get LOCI information in Java/JavaScript/Jython

[Christian Tischer]

hello,

i am using LOCI to open an image as a Standard ImageJ:

IJ.run("Bio-Formats Importer", "open="+path+" color_mode=Default
view=[Standard ImageJ] stack_order=Default");

however i anyway would like to get the information on how many channels and
z-slices and time-points the Bio-Formats importer thinks the image has.
in fact this information is displayed in the Image Sub-Title after opening
it, so it must be there :-)

my problem is that i do not know how to get programmatic access to these
numbers in Java/JavaScript/Jython (not using MacroExtensions!).

would be great if someone could help!

Cheers, Tischi

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[Albert Cardona-2]

2012/7/20 Christian Tischer <[hidden email]>:

> hello,
>
> i am using LOCI to open an image as a Standard ImageJ:
>
> IJ.run("Bio-Formats Importer", "open="+path+" color_mode=Default
> view=[Standard ImageJ] stack_order=Default");
>
> however i anyway would like to get the information on how many channels and
> z-slices and time-points the Bio-Formats importer thinks the image has.
> in fact this information is displayed in the Image Sub-Title after opening
> it, so it must be there :-)
>
> my problem is that i do not know how to get programmatic access to these
> numbers in Java/JavaScript/Jython (not using MacroExtensions!).

Ask the ImagePlus:

  http://www.ini.uzh.ch/~acardona/fiji-tutorial/#imageplus

Relevant snippet in Jython:

# Grab the last activated image
imp = IJ.getImage()

# Print image details
print "title:", imp.title
print "width:", imp.width
print "height:", imp.height
print "number of pixels:", imp.width * imp.height
print "number of slices:", imp.getNSlices()
print "number of channels:", imp.getNChannels()
print "number of time frames:", imp.getNFrames()

Albert


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http://albert.rierol.net
http://www.ini.uzh.ch/~acardona/

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[Christian Tischer]

oops. that works in fact. somehow i did not expect ImagePlus to know this
information without actually being a hyperstack.
sorry for the stupid question :-)

thanks Albert!!


On Fri, Jul 20, 2012 at 12:07 PM, Albert Cardona <[hidden email]> wrote:

> 2012/7/20 Christian Tischer <[hidden email]>:
> > hello,
> >
> > i am using LOCI to open an image as a Standard ImageJ:
> >
> > IJ.run("Bio-Formats Importer", "open="+path+" color_mode=Default
> > view=[Standard ImageJ] stack_order=Default");
> >
> > however i anyway would like to get the information on how many channels
> and
> > z-slices and time-points the Bio-Formats importer thinks the image has.
> > in fact this information is displayed in the Image Sub-Title after
> opening
> > it, so it must be there :-)
> >
> > my problem is that i do not know how to get programmatic access to these
> > numbers in Java/JavaScript/Jython (not using MacroExtensions!).
>
>
> Ask the ImagePlus:
>
>   http://www.ini.uzh.ch/~acardona/fiji-tutorial/#imageplus
>
> Relevant snippet in Jython:
>
> # Grab the last activated image
> imp = IJ.getImage()
>
> # Print image details
> print "title:", imp.title
> print "width:", imp.width
> print "height:", imp.height
> print "number of pixels:", imp.width * imp.height
> print "number of slices:", imp.getNSlices()
> print "number of channels:", imp.getNChannels()
> print "number of time frames:", imp.getNFrames()
>
> Albert
>
>
> --
> http://albert.rierol.net
> http://www.ini.uzh.ch/~acardona/
>

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