[scipion-users] GCTF -- black psdFile column

[Dmitry A. S. <sem...@gm...>]

Dear colleagues,



During testing the new hardware/software, we have one more issue –

The gCTF results in the black frames output for the psdFile column.



Could you please suggest the solution?



Thank you



Sincerely,

Dmitry





runstdout

………………………

All 1 files to be searched and refined:

04024:           
Runs/003956_ProtGctf/tmp/mic_0024/20170629_00049_frameImage_aligned_mic.mrc

04025:   Warning in function gctf_open_sumlog(), file src/ctf.cu on line 
2965:No output ctfstar file! You may have to extract CTF information 
from *_gctf.log!

04026:   >>>>>>TIME<<<<<<                                                
      PREPARATION: 0.363971s

04027:   Reading file: 
Runs/003956_ProtGctf/tmp/mic_0024/20170629_00049_frameImage_aligned_mic.mrc

04028:   >>>>>>TIME<<<<<<                                                
          READING: 0.031053s

04029:   .

04030:   >>>>>>TIME<<<<<<                                                
              FFT: 1.224681s

04031:

04032:      Defocus_U   Defocus_V       Angle          CCC

04033:        2450.00     2550.00       27.18        -nan  Final Values

04034:

04035:   >>>>>>TIME<<<<<<                                                
             1S2R: 0.003816s

04036:   Resolution limit estimated by EPA:  1.916

04037:   Estimated Bfactor:  -0.00

04038:   >>>>>>TIME<<<<<<                                                
     LOCAL REFINE: 0.000000s

04039:   >>>>>>TIME<<<<<<                                                
       PHASE FLIP: 0.000000s

04040:   Processing done successfully.

04041:   
-------------------------------------------------------------------------------------------------------------------------------

04042:

04043:   FINISHED: estimateCtfStep, step 24

04044:     2020-05-28 22:13:10.064454

04045:   STARTED: createOutputStep, step 25

04046:     2020-05-28 22:13:10.094255

04047:   FINISHED: createOutputStep, step 25

04048:     2020-05-28 22:13:10.095781

04049:   *** Last status is finished

04050:   Cleaning temp folder....

04051:   ------------------- PROTOCOL FINISHED