[ImageJ-devel] Questions about imglib2

[Stephan Saalfeld]

Hi Brian,

> 1) How do I convert an net.imglib2.img.Img to a
> java.awt.image.BufferedImage?
> 

There is the interface ScreenImage which can return a BufferedImage

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/display/ScreenImage.java

implemented by ARGBScreenImage

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/display/ARGBScreenImage.java

and UnsignedByteScreenImage

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/display/UnsignedByteScreenImage.java

.  Both are Img themselves, so writing into their pixels changes the
content of the BufferedImage.  You can also map an arbitrary XY-plane of
a RandomAccessibleInterval (Img is one) into such a screen image using
either of the two Projectors:

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/display/XYProjector.java

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/display/XYRandomAccessibleProjector.java

which includes type conversion from your source type into either ARGB or
UnsignedByte using a Converter

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/converter/Converter.java

Default implementations are available, e.g.

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/core/src/main/java/net/imglib2/display/RealARGBConverter.java

An example how to use it together with ImageJ is here:

http://fiji.sc/cgi-bin/gitweb.cgi?p=imglib.git;a=blob;f=imglib2/tests/src/test/java/tests/OpenAndDisplayScreenImage.java;h=77a9dcffee790f6d202c3c730e7588b203a2def2;hb=HEAD


> 2) How do I write a net.imglib2.img.Img to disk as the usual formats
> (jpg, png, tiff) ? You have an ImgOpener but no ImgCloser err, I mean
> ImgWriter.
> 

Mark Hiner and Curtis Rueden are working on an ImageSaver:

https://github.com/ctrueden/bioformats/blob/imglib-io/components/scifio/src/ome/scifio/img/ImgSaver.java

Until this is finished, you will have to write data otherwise.

Best,
Stephan