Dear Takanori,
This is the end of "run.out" file:
Auto-refine: Refinement has converged, stopping now...
Auto-refine: + Final reconstruction from all particles is saved as:
MultiBody/job1110/run_ct15_class001.mrc
Auto-refine: + Final model parameters are stored in:
MultiBody/job1110/run_ct15_model.star
Auto-refine: + Final data parameters are stored in:
MultiBody/job1110/run_ct15_data.star
Auto-refine: + Final resolution (without masking) is: 3.40645
Auto-refine: + But you may want to run relion_postprocess to mask the
unfil.mrc maps and calculate a higher resolution FSC
Last files produced:
run_ct15_half2_body001_unfil.mrc
run_ct15_half2_body002_unfil.mrc
run_ct15_half1_body001_unfil.mrc
run_ct15_half1_body002_unfil.mrc
run_ct15_data.star
run_ct15_body001.mrc
run_ct15_body002.mrc
run_ct15_body001_angdist.bild
run_ct15_body002_angdist.bild
run_ct15_model.star
run_ct15_sampling.star
run.out
After that there is no CPU activity, so it does not go into PCA step.
Also, a combined map of two bodies together is not produced - should it
be?, or it needs to made separately, e.g. in Chimera?
Thanks for your help!
Leonid
Prof. Leonid Sazanov
IST Austria
Am Campus 1
A-3400 Klosterneuburg
Austria
Phone: +43 2243 9000 3026
E-mail: [log in to unmask]
On 12/08/18 21:08, Takanori Nakane wrote:
> Hi,
>
> Yes, it should work without GPU.
>
> A MultiBody job proceeds in two steps.
>
> (1) multi-body refinement itself (relion_refine_mpi)
> (2) PCA analysis (relion_flex_analyser)
>
> Could you please look at the log file and see which step failed?
> Did the first step say "refinement has converged" and produce
> relevant STAR files?
>
> Best regards,
>
> Takanori Nakane
>
> On 2018/08/12 16:30, Leonid Sazanov wrote:
>> Hi, great new features in Relion3.0!
>>
>> A question - after running multibody refinement we don't get out the
>> results of PCA analysis, even though this option is set to "yes" in
>> GUI. The program stops but is not marked as finished. Is it supposed
>> to be working in CPU version of 3.0beta (the only one we have working
>> so far)?
>>
>> Many thanks!
>>
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