Update Plot window

[Michael Doube]

Hi all

I have a plugin that iterates in a while loop until convergence occurs
and I'd like to monitor the values graphically.  I can draw a Plot of
the values once the while loop has finished, but if I try to redraw the
plot with multiple calls to my graphResults() method I get a rather
large number of Plot windows.

How can I update a plot window with new data?  I'm collecting the Y data
in a Vector (because I can add values to it in the while loop).  My
plotting method is as follows:


private void graphResults(Vector<Double> anisotropyHistory){
        double[] yVariables = new double[anisotropyHistory.size()];
        double[] xVariables = new double[anisotropyHistory.size()];
        Enumeration<Double> e = anisotropyHistory.elements();
        int i = 0;
        while (e.hasMoreElements()){
            yVariables[i] = e.nextElement();
            xVariables[i] = (double)i;
            i++;
        }
        Plot plot = new Plot("Anisotropy", "Number of repeats", "Anisotropy",
                xVariables, yVariables);
        plot.addPoints(xVariables, yVariables, Plot.X);
        plot.setLimits(0, anisotropyHistory.size(), 0, 1);
        plot.show();
     }


Michael

[Michael Schmid]

Hi Michael,

instead of
    plot.show()
you can use
    plot.getProcessor();
and then in the corresponding ImagePlus (which must exist already)  
update the image:
   plotImagePlus.setProcessor(null, ip);

The Dynamic Profiler is an example for this:
   http://rsbweb.nih.gov/ij/plugins/dynamic-profiler.html

Michael
________________________________________________________________
On 18 Aug 2009, at 18:36, Michael Doube wrote:

> Hi all
>
> I have a plugin that iterates in a while loop until convergence  
> occurs and I'd like to monitor the values graphically.  I can draw  
> a Plot of the values once the while loop has finished, but if I try  
> to redraw the plot with multiple calls to my graphResults() method  
> I get a rather large number of Plot windows.
>
> How can I update a plot window with new data?  I'm collecting the Y  
> data in a Vector (because I can add values to it in the while  
> loop).  My plotting method is as follows:
>
>
> private void graphResults(Vector<Double> anisotropyHistory){
> double[] yVariables = new double[anisotropyHistory.size()];
> double[] xVariables = new double[anisotropyHistory.size()];
> Enumeration<Double> e = anisotropyHistory.elements();
> int i = 0;
> while (e.hasMoreElements()){
>    yVariables[i] = e.nextElement();
>    xVariables[i] = (double)i;
>    i++;
> }
> Plot plot = new Plot("Anisotropy", "Number of repeats", "Anisotropy",
> xVariables, yVariables);
> plot.addPoints(xVariables, yVariables, Plot.X);
> plot.setLimits(0, anisotropyHistory.size(), 0, 1);
> plot.show();
>     }
>
>
> Michael

[David Webster]

Michael,

I just tried the The Dynamic Profiler. Its works as described when you move
the profile. But, when I use Process/Smooth, Sharpen, or Find Edges, the
profile selection (I used a line) disappears and the profile plot doesn't
change.

David Webster

On Tue, Aug 18, 2009 at 10:00 AM, Michael Schmid <[hidden email]>wrote:

> Hi Michael,
>
> instead of
>   plot.show()
> you can use
>   plot.getProcessor();
> and then in the corresponding ImagePlus (which must exist already) update
> the image:
>  plotImagePlus.setProcessor(null, ip);
>
> The Dynamic Profiler is an example for this:
>  http://rsbweb.nih.gov/ij/plugins/dynamic-profiler.html
>
> Michael
> ________________________________________________________________
>
> On 18 Aug 2009, at 18:36, Michael Doube wrote:
>
> Hi all
>>
>> I have a plugin that iterates in a while loop until convergence occurs and
>> I'd like to monitor the values graphically.  I can draw a Plot of the values
>> once the while loop has finished, but if I try to redraw the plot with
>> multiple calls to my graphResults() method I get a rather large number of
>> Plot windows.
>>
>> How can I update a plot window with new data?  I'm collecting the Y data
>> in a Vector (because I can add values to it in the while loop).  My plotting
>> method is as follows:
>>
>>
>> private void graphResults(Vector<Double> anisotropyHistory){
>>        double[] yVariables = new double[anisotropyHistory.size()];
>>        double[] xVariables = new double[anisotropyHistory.size()];
>>        Enumeration<Double> e = anisotropyHistory.elements();
>>        int i = 0;
>>        while (e.hasMoreElements()){
>>            yVariables[i] = e.nextElement();
>>            xVariables[i] = (double)i;
>>            i++;
>>        }
>>        Plot plot = new Plot("Anisotropy", "Number of repeats",
>> "Anisotropy",
>>                xVariables, yVariables);
>>        plot.addPoints(xVariables, yVariables, Plot.X);
>>        plot.setLimits(0, anisotropyHistory.size(), 0, 1);
>>        plot.show();
>>    }
>>
>>
>> Michael
>>
>

