Manual picker does not work without CTF

Particle Picking
1

Hi,

There is an option to disable CTF during particle extraction in Manual Picker, to enable visualization of picks on mics without a CTF slot.

This used to work, but now fails with an error.

Cheers
Oli

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2

I think “output constant CTF” during import is the only way currently?

3

Right, but there is an option in Manual Picker to allow for ignoring the lack of CTF during particle extraction:

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It just doesn’t work right now but it used to

4

This has been fixed in v4.2.1, released on March 15th.

Thanks for reporting!

1 Like
5

Hi there, I am abit confused on this. I imported my single framed micrographs (bacteria), and manually picked particles (with the function “Run extraction without ctf values” switched on. The picks and extraction worked, but now I am struggling to do a 2D classification on them. This is the error that I get:

Traceback (most recent call last):
File “cryosparc_master/cryosparc_compute/run.py”, line 62, in cryosparc_compute.run.main
File “/home/cryosparc/cryosparc_worker/cryosparc_compute/jobs/runcommon.py”, line 1055, in check_default_inputs
assert False, 'Non-optional inputs from the following input groups and their slots are not connected: ’ + missing_inputs + ‘. Please connect all required inputs.’
AssertionError: Non-optional inputs from the following input groups and their slots are not connected: particles.ctf. Please connect all required inputs.

6

Hi @VSamuels! I think there may have been a bit of confusion – for downstream analysis of the particles, you will still need CTF estimation. If you are avoiding CTF correction because your particles are negative stained, there are a few other parameters to change as well which can be found in our guide page on the topic.