setProperty

[Nuno Dias]

Hello,

Within a script, what would be the correct method for adding metadata to an image being created?
There is the method setProperty under Class ImagePlus, is this the one?
http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html#setProperty(java.lang.String,%20java.lang.Object)

Are there any methods for creating metadata standards (IPTC-IIM, IPTC Core, IPTC Extension, PLUS, Exif or Dublin Core)?

An image made visible using img.show() would keep this added metadata when saved manually by the user or when saved as a .tif by the script iself?

Could I see a little example of how to code for this in Python?

Thanks,
Nuno.

[Curtis Rueden]

Hi Nuno,

> I managed to add information to a newly created image

Cool.

As for your other question:

> Are there any methods for creating metadata standards (IPTC-IIM, IPTC

> Core, IPTC Extension, PLUS, Exif or Dublin Core)?

You could of course embed XML containing one of those metadata standards into your ImagePlus, which ImageJ will save to the TIFF comment. But of course ImageJ itself will know nothing about the structure or purpose of that metadata. You'd need custom plugins for that.

Regards,

Curtis

On Fri, May 31, 2013 at 11:46 AM, Nuno Dias <ngd...@gmail.com> wrote:

I managed to add information to a newly created image with:

img = ImagePlus("subimage", cp)

    fi = img.getFileInfo()
    fi.url = 'http://www.flickr.com/'
    img.setFileInfo(fi)
    img.show()

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[Nuno Dias]

I managed to add text to an image using something like:

img = ImagePlus("subimage", cp)

[create the image]
    fi = img.getFileInfo()
    fi.url = 'http://www.ibmc.up.pt/'
    img.setFileInfo(fi)
    img.show()

and when I go to the menu Image>Show info... I see this added information. But when I save this image as a .tif or .jpg the information is not preserved. Duplicating the image also makes the information disapear.

How can I add metadata info in such a way that it's preserved?
Thanks,
Nuno.

[Curtis Rueden]

Hi Nuno,

> How can I add metadata info in such a way that it's preserved?

Use:

fi.description = myMetadataString;

I figured this out by looking at the ImageJ source code:

https://github.com/fiji/ImageJA/blob/99e224cf27f85f5c1ea8fbf741d7112d1b1fbacc/src/main/java/ij/io/TiffEncoder.java#L112

https://github.com/fiji/ImageJA/blob/99e224cf27f85f5c1ea8fbf741d7112d1b1fbacc/src/main/java/ij/io/TiffEncoder.java#L433

Regards,

Curtis

Thanks,
Nuno.

[Nuno Dias]

Thank you, Curtis. It's really nice you're able to take some time to reply to these small coding problems :)

I can't see any information using the 'description' field as you suggested. Not on FIJI or Adobe Bridge, for example. I do see this tag in Bridge, under description: 'ImageJ=1.47q'. It's there for all images saved from FIJI.
I can still see the unpreserved information from url, like before. This is what I'm using for testing:

from java.util import Random

imp = IJ.createImage("A Random Image", "8-bit", 512, 512, 1)
Random().nextBytes(imp.getProcessor().getPixels())

fi = imp.getFileInfo()
fi.description = 'my_metadata'
fi.url = 'test'
imp.setFileInfo(fi)
imp.show()

Thanks,
Nuno.

[Curtis Rueden]

Hi Nuno,

> I can't see any information using the 'description' field as you suggested.

You're right. First of all, it seems to be overwritten, despite what I pointed out in the source code. Secondly, the description is not included in the UI metadata browser.

Sorry,

Curtis

Thanks,
Nuno.

--

[Nuno Dias]

Hi Curtis,

I'm digging up this old thread because I ran into another situation where it would be extremely useful to add metadata to newly created file or even to modify a metadata entry in an existing file.
I recently noticed when converting for example .dm3 files to .tiff the metadata is preserved. I had a mental note this was not happening before.

Was there an update to FIJI/ImageJ that introduced an improvement to metadata handling since your last reply? If yes, can I see an example?

Thanks,
Nuno.

[Curtis Rueden]

Hi Nuno,

> Was there an update to FIJI/ImageJ that introduced an improvement to

> metadata handling since your last reply? 

Sorry, I don't know.

-Curtis

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