder(BorderFactory.createLineBorder(debugBorderColour));
chooseFiltersPanel.add(row);
filterIndex++;
}
/**
* A helper method that constructs a row (panel) with one filter condition:
* <ul>
- * <li>a drop-down list of Label, Score and attribute names to choose from</li>
+ * <li>a drop-down list of Label, Score and attribute names to choose
+ * from</li>
* <li>a drop-down list of conditions to choose from</li>
* <li>a text field for input of a match pattern</li>
* <li>optionally, a 'remove' button</li>
* drop-down choice of attribute, with description as a tooltip
* if we can obtain it
*/
- final JComboBox<String> attCombo = populateAttributesDropdown(attNames,
+ final JComboBox<Object> attCombo = populateAttributesDropdown(attNames,
true, true);
String filterBy = setSelectedAttribute(attCombo, filter);
}
else
{
- attCombo.setSelectedItem(toAttributeDisplayName(attName));
+ attCombo.setSelectedItem(
+ FeatureMatcher.toAttributeDisplayName(attName));
}
attCombo.addItemListener(new ItemListener()
{
* disable pattern field for condition 'Present / NotPresent'
*/
Condition selectedCondition = (Condition) condCombo.getSelectedItem();
- if (!selectedCondition.needsAPattern())
- {
- patternField.setEnabled(false);
- }
+ patternField.setEnabled(selectedCondition.needsAPattern());
/*
* if a numeric condition is selected, show the value range
* as a tooltip on the value input field
*/
- setPatternTooltip(filterBy, selectedCondition, patternField);
+ setNumericHints(filterBy, selectedCondition, patternField);
/*
* add remove button if filter is populated (non-empty pattern)
if (!patternField.isEnabled()
|| (pattern != null && pattern.trim().length() > 0))
{
- // todo: gif for button drawing '-' or 'x'
- JButton removeCondition = new BasicArrowButton(SwingConstants.WEST);
- removeCondition
- .setToolTipText(MessageManager.getString("label.delete_row"));
+ JButton removeCondition = new JButton("\u2717"); // Dingbats cursive x
+ removeCondition.setToolTipText(
+ MessageManager.getString("label.delete_condition"));
+ removeCondition.setBorder(new EmptyBorder(0, 0, 0, 0));
removeCondition.addActionListener(new ActionListener()
{
@Override
* @param attCombo
* @param filter
*/
- private String setSelectedAttribute(JComboBox<String> attCombo,
+ private String setSelectedAttribute(JComboBox<Object> attCombo,
FeatureMatcherI filter)
{
String item = null;
}
else
{
- item = toAttributeDisplayName(filter.getAttribute());
+ item = FeatureMatcher.toAttributeDisplayName(filter.getAttribute());
}
attCombo.setSelectedItem(item);
return item;
}
/**
- * If a numeric comparison condition is selected, retrieve the min-max range for
- * the value (score or attribute), and set it as a tooltip on the value file
+ * If a numeric comparison condition is selected, retrieves the min-max range
+ * for the value (score or attribute), and sets it as a tooltip on the value
+ * field. If the field is currently empty, then pre-populates it with
+ * <ul>
+ * <li>the minimum value, if condition is > or >=</li>
+ * <li>the maximum value, if condition is < or <=</li>
+ * </ul>
*
* @param attName
* @param selectedCondition
* @param patternField
*/
- private void setPatternTooltip(String attName,
- Condition selectedCondition, JTextField patternField)
+ private void setNumericHints(String attName, Condition selectedCondition,
+ JTextField patternField)
{
patternField.setToolTipText("");
float[] minMax = getMinMax(attName);
if (minMax != null)
{
- String tip = String.format("(%s - %s)",
- DECFMT_2_2.format(minMax[0]), DECFMT_2_2.format(minMax[1]));
+ String minFormatted = DECFMT_2_2.format(minMax[0]);
+ String maxFormatted = DECFMT_2_2.format(minMax[1]);
+ String tip = String.format("(%s - %s)", minFormatted, maxFormatted);
patternField.setToolTipText(tip);
+ if (patternField.getText().isEmpty())
+ {
+ if (selectedCondition == Condition.GE
+ || selectedCondition == Condition.GT)
+ {
+ patternField.setText(minFormatted);
+ }
+ else
+ {
+ if (selectedCondition == Condition.LE
+ || selectedCondition == Condition.LT)
+ {
+ patternField.setText(maxFormatted);
+ }
+ }
+ }
}
}
}
/**
- * Populates the drop-down list of comparison conditions for the given attribute
- * name. The conditions added depend on the datatype of the attribute values.
- * The supplied condition is set as the selected item in the list, provided it
- * is in the list. If the pattern is now invalid (non-numeric pattern for a
- * numeric condition), it is cleared.
+ * Populates the drop-down list of comparison conditions for the given
+ * attribute name. The conditions added depend on the datatype of the
+ * attribute values. The supplied condition is set as the selected item in the
+ * list, provided it is in the list. If the pattern is now invalid
+ * (non-numeric pattern for a numeric condition), it is cleared.