[Wayne Rasband]

On Aug 18, 2009, at 3:14 PM, David Webster wrote:

> Michael,
>
> I just tried the The Dynamic Profiler. Its works as described when  
> you move
> the profile. But, when I use Process/Smooth, Sharpen, or Find Edges,  
> the
> profile selection (I used a line) disappears and the profile plot  
> doesn't
> change.
>
> David Webster

There is an updated Dynamic Profiler at

    http://rsb.info.nih.gov/ij/plugins/dynamic-profiler.html

that fixes this bug.

-wayne

>
> On Tue, Aug 18, 2009 at 10:00 AM, Michael Schmid <[hidden email]
> >wrote:
>
>> Hi Michael,
>>
>> instead of
>>  plot.show()
>> you can use
>>  plot.getProcessor();
>> and then in the corresponding ImagePlus (which must exist already)  
>> update
>> the image:
>> plotImagePlus.setProcessor(null, ip);
>>
>> The Dynamic Profiler is an example for this:
>> http://rsbweb.nih.gov/ij/plugins/dynamic-profiler.html
>>
>> Michael
>> ________________________________________________________________
>>
>> On 18 Aug 2009, at 18:36, Michael Doube wrote:
>>
>> Hi all
>>>
>>> I have a plugin that iterates in a while loop until convergence  
>>> occurs and
>>> I'd like to monitor the values graphically.  I can draw a Plot of  
>>> the values
>>> once the while loop has finished, but if I try to redraw the plot  
>>> with
>>> multiple calls to my graphResults() method I get a rather large  
>>> number of
>>> Plot windows.
>>>
>>> How can I update a plot window with new data?  I'm collecting the  
>>> Y data
>>> in a Vector (because I can add values to it in the while loop).  
>>> My plotting
>>> method is as follows:
>>>
>>>
>>> private void graphResults(Vector<Double> anisotropyHistory){
>>>       double[] yVariables = new double[anisotropyHistory.size()];
>>>       double[] xVariables = new double[anisotropyHistory.size()];
>>>       Enumeration<Double> e = anisotropyHistory.elements();
>>>       int i = 0;
>>>       while (e.hasMoreElements()){
>>>           yVariables[i] = e.nextElement();
>>>           xVariables[i] = (double)i;
>>>           i++;
>>>       }
>>>       Plot plot = new Plot("Anisotropy", "Number of repeats",
>>> "Anisotropy",
>>>               xVariables, yVariables);
>>>       plot.addPoints(xVariables, yVariables, Plot.X);
>>>       plot.setLimits(0, anisotropyHistory.size(), 0, 1);
>>>       plot.show();
>>>   }
>>>
>>>
>>> Michael
>>>
>>

[David Webster]

Thanks Wayne!

On Tue, Aug 18, 2009 at 7:19 PM, Wayne Rasband <[hidden email]> wrote:

