Execute "Line to Area" from "segmented line" roi

[guitarro17]

Hi!

I use ImageJ as library in my application, and I have a sequence of points that form a segmented line.
I'm having some trouble in turning this segmented line into an area selection/roi (Like the menu Edit -> Selection -> Line to Area), and then crop the image.

My code until now, but that doesn't work:

ImagePlus imp = new ImagePlus("", ip);
PolygonRoi s = new PolygonRoi(xPoints, yPoints, nPoints, Roi.POLYLINE);
imp.setRoi(s);
IJ.run(imp, "Line to Area", "");
IJ.run(imp, "Crop", "");
ImageProcessor ip2 = imp.getProcessor();

What should I do? thanks!

[Rasband, Wayne (NIH/NIMH) [E]]

On Aug 21, 2014, at 10:18 PM, guitarro17 wrote:

> Hi!
>
> I use ImageJ as library in my application, and I have a sequence of points
> that form a segmented line.
> I'm having some trouble in turning this segmented line into an area
> selection/roi (Like the menu Edit -> Selection -> Line to Area), and then
> crop the image.

Set the width of the segmented line selection and the Edit>Selection>Line to Area command will work as expected. The following JavaScript example creates a segmented line selection, sets its width to 35 pixels and then uses "Line to Area" to convert it into an area selection. There is a screenshot of the output at <http://wsr.imagej.net/images/LineToArea.png>.

-wayne

   imp = IJ.createImage("Untitled","8-bit black",300,200,1);
   xpoints = [55,105,164,209,229,217];
   ypoints = [111,137,132,102,62,25];
   line = new PolygonRoi(xpoints,ypoints,Roi.POLYLINE);
   imp.setRoi(line);
   IJ.run(imp, "Fit Spline", "");
   IJ.setForegroundColor(255,255,255);
   IJ.run(imp, "Draw","");
   line.setStrokeWidth(35);
   IJ.run(imp, "Line to Area","");
   IJ.run(imp, "Crop", "");
   imp.show();

> My code until now, but that doesn't work:
>
> ImagePlus imp = new ImagePlus("", ip);
> PolygonRoi s = new PolygonRoi(xPoints, yPoints, nPoints, Roi.POLYLINE);
> imp.setRoi(s);
> IJ.run(imp, "Line to Area", "");
> IJ.run(imp, "Crop", "");
> ImageProcessor ip2 = imp.getProcessor();
>
> What should I do? thanks!
>
> --
> View this message in context: http://imagej.1557.x6.nabble.com/Execute-Line-to-Area-from-segmented-line-roi-tp5009299.html
> Sent from the ImageJ mailing list archive at Nabble.com.

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[guitarro17]

Thanks, I will try that!

:)

Abraço,

Prof. Guilherme Chagas Kurtz
Cursos de Ciência da Computação e Sistemas de Informação
UNIFRA - Centro Universitário Franciscano
Rua dos Andradas 1614 - 97010-032 - Centro - Santa Maria - RS
[phone]

2014-08-23 14:06 GMT-03:00 Rasband, Wayne (NIH/NIMH) [E] [via ImageJ] <[hidden email]>:

On Aug 21, 2014, at 10:18 PM, guitarro17 wrote:

> Hi!
>
> I use ImageJ as library in my application, and I have a sequence of points
> that form a segmented line.
> I'm having some trouble in turning this segmented line into an area
> selection/roi (Like the menu Edit -> Selection -> Line to Area), and then
> crop the image.

Set the width of the segmented line selection and the Edit>Selection>Line to Area command will work as expected. The following JavaScript example creates a segmented line selection, sets its width to 35 pixels and then uses "Line to Area" to convert it into an area selection. There is a screenshot of the output at <http://wsr.imagej.net/images/LineToArea.png>.

-wayne

   imp = IJ.createImage("Untitled","8-bit black",300,200,1);
   xpoints = [55,105,164,209,229,217];
   ypoints = [111,137,132,102,62,25];
   line = new PolygonRoi(xpoints,ypoints,Roi.POLYLINE);
   imp.setRoi(line);
   IJ.run(imp, "Fit Spline", "");
   IJ.setForegroundColor(255,255,255);
   IJ.run(imp, "Draw","");
   line.setStrokeWidth(35);
   IJ.run(imp, "Line to Area","");

   IJ.run(imp, "Crop", "");
   imp.show();

> My code until now, but that doesn't work:
>
> ImagePlus imp = new ImagePlus("", ip);
> PolygonRoi s = new PolygonRoi(xPoints, yPoints, nPoints, Roi.POLYLINE);
> imp.setRoi(s);
> IJ.run(imp, "Line to Area", "");
> IJ.run(imp, "Crop", "");
> ImageProcessor ip2 = imp.getProcessor();
>
> What should I do? thanks!
>

> --
> View this message in context: http://imagej.1557.x6.nabble.com/Execute-Line-to-Area-from-segmented-line-roi-tp5009299.html
> Sent from the ImageJ mailing list archive at Nabble.com.

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

---

If you reply to this email, your message will be added to the discussion below:

http://imagej.1557.x6.nabble.com/Execute-Line-to-Area-from-segmented-line-roi-tp5009299p5009317.html

To unsubscribe from Execute "Line to Area" from "segmented line" roi, click here.
NAML

[guitarro17]

Just curious, because I could not find the answer on google: what the "Fit Spline" command do?

