Sample image and/or code
Images.zip (18.1 MB)
VER4 PIPELINE.cppipe (31.9 KB)
ErrorLog from console.txt (4.0 KB)
Images.zip file contains the actual tiff images.
VER4 PIPELINE.cppipe is the actual pipeline, which gives error.
ErrorLog from console.txt is the exported log from the concole window
The image is the final message we got after completing the whole process
These images are about tumour cells and immune cells.
To assess type of immune micro environment around tumour cells
What stops you from proceeding?
The analysis is completed, but we are unable to generate the CSV files in the output folder. We are almost trying this since a year. But, getting an error in the console window (attached in “ErrorLog from console.txt”). We are not sure why the CSV files are not getting generated. We need these CSV files to process it in FlowJo (another software).
What have you tried already?
We tried it using 2.2.0, 3.8, 3.8, 3.9 and 4.0.2 versions.
We tried in MAC and Windows machines.
We tried the example pipeline provided by the CellProfiler, which is working normally and generating the CSV files as expected.
Have you found any related forum topics? If so, cross-link them.
We are novice and no idea
What software packages and/or plugins have you tried?
We don’t have any other plugins of packages.