> On Aug 18, 2009, at 3:14 PM, David Webster wrote:
>
> Michael,
>>
>> I just tried the The Dynamic Profiler. Its works as described when you
>> move
>> the profile. But, when I use Process/Smooth, Sharpen, or Find Edges, the
>> profile selection (I used a line) disappears and the profile plot doesn't
>> change.
>>
>> David Webster
>>
>
> There is an updated Dynamic Profiler at
>
>   http://rsb.info.nih.gov/ij/plugins/dynamic-profiler.html
>
> that fixes this bug.
>
> -wayne
>
>
>
>
>> On Tue, Aug 18, 2009 at 10:00 AM, Michael Schmid <[hidden email]
>> >wrote:
>>
>> Hi Michael,
>>>
>>> instead of
>>>  plot.show()
>>> you can use
>>>  plot.getProcessor();
>>> and then in the corresponding ImagePlus (which must exist already) update
>>> the image:
>>> plotImagePlus.setProcessor(null, ip);
>>>
>>> The Dynamic Profiler is an example for this:
>>> http://rsbweb.nih.gov/ij/plugins/dynamic-profiler.html
>>>
>>> Michael
>>> ________________________________________________________________
>>>
>>> On 18 Aug 2009, at 18:36, Michael Doube wrote:
>>>
>>> Hi all
>>>
>>>>
>>>> I have a plugin that iterates in a while loop until convergence occurs
>>>> and
>>>> I'd like to monitor the values graphically.  I can draw a Plot of the
>>>> values
>>>> once the while loop has finished, but if I try to redraw the plot with
>>>> multiple calls to my graphResults() method I get a rather large number
>>>> of
>>>> Plot windows.
>>>>
>>>> How can I update a plot window with new data?  I'm collecting the Y data
>>>> in a Vector (because I can add values to it in the while loop).  My
>>>> plotting
>>>> method is as follows:
>>>>
>>>>
>>>> private void graphResults(Vector<Double> anisotropyHistory){
>>>>      double[] yVariables = new double[anisotropyHistory.size()];
>>>>      double[] xVariables = new double[anisotropyHistory.size()];
>>>>      Enumeration<Double> e = anisotropyHistory.elements();
>>>>      int i = 0;
>>>>      while (e.hasMoreElements()){
>>>>          yVariables[i] = e.nextElement();
>>>>          xVariables[i] = (double)i;
>>>>          i++;
>>>>      }
>>>>      Plot plot = new Plot("Anisotropy", "Number of repeats",
>>>> "Anisotropy",
>>>>              xVariables, yVariables);
>>>>      plot.addPoints(xVariables, yVariables, Plot.X);
>>>>      plot.setLimits(0, anisotropyHistory.size(), 0, 1);
>>>>      plot.show();
>>>>  }
>>>>
>>>>
>>>> Michael
>>>>
>>>>
>>>

[Michael Doube]

Hi Michael,

Thanks for the hint,  it works really well!

Michael

Michael Schmid wrote:

> Hi Michael,
>
> instead of
>     plot.show()
> you can use
>     plot.getProcessor();
> and then in the corresponding ImagePlus (which must exist already)  
> update the image:
>    plotImagePlus.setProcessor(null, ip);
>
> The Dynamic Profiler is an example for this:
>    http://rsbweb.nih.gov/ij/plugins/dynamic-profiler.html
>
> Michael
> ________________________________________________________________
> On 18 Aug 2009, at 18:36, Michael Doube wrote:
>
>> Hi all
>>
>> I have a plugin that iterates in a while loop until convergence  
>> occurs and I'd like to monitor the values graphically.  I can draw  
>> a Plot of the values once the while loop has finished, but if I try  
>> to redraw the plot with multiple calls to my graphResults() method  
>> I get a rather large number of Plot windows.
>>
>> How can I update a plot window with new data?  I'm collecting the Y  
>> data in a Vector (because I can add values to it in the while  
>> loop).  My plotting method is as follows:
>>
>>
>> private void graphResults(Vector<Double> anisotropyHistory){
>> double[] yVariables = new double[anisotropyHistory.size()];
>> double[] xVariables = new double[anisotropyHistory.size()];
>> Enumeration<Double> e = anisotropyHistory.elements();
>> int i = 0;
>> while (e.hasMoreElements()){
>>    yVariables[i] = e.nextElement();
>>    xVariables[i] = (double)i;
>>    i++;
>> }
>> Plot plot = new Plot("Anisotropy", "Number of repeats", "Anisotropy",
>> xVariables, yVariables);
>> plot.addPoints(xVariables, yVariables, Plot.X);
>> plot.setLimits(0, anisotropyHistory.size(), 0, 1);
>> plot.show();
>>     }
>>
>>
>> Michael

[Johannes-P. Koch]

Dear all,

the macro function File.name used to return the file name without the
directory before the name. This appears to have changed with the newest
release. I know that it is possible to work around this issue in a macro,
however, I suppose it is much easier the other way around, namely to add the
directory whenever needed...

Thanks
Johannes

________________________________________
Johannes-P. KOCH
University of Vienna, MFPL
Department of Biochemistry and Cell Biology
Dr. Bohrgasse 9/5
A-1030 Vienna
Austria

phone: [phone]
fax: [phone]

mail to: [hidden email]


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[Wayne Rasband]

On Aug 19, 2009, at 10:46 AM, Johannes-P. KOCH wrote:

> Dear all,
>
> the macro function File.name used to return the file name without the
> directory before the name. This appears to have changed with the
> newest release. I know that it is possible to work around this issue
> in a macro, however, I suppose it is much easier the other way around,
> namely to add the directory whenever needed...

This bug is fixed in the 1.43f daily build. It only occurred on Windows
and only after using the open(path) macro function.

-wayne