Is there a way how i can create dependency between two standard issue types using workflow and based on status of one of the issues? For example, i should not be able to close the story, until all linked defects will be closed.
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Yes, there are a number of ways you can do this. You should consider using Post-functions (conditionals and validators).
My team has a plugin called JMWE (Jira Misc Workflow Extensions) and it has a condition specifically for this issue:
It required that a linked ticket be in a specific status before letting the other ticket move in the workflow.
If you use a the same plugin, it will also display an error message for the user (you have to write the error message, but it's just plain text) that will be displayed with the condition is not met.
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