Prediction gets stuck

[hamid13r]

Dear all,

I was trying to follow the fidder tutorial for Warptools session but the python code gets stuck forever when trying to predict the fiducial locations. Then I noticed the same thing happens to the command-line usage:
I run this command:
fidder predict --input-image frames/average/JTL016A_2_L01_ts_002_001_0001_-0.0_May04_02.40.07.mrc --probability-threshold 0.5 --output-mask mask.mrc

And I get this output:

fidder_output.txt

And nothing happens for a very long time (hours I believe).

Any idea what I am doing wrong? I even tried to bin the micrograph to make it very small, hoping to make it faster.

Thanks,
Hamid

[alisterburt]

Hi Hamid,

Are you comfortable dropping into the Python layer and running things manually to see where things get stuck? I suspect it's struggling to count pixels in each subregion in a poor segmentation