These are chat archives for fiji/fiji

18th
Apr 2016
Kevin Mader
@kmader
Apr 18 2016 08:48
@bnorthan you can use imglib2 directly in Jupyter (IPython) Notebook with the Scala backend. I have converted a few of the tutorials and posted them here: https://github.com/4Quant/ImgLib2-Notebooks this even allows you to develop new ops and have them directly integrated.
Curtis Rueden
@ctrueden
Apr 18 2016 13:49
@kmader Would you be interested in migrating those into the imagej org on GitHub, and documenting/advertising them on the ImgLib2 and/or Ops wiki areas on imagej.net?
Seems like we ought to publicize them somehow, for everyone's benefit.
And ideally do something to at least minimally verify that they keep working over time.
@bnorthan Lee is still working on them, but the working draft is here. There is also a machine learning focused one which is rougher and we probably will not use.
Kevin Mader
@kmader
Apr 18 2016 14:15
@ctrueden definitely, i have a few ideas how we can make unit tests for them to integrate
Kyle I S Harrington
@kephale
Apr 18 2016 14:45
@kmader @ctrueden looks like converting the notebook to HTML (presumably under travis/jenkins) can work as an easy to implement quick test
@kmader for inline image display, it looks like you're writing images to a jpg temp file, and using a... built-in jupyter call to render?
Curtis Rueden
@ctrueden
Apr 18 2016 14:49
@kephale Yeah, I think that is a pretty sick hack to add that display function to the image objects.
(And by "sick" I mean all of "impressive" and "slick" and "grotesque")
Kyle I S Harrington
@kephale
Apr 18 2016 14:51
lol, thats fair, the clojure notebooks end up with a bit of clutter just to get into a decent environment, which got me thinking about an SciJava kernel for jupyter that might provide some of that functionality under the hood
Kevin Mader
@kmader
Apr 18 2016 14:51
@kephale @ctrueden exactly, ugly but functional, a new definition of fugly, I will make a library at some point to clean that up.