Invoking Napari from Julia Language 1.3.1

napari.jl

"""
napari.jl

Test using PyCall.jl to invoke Napari ( http://github.com/napari ) from
the Julia language ( https://julialang.org/ ) 1.3.1

Mark Kittisopikul
January 29th, 2020
"""

using PyCall

pygui_start(:qt5)
# needed to kickstart Qt5 for some reason
qapp_obj = pyimport("qtpy.QtWidgets").QApplication([""])
napari = pyimport("napari")

skimagedata = pyimport("skimage.data")
astronaut = skimagedata.astronaut();
# Modified 2020/09/14 to add name keyword argument
# https://github.com/napari/napari/issues/1630
napari.view_image(astronaut, name="astronaut")

using Images, TestImages

hela = testimage("hela-cells.tif");
hela = imadjustintensity(hela);
hela = channelview(hela);
hela = PermutedDimsArray(hela,(2,3,1));
#napari cannot handle UInt16 ?? Maybe QT issue
#hela = reinterpret(UInt16,hela);
napari.view_image(collect(Float32.(hela)))

mandrill = testimage("mandrill.tif");
mandrill = channelview(mandrill);
mandrill = reinterpret(UInt8,mandrill);
mandrill = PermutedDimsArray(mandrill,(2,3,1));
napari.view_image(collect(mandrill));

if !isinteractive()
    qapp_obj.exec()
end

Yeah, I guess PyCall.jl is still the best option atm.

If I can help you, just reach out. I'm not experienced in shipping PyCall based packages but maybe I can support adding edge cases which crash.

It would be also cool if it's possible to run Napari in different threads or to prevent that they crash the whole Pluto session.

I haven't forgotten about this. Just a bit busy at the moment.

If you are interested in a full blown Julia package, check out the early preview of Napari.jl: https://github.com/mkitti/Napari.jl