ERROR: particle image stack not found. Terminating...
Hi,
I ran frealign for the first time, and got this error. I converted XXX_data.star file from relion 3d autorefine by the script provided in this website. I made a image stack file by using relion_stack_create --i XXX_data.star --o XXX. I wanted to classify the particles into 4 classes so I edited the parameters file to do that. Just in case, I put the initial map XXX.mrc as an initial reference model. And I ran frealign by typing 'frealign_run_refine'. And I got this error message. "ERROR: particle parameter file not found. Terminating..." I gave some variations on parameters file as well as the environment. The stack contains more than 400k particles, and I ran it on both local workstation and cluster (slurm type). But I got the same error in both systems. Can you help me on this? Thanks a lot in advance..
Best,
Jin
p.s. attached is the m parameter file I used to run it, and the below is the first a few lines of XXX.par file made by the script
      1   70.23  114.57  -81.41    -16.99    -15.69   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      2  169.79  155.91  110.84     10.48    -18.69   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      3  -54.96   14.50  176.59     -3.82     -5.12   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      4    8.34  128.45  -51.84      6.43     21.45   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      5  -61.08  120.20 -124.98      3.23     -6.60   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      6 -143.21    8.32 -160.83      7.67     18.07   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      7   -8.71   39.19 -164.64    -10.98     15.59   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      8  132.76   88.77 -169.89     -6.42    -16.10   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
      9   60.13  119.51   30.33     -0.65    -11.05   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00
     10  122.15  115.61   27.99     -9.17    -13.07   38462     1  26608.0  25236.1  -70.44 100.00          0     0.5000    0.00    0.00




Please name your parameter
Please name your parameter file XXX_1_r1.par and try again. This name assumes that the first cycle (as indicated in your mparameters file) will be cycle 2. For naming conventions, please refer to Frealign: Getting Started.
it works-
In reply to Please name your parameter by niko
Thanks!