cryoSPARC v3 and topaz version 2.5.0a

Troubleshooting
1

Hi,

after upgrading to version 3.0.1 I get the following error message when I use ‘Topaz Train’ (I have run ‘Topaz Train’ successfully using an older version of cryoSPARC with the same path to the Topaz executable).

AssertionError: Cannot determine topaz version, command “/programs/x86_64-linux/system/sbgrid_bin/topaz --version” did not produce valid output: “0.2.5a”

When I run the command ‘/programs/x86_64-linux/system/sbgrid_bin/topaz --version’ in the terminal I get: “TOPAZ 0.2.5a”

Any suggestions on why I get this error message?

Thank you.

1 Like
2

Hi Sabine,

The error is from Cryosparc doing a Topaz version check because Cryosparc has not added Topaz v0.2.5a as a valid Topaz version. Hopefully the Cryosparc team will add it. In the meantime, downgrade your Topaz to v0.2.4 to use it in Cryosparc.

Best,
-Alex

3

Hi Alex,

thank you for the fast reply. ‘Topaz Train’ is running fine with v0.2.4.
Thanks,
Sabine

1 Like
4

Hi @alexjamesnoble,

Have there been any API/command line interface changes between 0.2.4 and 0.2.5a ?
We should be able to do this easily if the interface is the same.

Ali

5

There are a few new options, but no changes to the existing API.

Tristan

6

FYI this version of Topaz is now supported in the latest cryoSPARC v3.1