diff --git a/1_identify_fibers.py b/1_identify_fibers.py index ad1907986c7dfed0cc5db084e2866b0f8d4c96d0..15acdcfd82c07bc961bceef36cd0772b794f1425 100644 --- a/1_identify_fibers.py +++ b/1_identify_fibers.py @@ -554,8 +554,9 @@ save_all_rois( rm, output_dir + "all_fiber_rois.zip" ) if fiber_channel > 0: if min_fiber_intensity == 0: min_fiber_intensity = get_threshold_from_method(raw, fiber_channel, "Mean")[0] - IJ.log( "fiber intensity threshold: " + str(min_fiber_intensity) ) - + IJ.log( "automatic intensity threshold detection: True" ) + + IJ.log( "fiber intensity threshold: " + str(min_fiber_intensity) ) change_all_roi_color(rm, "blue") positive_fibers = select_positive_fibers( raw, fiber_channel, rm, min_fiber_intensity ) change_subset_roi_color(rm, positive_fibers, "magenta")