Import particles from relion3 error

closed

#1

Hi there,

I want to import the particles from relion3 after several rounds of Class2D. But there is an error:
Warning: Could not find file Extract/job050/all_data/FoilHole_24164622_Data_24176910_24176911_20190424_1053_Fractions_aligned.mrcs,

Traceback (most recent call last):
File “cryosparc2_master/cryosparc2_compute/run.py”, line 78, in cryosparc2_compute.run.main (/home/installtest/deps_manage/cryosparc2_package/deploy/stage/cryosparc2_master/cryosparc2_compute/run.c:3954)
File “cryosparc2_compute/jobs/imports/run.py”, line 129, in run_import_particles
assert False, “Files referenced by the input star file are missing.”
AssertionError: Files referenced by the input star file are missing.

Should I modify the particle.star file? Could anyone provide a protocol?

Thanks,

Rui


#2

Hi, if you import the particles.star from that extract job it should work right away… is that what you import ?


#3

No, I import the particles.star from the select job (subset selection).


#4

that file it can’t find, is it there ?


#5

Problem solved! It seems like after you finish 2D or 3D classification and subset selection, you can’t import the generated particle.star file. You should always do the extraction again and import the particle.star from ‘extract’ file.

Thank you!