we have developped an app and want our customers to use our service desk if they have any problems with it. Therefore we linked the Customer Portal in our app.
Now we would apreciate it, if our customers do not have to log in to the portal. They already logged in to our app. So is there a way to link these accounts or to transmit the login data from our app to Service Desk?
What you're aiming at is called Single Sign-On (SSO). This is a wide topic, but in short it's usually provided by dedicated solutions (e.g. Atlassian Crowd) or protocols (e.g. SAML).
If you use JSD Cloud, then SAML is the way to go: https://confluence.atlassian.com/cloud/saml-single-sign-on-939718272.html
If you use JSD Server, I suggest that you first take a look at Atlassian's official documentation for SSO on the Atlassian Stack: https://confluence.atlassian.com/kb/single-sign-on-integration-with-the-atlassian-stack-794495126.html
My understanding here is that you have no SSO system in your organization and that you just want SSO between your custom application and your JSD portal. Theoretically speaking, you should be able to implement this thanks to Atlassian Seraph. The point is that it's unfortunately not possible as of today because of this open issue: https://jira.atlassian.com/browse/JSDSERVER-630
Thus you will have to rely upon a non-custom SSO system. It's a bit difficult to be more specific here as I don't have enough information about your users and your organization. If your users are Active Directory domain users, then Kerberos would probably fit your needs. If your users are internet users, then SAML would be a better one. As Atlassian Crowd is generally speaking super easy to implement, I guess you should also take a closer look at it.
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