Blob Picker: ValueError: cannot reshape array of size 65280 into shape (1,1024,1024)

[nfrasser]

Hi @NKHO, this happens when there’s something wrong with one of the micrographs. It likely somehow got corrupted on disk.

In future releases of cryoSPARC, we’ll automatically skip these corrupt micrographs during extraction rather than fail the whole job. In the meantime, I suggest filtering them out using instructions here:

Value Error with Extract from Micrographs

Okay, I’ve put together a script you can run to modify the results of the motion correction job and filter-out zero-sized files, here’s how to run it: Paste the following code into a text editor and make the noted subsitutions:project_uid = '<PROJECT UID HERE>' datafile = '<OUTPUT DATA FILEPATH HERE>' passthrough_datafile = '<PASSTHROUGH OUTPUT DATAFILE HERE>' import os from shutil import copyfile from cryosparc_compute.dataset import Dataset project_dir = cli.get_project_dir_abs(project_uid) …

For your case, also change the part that says

os.stat(full_path).st_size > 0

to

os.stat(full_path).st_size > 1000000

Because it looks like the corrupt file is not empty.

Let me know how that goes.