Live and K2 super-res from EPU

Troubleshooting
1

Hi,

I am trying to test K2 super resolution data in cryoSPARC Live. Data is un-gain normalised, packed as per EPU. I currently get the below error.

Traceback (most recent call last):
  File "cryosparc2_worker/cryosparc2_compute/jobs/rtp_workers/run.py", line 92, in cryosparc2_compute.jobs.rtp_workers.run.rtp_worker
  File "cryosparc2_worker/cryosparc2_compute/jobs/rtp_workers/run.py", line 224, in cryosparc2_compute.jobs.rtp_workers.run.process_movie
  File "cryosparc2_worker/cryosparc2_compute/jobs/rtp_workers/run.py", line 302, in cryosparc2_compute.jobs.rtp_workers.run.do_patch_motion
  File "cryosparc2_worker/cryosparc2_compute/jobs/rtp_workers/run.py", line 154, in cryosparc2_compute.jobs.rtp_workers.run.read_data
  File "cryosparc2_compute/blobio/mrc.py", line 135, in read_mrc
    data = read_mrc_data(file_obj, header, start_page, end_page, out)
  File "cryosparc2_compute/blobio/mrc.py", line 86, in read_mrc_data
    dtype = mrc_datatype_to_dtype(datatype)
  File "cryosparc2_compute/blobio/mrc.py", line 65, in mrc_datatype_to_dtype
    assert False,'Unsupported MRC datatype: {0}'.format(datatype)
AssertionError: Unsupported MRC datatype: 101

Any ideas?

2

Hi @simonbrown,

Did you get the error during motion correction? Maybe you can try to save/convert your mrc files into tiff?

Best,
Feng10

3

HI Simon,
you need the image files in tif format to start with. Leave your gain ref in MRC (I have to swap in Y for our set up). it works for me.
cheers
Eric

4

Hi Eric,

Thanks for the reply. So do you convert the EPU output mrc files to tiff? As far as I know, I can’t output tif directly from EPU with the K2.

5

Yes we transfer the MRC file and convert them in Tif Law compressed with imod.

6

Hi cryoSPARC developers,

Is there any plan to fix this issue?

Thanks!

7

Hi everyone,

We are indeed working on this. I can’t promise an exact delivery date at the moment, but a fix is coming.

Harris

2 Likes
8

Awesome. You guys are amazing the way you keep cryoSPARC so up to date.

3 Likes