Error while running CellProfiler pipeline

cellprofiler

#1

Hi,

I am using CellProfiler 3.1.5 on mac.
I am testing a small pipeline and I am unable to save data as spreadsheet.
When I try to run the pipeline, it gives an error “Failure in analysis setup”.
I have attached the pipeline and an image for reference.
Any help is much appreciated.
Thanks.Archive.zip (4.8 MB)


#2

Hi,

Make sure to hit the top “Update button” first before hitting the bottom one (see below) after loading the images before hitting Analyze.


#3

Hi,
Thanks for your reply.
I hit update button on both “Metadata” and “Names and Types” but I am getting the same error.
I have to enter into test mode and analyze each image separately.
Thanks.


#4

One more error is about saving images as tiffs.
I am using “save image” module to save my images as tiffs. But other programs like “IDL” cannot read these tiffs. So I have to open these images in ImageJ and save again as tiffs so that they can used in downstream analysis.
Can you suggest anything that I can correct in the pipeline.
Here is the pipeline Pipeline_endo_40xsingle_2018.10.31.cpproj (1.7 MB)

Thanks.