hansenjn / motiq Goto Github PK

Issue / Request submitted from a user by email:
I would like to be able to run the 3D analyser part of MotiQ from the command line, I was wondering if there is any way to do this? Can I make it into a Fiji macro which I can then somehow run on a linux workstation without opening the GUI? I tried to record a macro but the command only opens the first dialog box, I couldn’t figure out how to make the code to automatically choose the files to be batch processed and to start the processing.

Thank you very much in advance for your help!

It would be good to add parameters that quantify the cell body / soma of the cell (e.g., soma volume (3D) / area (2D)).

The 3D analysis of a Z-stack took over three hours! Is this typical? I have a Windows 11 laptop with 64GB RAM and a 16 GB GPU.

On a different computer, I'm getting the following error message when I try to run MotiQ Cropper:

`(Fiji Is Just) ImageJ 2.9.0/1.54a16; Java 1.8.0_322 [64-bit]; Windows 10 10.0; 539MB of 48948MB (1%)

java.lang.NullPointerException
at motiQ_cr.Cropper_.run(Cropper_.java:110)
at ij.IJ.runUserPlugIn(IJ.java:239)
at ij.IJ.runPlugIn(IJ.java:205)
at ij.Executer.runCommand(Executer.java:152)
at ij.Executer.run(Executer.java:70)
at java.lang.Thread.run(Thread.java:750)

`
I'm not sure how to interpret this error message. Can someone please tell me what is wrong and how do I rectify it? Thank you very much.
Mary