Possible bug?

[Richard Mort]

Hi,
 From a polygon selection I'd like to copy a donut shaped ROI (15 pixels
either side of selection) paste this into a new image and then overlay
the same polygon selection onto the pasted image. The polygon is not
always centred. The first macro shows the problem with this (the final
polygon does not align). I worked out how to fix this by cropping the
image first but the 'setKeyDown("alt");' command does not function
correctly in the second macro. I can't find a workaround is this a bug
or am I missing something?

//Macro 1:
newImage("Untitled", "RGB White", 1250, 1250, 1);
makePolygon(264,96,308,104,348,130,392,138,436,144,490,146,514,134,568,118,600,104,656,108,696,124,716,172,722,244,700,314,646,374,584,410,510,412,418,412,356,396,316,374,258,348,226,312,212,266,190,224,184,166,216,120);

width = getWidth();
height = getHeight();

getSelectionCoordinates(x,y);

{
makeSelection("polygon", x, y);
run("Enlarge...", "enlarge=15");
setKeyDown("alt");
makeSelection("polygon", x, y);
run("Enlarge...", "enlarge-15");

run("Copy");
close();
newImage("PatchPlot", "RGB Black", width, height, 1);
run("Paste");
run("Make Binary");

run("Median...", "radius=2");
}

//make polyline
makeSelection("polygon", x, y);


//.....................................................................

///Macro 2:
newImage("Untitled", "RGB White", 1250, 1250, 1);
makePolygon(264,96,308,104,348,130,392,138,436,144,490,146,514,134,568,118,600,104,656,108,696,124,716,172,722,244,700,314,646,374,584,410,510,412,418,412,356,396,316,374,258,348,226,312,212,266,190,224,184,166,216,120);

width = getWidth();
height = getHeight();

getSelectionCoordinates(x,y);

{
makeSelection("polygon", x, y);
run("Enlarge...", "enlarge=15");
setKeyDown("alt");
makeSelection("polygon", x, y);
run("Enlarge...", "enlarge-15");

run("Copy");
close();
newImage("PatchPlot", "RGB Black", width, height, 1);
run("Paste");
run("Make Binary");

run("Median...", "radius=2");
}

//make polyline
makeSelection("polygon", x, y);

--
Dr Richard Mort
MRC Human Genetics Unit
Western General Hospital
Crewe Road
Edinburgh
EH4 2XU, UK.

Phone: [phone] x 3205
Fax: [phone]

[Michael Schmid]

Hi Richard,

when copying part of an image, only the size is stored in the  
clipboard, not its position.
So for pasting into a specific area, the target image should have a  
selection that matches the selection where the clipboard comes from.
As long as the source image is open, you can easily transfer the  
selection by "restore selection", see the sample macro below.  
Otherwise, you can use the roi manager.

Michael
________________________________________________________________

///Macro 3:
newImage("Untitled", "RGB White", 1250, 1250, 1);
id = getImageID();
makePolygon
(264,96,308,104,348,130,392,138,436,144,490,146,514,134,568,118,600,104,
656,108,696,124,716,172,722,244,700,314,646,374,584,410,510,412,418,412,
356,396,316,374,258,348,226,312,212,266,190,224,184,166,216,120);

width = getWidth();
height = getHeight();

getSelectionCoordinates(x,y);

{
makeSelection("polygon", x, y);
run("Enlarge...", "enlarge=15");
setKeyDown("alt");
makeSelection("polygon", x, y);
run("Enlarge...", "enlarge-15");
run("Copy");

newImage("PatchPlot", "RGB Black", width, height, 1);
run("Restore Selection");
run("Paste");
run("Make Binary");

run("Median...", "radius=2");
}

//make polyline
makeSelection("polygon", x, y);

selectImage(id);
close();

________________________________________________________________

On 21 Nov 2008, at 11:35, Richard Mort wrote:

> Hi,
> From a polygon selection I'd like to copy a donut shaped ROI (15  
> pixels either side of selection) paste this into a new image and  
> then overlay the same polygon selection onto the pasted image. The  
> polygon is not always centred. The first macro shows the problem  
> with this (the final polygon does not align). I worked out how to  
> fix this by cropping the image first but the 'setKeyDown("alt");'  
> command does not function correctly in the second macro. I can't  
> find a workaround is this a bug or am I missing something?