Topaz train job error

Particle Picking
1

Dear all,

I am trying to familiarize with the topaz that is embedded with cryosparc using T20S dataset following the cryosparc tutorial, but topaz train has failed with giving the following error,

Screenshot%20from%202020-01-07%2014-07-13
Screenshot%20from%202020-01-07%2014-07-132027×709 121 KB

I have installed /home/takagilab/EMAN2/bin/topaz

Does the error has to do anything with installation path.

Best,

E.R

2

Hi @eswar909,

This does not seem to be an issue with the installation path. Could you check the PyTorch version installed in the Anaconda environment that Topaz is installed in? This can simply be done by entering the Anaconda environment and using the command conda list. The module should be listed as “pytorch”.

If the PyTorch version is less than 1.3.0, try updating PyTorch to the latest version. The wrapper should work for versions >= 1.0.0 but has been mainly tested on versions >= 1.3.0.

Regards,
Jay Yoo

3

Hi@jyoo

I have updated the PyTorch to 1.3.1, but I got the same error,

Best,
E.R

4

Hi @eswar909,

Would you mind posting the following:

  1. The full job log
  2. The output of the conda list command mentioned previously, specifically the versions of “topaz” and “pytorch”
  3. The output of the command which python

These will hopefully help me in resolving your issue.

Regards,
Jay Yoo