Abraço,

Prof. Guilherme Chagas Kurtz
Cursos de Ciência da Computação e Sistemas de Informação
UNIFRA - Centro Universitário Franciscano
Rua dos Andradas 1614 - 97010-032 - Centro - Santa Maria - RS
[phone]

2014-08-23 18:16 GMT-03:00 Guilherme Kurtz <[hidden email]>:

Thanks, I will try that!

:)

Abraço,

Prof. Guilherme Chagas Kurtz
Cursos de Ciência da Computação e Sistemas de Informação
UNIFRA - Centro Universitário Franciscano
Rua dos Andradas 1614 - 97010-032 - Centro - Santa Maria - RS
[phone]

2014-08-23 14:06 GMT-03:00 Rasband, Wayne (NIH/NIMH) [E] [via ImageJ] <[hidden email]>:

On Aug 21, 2014, at 10:18 PM, guitarro17 wrote:

> Hi!
>
> I use ImageJ as library in my application, and I have a sequence of points
> that form a segmented line.
> I'm having some trouble in turning this segmented line into an area
> selection/roi (Like the menu Edit -> Selection -> Line to Area), and then
> crop the image.

Set the width of the segmented line selection and the Edit>Selection>Line to Area command will work as expected. The following JavaScript example creates a segmented line selection, sets its width to 35 pixels and then uses "Line to Area" to convert it into an area selection. There is a screenshot of the output at <http://wsr.imagej.net/images/LineToArea.png>.

-wayne

   imp = IJ.createImage("Untitled","8-bit black",300,200,1);
   xpoints = [55,105,164,209,229,217];
   ypoints = [111,137,132,102,62,25];
   line = new PolygonRoi(xpoints,ypoints,Roi.POLYLINE);
   imp.setRoi(line);
   IJ.run(imp, "Fit Spline", "");
   IJ.setForegroundColor(255,255,255);
   IJ.run(imp, "Draw","");
   line.setStrokeWidth(35);
   IJ.run(imp, "Line to Area","");

   IJ.run(imp, "Crop", "");
   imp.show();

> My code until now, but that doesn't work:
>
> ImagePlus imp = new ImagePlus("", ip);
> PolygonRoi s = new PolygonRoi(xPoints, yPoints, nPoints, Roi.POLYLINE);
> imp.setRoi(s);
> IJ.run(imp, "Line to Area", "");
> IJ.run(imp, "Crop", "");
> ImageProcessor ip2 = imp.getProcessor();
>
> What should I do? thanks!
>

> --
> View this message in context: http://imagej.1557.x6.nabble.com/Execute-Line-to-Area-from-segmented-line-roi-tp5009299.html
> Sent from the ImageJ mailing list archive at Nabble.com.

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

---

If you reply to this email, your message will be added to the discussion below:

http://imagej.1557.x6.nabble.com/Execute-Line-to-Area-from-segmented-line-roi-tp5009299p5009317.html

To unsubscribe from Execute "Line to Area" from "segmented line" roi, click here.
NAML

[Gabriel Landini]

On Saturday 23 Aug 2014 14:15:44 you wrote:
> Just curious, because I could not find the answer on google: what the "Fit
> Spline" command do?

You can find what all the commands do using the online documentation.
http://rsbweb.nih.gov/ij/docs/guide/146.html

In this case:
http://rsbweb.nih.gov/ij/docs/guide/146-27.html

27.12.4 Fit Spline
Fits a cubic spline curve to a polygon or polyline selection (see ROI
manipulations).

If you want to know what the command does in terms of what code it executes,
use CTRL-L and type Fit Spine in the Search box. That shows you that the
command calls ij.plugin.Selection("spline")

Hope this helps.
Cheers

Gabriel

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[guitarro17]

Sure it helps! Thanks Gabriel :D

Abraço,

Prof. Guilherme Chagas Kurtz
Cursos de Ciência da Computação e Sistemas de Informação
UNIFRA - Centro Universitário Franciscano
Rua dos Andradas 1614 - 97010-032 - Centro - Santa Maria - RS
[phone]

2014-08-24 4:36 GMT-03:00 Gabriel Landini [via ImageJ] <[hidden email]>:

On Saturday 23 Aug 2014 14:15:44 you wrote:
> Just curious, because I could not find the answer on google: what the "Fit
> Spline" command do?

You can find what all the commands do using the online documentation.
http://rsbweb.nih.gov/ij/docs/guide/146.html

In this case:
http://rsbweb.nih.gov/ij/docs/guide/146-27.html

27.12.4 Fit Spline
Fits a cubic spline curve to a polygon or polyline selection (see ROI
manipulations).

If you want to know what the command does in terms of what code it executes,
use CTRL-L and type Fit Spine in the Search box. That shows you that the
command calls ij.plugin.Selection("spline")

Hope this helps.
Cheers

Gabriel

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

---

If you reply to this email, your message will be added to the discussion below:

http://imagej.1557.x6.nabble.com/Execute-Line-to-Area-from-segmented-line-roi-tp5009299p5009322.html

To unsubscribe from Execute "Line to Area" from "segmented line" roi, click here.
NAML