Cryosparc only allows Non-root account(Normal account) to install, use etc. By default use of spuser account installation, the following operations are all based on account spuser (please do not use other account operations);

Tips：

If you install crysoparc yourself, you must install it with a non-root account. We recommend that cryosparc_cache directory is stored under /ssd, cryosparc_database directory is stored under /data, and owner and group must be normal accounts. Once installed, open the 39000 port in the firewall.

cryosparc common commands：

start: cryosparcm start

status: cryosparcm status

stop: cryosparcm stop

restart: cryosparcm restart

How to access:

Enter http://IP:39000 in the browser to access the cryosparc interface, then enter your account number and password.

cryosparc update:

If you need to upgrade cryosparc, you need to stop it first(cryosparcm stop) and then execute the command: cryosparcm update. Once the upgrade is complete, start cryosparc (cryosparcm start).

creates a new user account

cryosparcm createuser --email <email_address> --password <password> --name "<full name>"

cryosparcm createuser --email <email_address> --password <password> --firstname "<given name>" --lastname <family name> --username <full name>

Check cryosparc account information

Open the mongodb of cryosparc:

cryosparcm mongo

Find all users(enter command):

db.users.find({}, { _id: 0, 'emails.address': 1 })

Tips: command "exit" Command can exit MongoDB

Reset the password

cryosparcm resetpassword --email <email address> --password <newpassword>

Operation before shutting down a workstation:

If you need to shut down the workstation, you need to stop cryosparc (cryosparcm stop) before you shut down the workstation.

How to use topaz

1. The specific path of topaz is needed. For how to activate topaz, please refer to Software Environment Setting

https://singleparticle.freshdesk.com/a/solutions/articles/36000257452

2. Use the command "which topaz" to query the absolute path, and then paste the path into cryosparc.

How to use deepemhancer

Please fill in the path and module path of deepemhancer

/spshared/apps/miniconda3/envs/deepEMhancer_env/bin/deepemhancer

/home/spuser/.local/share/deepEMhancerModels/production_checkpoints

Single Particle LLC

Cryosparc Simple Tutorial Print

Cryosparc only allows Non-root account(Normal account) to install, use etc. By default use of spuser account installation, the following operations are all based on account spuser (please do not use other account operations);

Tips：

If you install crysoparc yourself, you must install it with a non-root account. We recommend that cryosparc_cache directory is stored under /ssd, cryosparc_database directory is stored under /data, and owner and group must be normal accounts. Once installed, open the 39000 port in the firewall.

cryosparc common commands：

start: cryosparcm start

status: cryosparcm status

stop: cryosparcm stop

restart: cryosparcm restart

How to access:

Enter http://IP:39000 in the browser to access the cryosparc interface, then enter your account number and password.

cryosparc update:

If you need to upgrade cryosparc, you need to stop it first(cryosparcm stop) and then execute the command: cryosparcm update. Once the upgrade is complete, start cryosparc (cryosparcm start).

Check cryosparc account information

Operation before shutting down a workstation:

If you need to shut down the workstation, you need to stop cryosparc (cryosparcm stop) before you shut down the workstation.

Cryosparc Simple Tutorial Print

Cryosparc only allows Non-root account(Normal account) to install, use etc. By default use of spuser account installation, the following operations are all based on account spuser (please do not use other account operations);

Tips：

If you install crysoparc yourself, you must install it with a non-root account. We recommend that cryosparc_cache directory is stored under /ssd, cryosparc_database directory is stored under /data, and owner and group must be normal accounts. Once installed, open the 39000 port in the firewall.

cryosparc common commands：

start: cryosparcm start

status: cryosparcm status

stop: cryosparcm stop

restart: cryosparcm restart

How to access:

Enter http://IP:39000 in the browser to access the cryosparc interface, then enter your account number and password.

cryosparc update:

If you need to upgrade cryosparc, you need to stop it first(cryosparcm stop) and then execute the command: cryosparcm update. Once the upgrade is complete, start cryosparc (cryosparcm start).

Check cryosparc account information

Operation before shutting down a workstation:

If you need to shut down the workstation, you need to stop cryosparc (cryosparcm stop) before you shut down the workstation.

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