> On Feb 19, 2024, at 5:20 PM, Stein Rørvik
> <[email protected]> wrote:
>
> I have encountered a problem with "Fill" and "Clear Outside" in a macro.
The latest daily build (1.54i17) fixes a bug where calling run("Clear
Outside","slice")
set the foreground color to the background color.
-wayne
> What I want to do is to create a ROI on each slice in a stack based on
> fitting around the outline of a thresholded object,
> and fill inside and clear outside to create a mask, leaving an overlay of the
> selection.
>
> The problem is that "Fill" fills with the background color instead of the
> foreground color. It fills correctly on the first selected slice.
> The problem does not occur if either the "Fill" or "Clear Outside" command is
> removed. It also does not occur if done manually via the GUI.
>
> The following macro reproduces the problem:
>
> close("*t1*");
> run("T1 Head (16-bits)");
> run("8-bit");
> setSlice(nSlices/2);
> setAutoThreshold("IJ_IsoData dark no-reset");
> Color.setForeground("white");
> Color.setBackground("black");
> for (s = 50; s <= 100; s++) {
> setSlice(s);
> run("Create Selection");
> if (selectionType >= 0) {
> run("Fit Ellipse");
> run("Clear Outside", "slice");
> run("Fill", "slice"); //bug? this
> fills with black, except for on slice 50
> }
> Overlay.addSelection("red");
> Overlay.setPosition(s);
> }
> setSlice(nSlices/2);
> resetThreshold;
> Roi.remove;
>
>
> I am on Windows 10/64 using the latest daily build under Java 8 jre.
>
> Stein
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