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.vsi fill color fixes #4445

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.vsi fill color fixes #4445

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b91e8f0
CellSens: respect fill color setting
melissalinkert Jun 24, 2026
de810a7
Parse and apply default background color for each pyramid
melissalinkert Jun 24, 2026
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8 changes: 8 additions & 0 deletions components/formats-gpl/src/loci/formats/in/CellSensReader.java
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Original file line number Diff line number Diff line change
Expand Up @@ -529,6 +529,7 @@ public byte[] openBytes(int no, byte[] buf, int x, int y, int w, int h)
throws FormatException, IOException
{
FormatTools.checkPlaneParameters(this, no, buf.length, x, y, w, h);
Arrays.fill(buf, getFillColor());

if (getCoreIndex() < core.size() - 1 && getCoreIndex() < rows.size()) {
int tileRows = rows.get(getCoreIndex());
Expand All @@ -544,6 +545,9 @@ public byte[] openBytes(int no, byte[] buf, int x, int y, int w, int h)
int outputRowLen = w * pixel;

Pyramid pyramid = getCurrentPyramid();
if (pyramid.fillColor != null) {
Arrays.fill(buf, pyramid.fillColor);
}

for (int row=0; row<tileRows; row++) {
for (int col=0; col<tileCols; col++) {
Expand Down Expand Up @@ -1957,6 +1961,9 @@ else if (tag == GREEN_OFFSET) {
else if (tag == BLUE_OFFSET) {
pyramid.blueOffset = DataTools.parseDouble(value);
}
else if (tag == DEFAULT_BACKGROUND_COLOR) {
pyramid.fillColor = Byte.parseByte(value);
}
else if (tag == VALUE) {
if (tagPrefix.equals("Channel Wavelength ")) {
pyramid.channelWavelengths.add(DataTools.parseDouble(value));
Expand Down Expand Up @@ -2664,6 +2671,7 @@ class Pyramid {
public Double redOffset;
public Double greenOffset;
public Double blueOffset;
public Byte fillColor;

public ArrayList<String> channelNames = new ArrayList<String>();
public ArrayList<Double> channelWavelengths = new ArrayList<Double>();
Expand Down
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