*
* @param attName
* @param cond
JComboBox<Condition> condCombo, JTextField patternField)
{
Datatype type = FeatureAttributes.getInstance().getDatatype(featureType,
- fromAttributeDisplayName(attName));
+ FeatureMatcher.fromAttributeDisplayName(attName));
if (LABEL_18N.equals(attName))
{
type = Datatype.Character;
ItemListener listener = condCombo.getItemListeners()[0];
condCombo.removeItemListener(listener);
boolean condIsValid = false;
+
condCombo.removeAllItems();
for (Condition c : Condition.values())
{
- if ((c.isNumeric() && type != Datatype.Character)
+ if ((c.isNumeric() && type == Datatype.Number)
|| (!c.isNumeric() && type != Datatype.Number))
{
condCombo.addItem(c);
condCombo.setSelectedIndex(0);
}
- condCombo.addItemListener(listener);
-
/*
* clear pattern if it is now invalid for condition
*/
patternField.setText("");
}
}
+
+ /*
+ * restore the listener
+ */
+ condCombo.addItemListener(listener);
}
/**
- * Answers true unless a numeric condition has been selected with a non-numeric
- * value. Sets the value field to RED with a tooltip if in error.
+ * Answers true unless a numeric condition has been selected with a
+ * non-numeric value. Sets the value field to RED with a tooltip if in error.
* <p>
- * If the pattern is expected but is empty, this method returns false, but does
- * not mark the field as invalid. This supports selecting an attribute for a new
- * condition before a match pattern has been entered.
+ * If the pattern is expected but is empty, this method returns false, but
+ * does not mark the field as invalid. This supports selecting an attribute
+ * for a new condition before a match pattern has been entered.
*
* @param value
* @param condCombo
/**
* Constructs a filter condition from the given input fields, and replaces the
- * condition at filterIndex with the new one. Does nothing if the pattern field
- * is blank (unless the match condition is one that doesn't require a pattern,
- * e.g. 'Is present'). Answers true if the filter was updated, else false.
+ * condition at filterIndex with the new one. Does nothing if the pattern
+ * field is blank (unless the match condition is one that doesn't require a
+ * pattern, e.g. 'Is present'). Answers true if the filter was updated, else
+ * false.
* <p>
* This method may update the tooltip on the filter value field to show the
- * value range, if a numeric condition is selected. This ensures the tooltip is
- * updated when a numeric valued attribute is chosen on the last 'add a filter'
- * row.
+ * value range, if a numeric condition is selected. This ensures the tooltip
+ * is updated when a numeric valued attribute is chosen on the last 'add a
+ * filter' row.
*
* @param attCombo
* @param condCombo
* @param valueField
* @param filterIndex
*/
- protected boolean updateFilter(JComboBox<String> attCombo,
+ protected boolean updateFilter(JComboBox<Object> attCombo,
JComboBox<Condition> condCombo, JTextField valueField,
int filterIndex)
{
- String attName = (String) attCombo.getSelectedItem();
+ String attName;
+ try
+ {
+ attName = (String) attCombo.getSelectedItem();
+ } catch (Exception e)
+ {
+ Cache.log.error("Problem casting Combo box entry to String");
+ attName = attCombo.getSelectedItem().toString();
+ }
Condition cond = (Condition) condCombo.getSelectedItem();
String pattern = valueField.getText().trim();
- setPatternTooltip(attName, cond, valueField);
+ setNumericHints(attName, cond, valueField);
if (pattern.length() == 0 && cond.needsAPattern())
{
+ valueField.setEnabled(true); // ensure pattern field is enabled!
return false;
}
else
{
km = FeatureMatcher.byAttribute(cond, pattern,
- fromAttributeDisplayName(attName));
+ FeatureMatcher.fromAttributeDisplayName(attName));
}
filters.set(filterIndex, km);
}
/**
- * Makes the dialog visible, at the Feature Colour tab or at the Filters tab
- *
- * @param coloursTab
- */
- public void showTab(boolean coloursTab)
- {
- setVisible(true);
- tabbedPane.setSelectedIndex(coloursTab ? 0 : 1);
- }
-
- /**
* Action on any change to feature filtering, namely
* <ul>
* <li>change of selected attribute</li>
* <li>change of match pattern</li>
* <li>removal of a condition</li>
* </ul>
- * The inputs are parsed into a combined filter and this is set for the feature
- * type, and the alignment redrawn.
+ * The inputs are parsed into a combined filter and this is set for the
+ * feature type, and the alignment redrawn.
*/
protected void filtersChanged()
{
* (note this might now be an empty filter with no conditions)
*/
fr.setFeatureFilter(featureType, combined.isEmpty() ? null : combined);
- ap.paintAlignment(true, true);
+ refreshDisplay(true);
updateFiltersTab();
}
+
+ /**
+ * Repaints alignment, structure and overview (if shown). If there is a
+ * complementary view which is showing this view's features, then also
+ * repaints that.
+ *
+ * @param updateStructsAndOverview
+ */
+ void refreshDisplay(boolean updateStructsAndOverview)
+ {
+ ap.paintAlignment(true, updateStructsAndOverview);
+ AlignViewportI complement = ap.getAlignViewport().getCodingComplement();
+ if (complement != null && complement.isShowComplementFeatures())
+ {
+ AlignFrame af2 = Desktop.getAlignFrameFor(complement);
+ af2.alignPanel.paintAlignment(true, updateStructsAndOverview);
+ }
+ }
}
git://source.jalview.org / jalview.git / blobdiff