Terminal hangs when running a macro for image fusion headlessly, but not for other macros

[agustleoa]

Hi there!

I think this might be related to issue 130, but I'm unsure what the user meant. Hence the new issue.

When I run the following macro headlessly, two tiles are fused:

run("Image Fusion", "select=/path/to/dir/dataset.xml process_angle=[All angles] process_channel=[All channels] process_illumination=[All illuminations] process_tile=[All tiles] process_timepoint=[All Timepoints] bounding_box=[Currently Selected Views] downsampling=1 interpolation=[Linear Interpolation] fusion_type=[Avg, Blending] pixel_type=[32-bit floating point] interest_points_for_non_rigid=[-= Disable Non-Rigid =-] produce=[Each timepoint & channel] fused_image=[Save as (compressed) TIFF stacks] output_file_directory=/path/to/dir filename_addition=aardvark");

This is great! But my terminal hangs. Here are the last few lines in my terminal (in debug mode):

(Fri Feb 07 15:44:24 CET 2025): DONE.
[DEBUG] Discovered user interface: net.imagej.legacy.ui.LegacyUI
[DEBUG] Discovered user interface: org.scijava.ui.swing.sdi.SwingSDIUI
[DEBUG] Discovered user interface: org.scijava.ui.awt.AWTUI
[DEBUG] Discovered user interface: org.scijava.ui.swing.mdi.SwingMdiUI
[DEBUG] Discovered user interface: org.scijava.ui.headless.HeadlessUI
[DEBUG] Launching user interface: org.scijava.ui.headless.HeadlessUI
[DEBUG] publish(
context = org.scijava.Context@7d55141e
consumed = false
ui = headless,null,null), called from non-EDT Thread:null
[DEBUG] publish(
context = org.scijava.Context@7d55141e
consumed = false,null,null), called from non-EDT Thread:null
^C%

My understanding is that Fiji is calling upon some GUI element and waiting for user input. No GUI appears, and without the user input, the terminal hangs. I might be wrong though.

To check if this was a general problem with running macros headlessly, I ran my macros for defining a dataset, detecting interest points, and registering interest points. When running those headlessly, I did not run into any problems.

Here is my log file (without debugging): fusion_gui_2.log

Does anyone know how to fix this? Any thoughts or comments would be appreciated. Thanks!

Cheers,

Ágúst