IndexError while running Topaz

Troubleshooting
1

Hi all,

I’m having a trouble with Topaz training. The message is like this.

[CPU: 173.4 MB]  Starting Topaz process using version /: can't find '__main__' module in '/'...
[CPU: 173.4 MB]  Traceback (most recent call last):
  File "cryosparc2_worker/cryosparc2_compute/run.py", line 82, in cryosparc2_compute.run.main
  File "cryosparc2_compute/jobs/topaz/run_topaz.py", line 123, in run_topaz_wrapper_train
    if int(version_vals[1]) >= 2 and int(version_vals[2]) >= 3: ver_023_plus = True
IndexError: list index out of range

Are there any suggestions to fix this problem?

Best,

2

Hi @Junsun,

Could you run the command topaz --version in the Terminal using the Topaz executable and post the output?

Regards,
Jay Yoo

3

Hi @jyoo,

The ouput says “TOPAZ 0.2.4a”. Is there a problem with the version? Do I need to update Topaz executable?

Best,
Junsun

4

Hi @Junsun,

Would it be possible to downgrade the Topaz version to 0.2.3?

Regards,
Jay Yoo

5

Hi, my topaz version is 0.2.3 but I still failed to start topaz in cryosparc with the same error in topaz train. My cryosparc version is 2.14.2 and my CUDA version related to cryosparc and topaz is 8.0. The driver 430.40 could accept 10.0 version but now we used 8.0.
Here’s my log in web:

Starting Topaz process using version /: can't find '__main__' module in '/'...
[CPU: 161.3 MB]  Traceback (most recent call last):
  File "cryosparc2_worker/cryosparc2_compute/run.py", line 82, in cryosparc2_compute.run.main
  File "cryosparc2_compute/jobs/topaz/run_topaz.py", line 123, in run_topaz_wrapper_train
    if int(version_vals[1]) >= 2 and int(version_vals[2]) >= 3: ver_023_plus = True
IndexError: list index out of range
6

Hi @sunny1226,

It seems to me that there possibly is an issue with your Topaz install. Could you try reinstalling Topaz into an Anaconda environment in Python 2.7? You may also have to change the PyTorch installation method to account for CUDA 8.0 by running the command conda install topaz cudatoolkit=8.0 -c tbepler -c pytorch.

Afterwards, could you check the Topaz version the same way I mentioned in an earlier response in this topic?

Regards,
Jay Yoo

7

When I used pip3 install topaz I had the same problem, however when I switched to a python 3.6 miniconda installed topaz, the problem went away.

8

I reinstalled topaz using a python 3.6 anaconda, and finally solved the problem. Thank you all for the advice! :slight_smile: