3D classification (beta) error message

Troubleshooting
1

Hi,

this error comes up during the new 3D classification (beta) job.
Any idea what might be the problem?

All the best and thank you for this new feature!
Gregor

[CPU: 5.09 GB]   Finished iteration 86 in 434.885s. Total time so far 11238.738s
[CPU: 6.26 GB]   Zipping files...
[CPU: 3.31 GB]   Traceback (most recent call last):
  File "cryosparc_worker/cryosparc_compute/run.py", line 85, in cryosparc_compute.run.main
  File "cryosparc_worker/cryosparc_compute/jobs/class3D/run.py", line 635, in cryosparc_compute.jobs.class3D.run.run_class_3D
  File "/home/cryosparcuser/cryosparc/cryosparc_worker/deps/anaconda/envs/cryosparc_worker_env/lib/python3.7/subprocess.py", line 411, in check_output
    **kwargs).stdout
  File "/home/cryosparcuser/cryosparc/cryosparc_worker/deps/anaconda/envs/cryosparc_worker_env/lib/python3.7/subprocess.py", line 488, in run
    with Popen(*popenargs, **kwargs) as process:
  File "/home/cryosparcuser/cryosparc/cryosparc_worker/deps/anaconda/envs/cryosparc_worker_env/lib/python3.7/subprocess.py", line 800, in __init__
    restore_signals, start_new_session)
  File "/home/cryosparcuser/cryosparc/cryosparc_worker/deps/anaconda/envs/cryosparc_worker_env/lib/python3.7/subprocess.py", line 1551, in _execute_child
    raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'zip': 'zip'
2

just a guess, but looks like you are missing a dependency required for zipping outputs. Try installing zip using apt-get, yum, or the appropriate package manager for your system.

1 Like
3

Hi @gha,

+1 to @olibclarke’s suggestion above! Another thought: we use the same internal zipping procedure for the volume series output in the 3D Variability Display job. If that throws a similar error, then it’s almost certainly the zip dependency.

1 Like
4

Hi, the zip package was indeed missing on my worker. It is working now. Thank you!

3 Likes