That got the values out, thanks! I'm running this through the -batch mode through cron (the DISPLAY is set to a vnc window), and it prints the values to the command line output. How would I save the values to a file?
I now have this for a macro:
open("file.png");
run("Select All");
run("Radial Profile", "x=128 y=128 radius=128");
selectWindow("Radial Profile Plot");
saveAs("PNG", "profileplot.png");
Plot.getValues(x,y);
for (i=0;i<x.length;i++)
print(x[i],y[i]);
saveAs("Text","plot.txt");
run("Text...", "save=plot.txt");
run("Quit");
But, it gives an error:
This command requires a TextWindow, such as the "Log" window, or an Editor window. Use File>Save>Text Image to save an image as text.
>>> "Rasband, Wayne (NIH/NIMH) [E]" <
[hidden email]> 7/29/2011 5:47 PM >>>
On Jul 29, 2011, at 11:44 AM, Gregory Book wrote:
> Thanks. What would the syntax look like for that macro?
>
> Currently I have this:
>
> open("file.png");
> run("Select All");
> run("Radial Profile", "x=128 y=128 radius=128");
> selectWindow("Radial Profile Plot");
> saveAs("PNG", "profileplot.png");
> run("Quit");
>
> How would I use the Plot.getValues?
Greg,
There is an example macro at
http://imagej.nih.gov/ij/macros/examples/PlotGetValuesDemo.txt-wayne
>>>> Michael Schmid <
[hidden email]> 7/29/2011 11:11 AM >>>
> Hi Greg,
>
> you can use the Plot.getValues(x, y) macro command with the Radial
> Profile plugin.
>
> Michael
> ________________________________________________________________
>
> On 29 Jul 2011, at 16:38, Gregory Book wrote:
>
>> Hi All,
>> I'm trying to automate analysis of images using the radial profile
>> plugin. I'm able to create a macro which opens a file, creates the
>> radial profile plot, and saves the plot as an image. However, I
>> can't seem to find a way to save the plot values as a text file.
>> There are the "List" "Save..." and "Copy..." buttons on the plot
>> window, but I can't seem to get those to work through a macro.
>>
>> Any ideas how to automate this?
>>
>> Thanks,
>> Greg
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