Hi @vatese,
To run the upgrade step manually, you can run the following commands before you start a newly-updated v5 installation with an existing database:
cryosparcm start database
cryosparcm start cache
cryosparcm upgrade
cryosparcm restart
Note also that the upgrade command has some prompts, which you may confirm manually or by adding the -y flag. This may take a long time depending on the size of the database, so we recommend running this only once per version update, if possible.
Disclaimer for any others reading this thread in future: This is not an update mechanism that we officially recommend. In future versions, it may not work.
To help us with future development, could you share any details about your setup? Including anything you can say about why it has to be this way and what your deployment strategy looks like. Is it to avoid users having to manage their own CryoSPARC installation?