Alignment failing

Image Analysis
#1

I am using cellprofiler 4.06 have the following error when trying to analyze my pictures in the alignment section.

Worker 1: Error detected during run of module Align#6
Worker 1: Traceback (most recent call last):
Worker 1: File “cellprofiler_core\pipeline_pipeline.py”, line 1142, in run_image_set
Worker 1: File “cellprofiler_core\pipeline_pipeline.py”, line 1275, in run_module
Worker 1: File “cellprofiler_core\modules\align.py”, line 283, in run
Worker 1: File “cellprofiler_core\modules\align.py”, line 407, in align
Worker 1: File “cellprofiler_core\modules\align.py”, line 469, in align_cross_correlation
Worker 1: File “scipy\fftpack\basic.py”, line 394, in fft2
Worker 1: File “scipy\fftpack\basic.py”, line 334, in fftn
Worker 1: File “scipy\fftpack\helper.py”, line 104, in _good_shape
Worker 1: ValueError: The truth value of an array with more than one element is ambiguous. Use a.any() or a.all()

What may be the cause?

#2

Hi @Ofir_Griess,

Would you be able to upload a copy of the pipeline that triggered this, with a test image if possible?

Thanks

#3

Dear David,
I’m attaching the pipeline and a test set of pictures in a drive link. It runs well on versions 3.19 and older but not on 4.06.

Link to drive