Deadlock when uploading XAR file into package manager

[dizzzz]

I tried to upload a newer version of a XAR file into the dashboard/package manager. The XAR contains native Java code. The 'old' XAR has been used, so the classes have been loaded. Upon upload of the new XAR I fetched two stack traces:

• one with the YourKit profiler
• on on stdout

deadlock_yourkit.txt
deadlock_stdout.txt

• eXist-db / develop
• macOS / Java8u111
• messaging/replication extension

Upon stop:

21 Nov 2016 19:50:29,851 [Thread-3] INFO  (JettyStart.java [lifeCycleStopping]:615) - Jetty server stopping... 
SYSTEM INFO
Database instance: exist
-------------------------------------------------------------------
Threads currently waiting for a lock:
=====================================
Thread: qtp138536309-40
           Lock type: COLLECTION
           Lock mode: READ
             Lock id: /db/apps
             Held by: [qtp138536309-27]
             Held by: [qtp138536309-27]
             Held by: [qtp138536309-27]
    Waiting for read: []
   Waiting for write: []

[adamretter]

Your stdout seems to indicate that you have quite a few errors when doing something with the XAR, did you get to the bottom of those first?

Otherwise, we need the jstack output...