Strange results in global CTF refinement

[stefanocapaldi]

Hi.
I have a particle stack imported from relion (preprocessing: relion motion correction + CTFfind CTF estimation). When I try global CTF refinement on these particles, I get very strange results:

this is for odd terms:

And this for even terms:

the imput map is good and the estimate is between 10 and 3.4 A.
It seems to me that it does not fit anything…

When performing local CTF refinement on the same particles (with the same imput volume), it seems to work as usual with local minima close to 0.

I have done the same with other stacks from Relion in other projects and all went well.
Any suggestions?
Cheers
Strefano

[wtempel]

@stefanocapaldi Please can you post the output of the command

cryosparcm cli "get_job('P99', 'J199', 'job_type', 'version', 'status',  'params_spec')"

where you replace P99, J199 with the global CTF refinement job’s project and job ID’s, respectively
and the gold standard resolution of the currently best refined reconstruction for these particles.

[stefanocapaldi]

HI!
this is the output of the command:

{‘_id’: ‘673762d1a5553846a7fcbd9c’, ‘job_type’: ‘import_particles’, ‘params_spec’: {‘blob_exists’: {‘value’: True}, ‘ctf_exists’: {‘value’: True}, ‘enable_validation’: {‘value’: True}, ‘particle_blob_path’: {‘value’: ‘/media/stefano/data1/projects/bgal/relion/Extract/Extract_ptc_from_J016_at_360_px,_no_binning/movies’}, ‘particle_meta_path’: {‘value’: ‘/media/stefano/data1/projects/bgal/relion/Extract/Extract_ptc_from_J016_at_360_px,_no_binning/particles.star’}, ‘pick_stats_exists’: {‘value’: True}}, ‘project_uid’: ‘P14’, ‘status’: ‘completed’, ‘uid’: ‘J86’, ‘version’: ‘v4.6.0’}

the resolution of the best reconsctuction with these particles in so far is 3.48 A

[wtempel]

@stefanocapaldi

‘job_type’: ‘import_particles’

Please can you also post the output of the equivalent get_job() command for the global CTF refinement job.

[stefanocapaldi]

sorry, I digitet the wrong job number…
here is the output:
{‘_id’: ‘673b47e6a5553846a7286505’, ‘job_type’: ‘ctf_refine_global’, ‘params_spec’: {‘crg_num_iters’: {‘value’: 2}}, ‘project_uid’: ‘P14’, ‘status’: ‘completed’, ‘uid’: ‘J93’, ‘version’: ‘v4.6.0’}