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Just got this error after upgrade from 1.556 to 1.558.
Using suggested scripts to kill hung threads did not help, they start again and hung.
Using VisualVM I get the dump of threads and here is the one which hunged for more than 8 hours:
The project the SCM is polling is a maven project. Maven plug-in was also upgraded (probably this is a culprit) from 2.1 to 2.2.