In v3.2.0 release notes it became possible to call TrackMate from an IJ macro, the example was the following syntax:
run('TrackMate', "use_gui=false " + "save_to=[/Users/tinevez/Desktop/TrackMateSaveTest.xml] " + "export_to=[/Users/tinevez/Desktop/TrackMateExportTest.xml] " + "display_results=true " + "radius=2.5 " + "threshold=50.1 " + "subpixel=false " + "median=false " + "channel=1 " + "max_frame_gap=0" )
Are these currently the only things that can be specified in TrackMate by an IJ macro? I was hoping to be able to also include linking_max_distance and gap_closing_max_distance, and then open the analysis and save some of the results windows (using IJ macro language).
This would save me from having to halt the macro for user input (e.g. inputting the correct linking_max_distance and gap_closing_max_distance values, then clicking analysis and resuming the macro).
TrackMate really is great, and I thank everyone for their development of it as a great plugin.