Hi All,
I am trying to run a topaz donise training job but I got an error
Traceback (most recent call last):
" File “cryosparc_master/cryosparc_compute/run.py”, line 95, in cryosparc_master.cryosparc_compute.run.main
File “/opt/cryosparc/cryosparc_worker/cryosparc_compute/jobs/topaz/run_topaz_denoise.py”, line 234, in run_topaz_wrapper_denoise
create_training_data(training_dset=micrographs_training_dset, proj_dir_abs=proj_dir_abs, A_dir_abs=A_dir_abs, B_dir_abs=B_dir_abs)
File “/opt/cryosparc/cryosparc_worker/cryosparc_compute/jobs/topaz/run_topaz_denoise.py”, line 56, in create_training_data
assert False, “Cant read extension %s” % (ext)
AssertionError: Cant read extension .eer"
Thanks
Seems like it would be a good idea to ask on the Topaz github?
2 Likes
.eer files are raw movie files containing thousands of frames. They are not motion-corrected.
You need to use single-frame MRC files resulting from a motion correction job (eg. patch-motion correction job) for the Topaz picking/denoise.