Not sure what you mean... how is the healpix increasing in a run without alignment?
Also, classifications never increase the sampling dynamically, so what you are observing is pretty expected. For high-res classifications, I'd recommend starting with local search and giving an Autorefine data.star as input.
Cheers,
Björn
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Från: Collaborative Computational Project in Electron cryo-Microscopy <[log in to unmask]> för Dieter Blaas <[log in to unmask]>
Skickat: den 4 augusti 2018 22:56:57
Till: [log in to unmask]
Ämne: [ccpem] relion-3.0-beta Class3D converges at very low resolution
Hi Sjors and all,
using relion-3.0-beta2 I refined a virus to 3.8 A (~ 60,000 particles) by using symmetry. Trying to push the resolution further I run a Class3D with 3 classes but it never ever attained a resolution better than 8.39 A and the Healpixorder remained 3 and never increased. What might be wrong? A similar run without alignment resulted in a resolution of 4.79 A for the best class and the Healpixorder increased from 2 to 7 during the run.
Here is the command: `which relion_refine_mpi` --o Class3D/job108/run --i Refine3D/job102/better.star --ref PostProcess/job103/postprocess_masked.mrc --ini_high 60 --dont_combine_weights_via_disc --pool 3 --pad 2 --ctf --ctf_corrected_ref --iter 200 --tau2_fudge 4 --particle_diameter 400 --K 3 --flatten_solvent --oversampling 1 --healpix_order 3 --sigma_ang 1.66667 --offset_range 5 --offset_step 2 --sym I2 --norm --scale --j 2 --gpu ""
I do not know where the parameter "healpix_order 3" comes from as I did not define it.
Thanks for hints, bw Dieter
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Dieter Blaas,
Max F. Perutz Laboratories
Medical University of Vienna,
Inst. Med. Biochem., Vienna Biocenter (VBC),
Dr. Bohr Gasse 9/3,
A-1030 Vienna, Austria,
Tel: 0043 1 4277 61630,
Fax: 0043 1 4277 9616,
e-mail: [log in to unmask]<mailto:[log in to unmask]>
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