/**
* Creates the color related to the passed Well.
*
* @param data The well to handle.
* @return See above.
*/
private Color createColor(WellData data) {
int red = data.getRed();
int green = data.getGreen();
int blue = data.getBlue();
int alpha = data.getAlpha();
if (red < 0 || green < 0 || blue < 0 || alpha < 0) return null;
if (red > 255 || green > 255 || blue > 255 || alpha > 255) return null;
return new Color(red, green, blue, alpha);
}
/**
* Handles the selection of a cell
*
* @param cell The selected cell.
* @param well The well to handle.
* @param results The collection of objects to update.
*/
private void handleCellSelection(CellDisplay cell, WellImageSet well, List<DataObject> results) {
String description = cell.getDescription();
Color c = cell.getHighlight();
WellData data = (WellData) well.getHierarchyObject();
data.setWellType(description);
well.setDescription(description);
results.add(data);
if (c == null || !cell.isSpecified()) {
data.setRed(null);
} else {
data.setRed(c.getRed());
data.setGreen(c.getGreen());
data.setBlue(c.getBlue());
data.setAlpha(c.getAlpha());
}
well.setHighlight(c);
}
/**
* Creates a new instance.
*
* @param ctx The security context.
* @param parent The parent of the wells.
* @param wells The collection to wells the model is for.
* @param withThumbnails Pass <code>true</code> to load the thumbnails, <code>false</code>
* otherwise.
*/
WellsModel(SecurityContext ctx, Object parent, Set<WellData> wells, boolean withThumbnails) {
super(ctx);
if (wells == null) throw new IllegalArgumentException("No wells.");
this.withThumbnails = withThumbnails;
selectedNodes = new ArrayList<WellImageSet>();
wellDimension = null;
this.parent = parent;
wellNodes = sortByRow(DataBrowserTranslator.transformHierarchy(wells));
PlateData plate = (PlateData) parent;
columnSequenceIndex = plate.getColumnSequenceIndex();
rowSequenceIndex = plate.getRowSequenceIndex();
selectedField = plate.getDefaultSample();
if (selectedField < 0) selectedField = 0;
Set<ImageDisplay> samples = new HashSet<ImageDisplay>();
cells = new HashSet<CellDisplay>();
rows = -1;
columns = -1;
int row, column;
Iterator<ImageDisplay> j = wellNodes.iterator();
WellImageSet node;
ImageNode selected;
int f;
String columnSequence;
String rowSequence;
Map<Integer, ColourObject> cMap = new HashMap<Integer, ColourObject>();
Map<Integer, ColourObject> rMap = new HashMap<Integer, ColourObject>();
WellData data;
String type;
ColourObject co;
Color color;
boolean b;
validWells = new ArrayList<WellGridElement>();
int minRow = -1;
int minColumn = -1;
while (j.hasNext()) {
node = (WellImageSet) j.next();
row = node.getRow();
column = node.getColumn();
data = (WellData) node.getHierarchyObject();
type = data.getWellType();
if (cMap.containsKey(column)) {
co = cMap.get(column);
color = createColor(data);
if (!UIUtilities.isSameColors(co.getColor(), color, true)
|| !isSameDescription(co.getDescription(), type)) {
co.setColor(null);
co.setDescription(null);
cMap.put(column, co);
}
} else {
cMap.put(column, new ColourObject(createColor(data), type));
}
if (rMap.containsKey(row)) {
co = rMap.get(row);
color = createColor(data);
if (!UIUtilities.isSameColors(co.getColor(), color, true)
|| !isSameDescription(co.getDescription(), type)) {
co.setColor(null);
co.setDescription(null);
rMap.put(row, co);
}
} else {
rMap.put(row, new ColourObject(createColor(data), type));
}
if (row > rows) rows = row;
if (column > columns) columns = column;
if (minRow < 0 || minRow > row) {
minRow = row;
}
if (minColumn < 0 || minColumn > column) {
minColumn = column;
}
columnSequence = "";
if (columnSequenceIndex == PlateData.ASCENDING_LETTER)
columnSequence = UIUtilities.LETTERS.get(column + 1);
else if (columnSequenceIndex == PlateData.ASCENDING_NUMBER)
columnSequence = "" + (column + 1);
rowSequence = "";
if (rowSequenceIndex == PlateData.ASCENDING_LETTER)
rowSequence = UIUtilities.LETTERS.get(row + 1);
else if (rowSequenceIndex == PlateData.ASCENDING_NUMBER) rowSequence = "" + (row + 1);
node.setCellDisplay(columnSequence, rowSequence);
f = node.getNumberOfSamples();
if (fieldsNumber < f) fieldsNumber = f;
node.setSelectedWellSample(selectedField);
selected = node.getSelectedWellSample();
// set the title to Row/Column
node.formatWellSampleTitle();
samples.add(selected);
b = false;
if (node.isSampleValid()) {
wellDimension = selected.getThumbnail().getOriginalSize();
b = true;
}
validWells.add(new WellGridElement(row, column, b));
}
//
if (minRow >= 0 || minColumn >= 0) {
j = wellNodes.iterator();
while (j.hasNext()) {
node = (WellImageSet) j.next();
if (minRow > 0) node.setIndentRow(minRow);
if (minColumn > 0) node.setIndentColumn(minColumn);
if (node.getRow() == minRow || node.getColumn() == minColumn) node.formatWellSampleTitle();
}
}
columns++;
rows++;
CellDisplay cell;
for (int k = 1; k <= columns; k++) {
columnSequence = "";
if (columnSequenceIndex == PlateData.ASCENDING_LETTER)
columnSequence = UIUtilities.LETTERS.get(k + 1);
else if (columnSequenceIndex == PlateData.ASCENDING_NUMBER) columnSequence = "" + k;
cell = new CellDisplay(k - 1, columnSequence);
co = cMap.get(k - 1);
if (co != null) {
cell.setHighlight(co.getColor());
cell.setDescription(co.getDescription());
}
// if (!isMac)
// samples.add(cell);
// cells.add(cell);
}
for (int k = 1; k <= rows; k++) {
rowSequence = "";
if (rowSequenceIndex == PlateData.ASCENDING_LETTER) rowSequence = UIUtilities.LETTERS.get(k);
else if (rowSequenceIndex == PlateData.ASCENDING_NUMBER) rowSequence = "" + k;
cell = new CellDisplay(k - 1, rowSequence, CellDisplay.TYPE_VERTICAL);
co = rMap.get(k - 1);
if (co != null) {
cell.setHighlight(co.getColor());
cell.setDescription(co.getDescription());
}
// if (!isMac)
// samples.add(cell);
// cells.add(cell);
}
browser = BrowserFactory.createBrowser(samples);
browser.accept(new DecoratorVisitor(getCurrentUser().getId()));
layoutBrowser(LayoutFactory.PLATE_LAYOUT);
if (wellDimension == null)
wellDimension =
new Dimension(ThumbnailProvider.THUMB_MAX_WIDTH, ThumbnailProvider.THUMB_MAX_HEIGHT);
}