I have a Jira Board with Swimlane as "Task" on each Tasks I have sub-tasks linked.
From the board, I would like to only show tasks and its sub-tasks that were not yet done.
My JQL Filter is
issuetype in (Task, Sub-task) AND status != Done
but whenever I move the sub-task to done it's not showing already even the parent is not yet done.
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If you don't have any addons, then you do not count with the necessary tools to build a JQL query that can reference a subtask's parent status.
In other words, you cannot set subtasks to disappear from your board once its parent had reached the status "Done" by any native means.
That said, you may set a different trigger to clean your board.
If you were using a Kanban board, then you could quickly clean it by creating a release directly from the board. Look for Release link on top of the board's most-right column. Click on that link and create a release that way for cleaning the column on the most-right column (Done, in your case).
Hope it helps.
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