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IMAGEJ archives -- July 2004 (#154)

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Message-ID:  <[log in to unmask]>
Date:         Fri, 23 Jul 2004 18:20:14 +0200
Reply-To:     ImageJ Interest Group <[log in to unmask]>
Sender:       ImageJ Interest Group <[log in to unmask]>
From:         Paulo Magalh�es <[log in to unmask]>
Subject:      Wand-selected ROI coordinates in plugin

Hello all,

I'm writing a plugin that requires the coordinates of a ROI. During the
initial writing stages I used the Freehand tool to draw a ROI. Eventually I
got the plugin to do exactly what I needed and in subsequent tests I used
the Polygon tool to draw a ROI; also in this case the plugin performs
perfectly. Now I've selected a ROI with the Wand tool and the plugin spat
out a lot of garbage results... :-(

I've tracked down the problem to the ROI coordinates. In the plugin, I use

    // Get the ROI
    Roi r = imp.getRoi();
[...]
    // Get the polygon
    PolygonRoi pr = (PolygonRoi)r;
[...]
    // Get the coordinates
    int[] xROItemp = pr.getXCoordinates();
    int[] yROItemp = pr.getYCoordinates();

This works well with traced ROIs (Freehand tool) and ROIs draw with the
Polygon tool, but collapses with the Wand tool... If I look at the XY
coordinates in the two arrays, they are different from the (real) XY
coordinates that I get if I export the ROI as "Save as... XY coordinates"...

I suspect that this is simply a reflex of my limited Java/ImageJ
programming repertoire :-) I shouldn't be using PolygonROI for a wand
selection, I guess... But I've tried looking through other plugins and I
haven't managed to find a solution. Any help is much appreciated.

All the best from Padua,

Paulo

Paulo Magalhaes, Ph.D.
University of Padua
Dept. Biomedical Sciences
Viale G. Colombo, 3             Tel: +39 049 827 6065
I-35121 Padua - Italy           Fax: +39 049 827 6049

http://www.bio.unipd.it/~pozzan/home.html
http://www.azuleon.com
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