Refinement crashes during reconstruction

Submitted by jwhicher on Fri, 2015-11-13 14:53

Forums

Frealign

Hi,

I am refining using frealign version 9.11 151013 and during reconstruction frealign crashes with this error message:

NX, NY, NZ: 256 256 144865
MODE : real
Min, max : -5.532688 5.087115
Mean, RMS : 0.7233188E-02 1.003473
TITLE 1: Relion 1.4 12-Nov-15 11:09:02

Time before particle 9056 was 14:20:28
Cannot seek in file ...
mreconstruct.com finished
Terminating...

Have you seen this error before?

Thanks,
Jon

niko Sat, 2015-11-14 12:24

This looks to me like a problem with the particle stack. You should make sure that the stack contains all 144865 images. It is possible that despite the header info some data is missing and when Frealign is trying to read in particles beyond a certain point it reaches the end of the file. It is also possible that this is a disk-related problem and that for some reason the particle stack was not accessible for a short time. Were you able to run a complete cycle of refinement and reconstruction with this dataset before?