To access CryoSPARC on SDF, please follow the instructions below:
1. Go to https://sdf.slac.stanford.edu/public/doc/#/. Log in with your SLAC Windows account.
2. You will see options on the top of the page. Click “Interactive Apps” followed by “CryoSPARC Desktop”.
3. Fill in the resources you need then click launch. (You will have to obtain a CryoSPARC license on the CryoSPARC website using your SLAC email address)
4. After you are allocated the computing resources, click “Launch CryoSPARC desktop” then you will get a TurboVNC page with a Linux desktop.
5. In the Firefox browser on the desktop, go to localhost:39000 to get a CryoSPARC interface. If you don’t see it, try 39100, 39200, 39300, etc. until you get a CryoSPARC interface.
6. Log in with your SLAC email and the password is your CryoSPARC license. Note that your license file should have been generated using your SLAC email address as in step 3 or else it won't work.
Migrating the CryoSPARC Database
If you need to move your CryoSPARC database (e.g., you started your CryoSPARC interactive session in your SDF home directory and exceeded your disk quota) follow the steps indicated here.
After you've migrated your database, you'll need to specify the new database location whenever you start a new CryoSPARC Interactive Session in Ondemand:
- Start a new CryoSPARC Interactive Desktop session as above in "Using CryoSPARC".
- Scroll down and check the "Show advanced settings..." option.
- In the "Cryosparc Datadir" form field, change "$HOME/cryosparc" to the path where you migrated your CryoSPARC database (in double-quotes).
- Click Launch to get an Interactive Desktop session with a CryoSPARC instance running from your migrated database location.
Importing CryoSPARC Projects
If you've migrated your CryoSPARC database as above, you may need to import your existing projects into CryoSPARC when running from the new database location. Follow the instructions here to import your existing projects into a new CryoSPARC instance with a migrated database.