Matlab crashes frequently when opening core

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Matlab crashes frequently when opening core

Matthew Cabeen
Hi All,

Please help! Matlab often crashes when I use it to open the uManager core,
whether or not I open the GUI. The inexplicable thing is that it works fine
10-15% of the time, so I can usually get it to work by trying repeatedly.

We're running Win 10 Pro for Workstations, version 1803, 64-bit. MATLAB
R2017b. ImageJ 1.48v, Java 1.6.0_31. MMCore version 8.1.0, MM Studio version
1.4.22, Device API version 65, module API version 10.

All the details are below. Perhaps the "failed to write core dump" in the
Java crash report is key, but I'm not sure how to enable minidumps, if that
would fix the problem.

Thanks in advance to any who can help.

-Matt Cabeen
Asst Prof
Microbiology & Mol Genetics
OK State Univ


For example, when I execute the block:
import org.micromanager.MMStudio;
gui = MMStudio(false);
mmc = gui.getCore

uManager opens and shows me the splash screen; I choose the configfile and
hit OK. And then Matlab crashes a few seconds later. Here are the crash
details from Matlab:


------------------------------------------------------------------------
             Assertion detected at Mon Aug  6 10:53:41 2018
------------------------------------------------------------------------
Configuration:
  Crash Decoding      : Disabled - No sandbox or build area path
  Crash Mode          : continue (default)
  Current Graphics Driver: Unknown hardware
  Default Encoding    : windows-1252
  Deployed            : false
  Graphics card 1     : NVIDIA ( 0x10de ) NVIDIA Quadro P4000 Version
23.21.13.8508 (2017-7-25)
  Host Name           : DESKTOP-OQM93OB
  Java Crash Report   :
C:\Users\MATTHE~1\AppData\Local\Temp\hs_error_pid1132.log
  MATLAB Architecture : win64
  MATLAB Entitlement ID: 1318344
  MATLAB Root         : C:\Program Files\MATLAB\R2017b
  MATLAB Version      : 9.3.0.713579 (R2017b)
  OpenGL              : hardware
  Operating System    : Microsoft Windows 10 Pro for Workstations
  Processor ID        : x86 Family 6 Model 79 Stepping 1, GenuineIntel
  Virtual Machine     : Java 1.8.0_121-b13 with Oracle Corporation Java
HotSpot(TM) 64-Bit Server VM mixed mode
  Window System       : Version 10.0 (Build 17134)
Fault Count: 1

Assertion in void __cdecl `anonymous-namespace'::mwJavaAbort(void) at
b:\matlab\src\jmi\jmi\javainit.cpp line 1420:
Fatal Java Exception.  See Java Crash Report for details.
Register State (captured):
  RAX = 0000000010983338  RBX = 0000000000000000
  RCX = 00000000043f0f50  RDX = 0000000000000000
  RSP = 00000000043f0ed0  RBP = 000000002f429800
  RSI = 0000000010983338  RDI = 0000000010983338
 
   R8 = 000008579b50bdb2   R9 = 00007ffaae2c0000
  R10 = 00000000108bb0a8  R11 = 0000000010973367
  R12 = 00000000043f1590  R13 = 0000000010973268
  R14 = 00000000109832b8  R15 = 000000002f429800
 
  RIP = 000000001077bbaa  EFL = 00000202
 
   CS = 0033   FS = 0053   GS = 002b
Stack Trace (captured):
[  0] 0x0000000010775e83                            
bin\win64\libmwfl.dll+00155267
[  1] 0x0000000010774478                            
bin\win64\libmwfl.dll+00148600
[  2] 0x00000000107779ce                            
bin\win64\libmwfl.dll+00162254
[  3] 0x000000001077727e                            
bin\win64\libmwfl.dll+00160382
[  4] 0x000000001077b528                            
bin\win64\libmwfl.dll+00177448
[  5] 0x000000002f3bdf3c                                
bin\win64\jmi.dll+00712508
[  6] 0x000000005f89693d C:\Program
Files\MATLAB\R2017b\sys\java\jre\win64\jre\bin\server\jvm.dll+02713917
[  7] 0x000000005f87eb5b C:\Program
Files\MATLAB\R2017b\sys\java\jre\win64\jre\bin\server\jvm.dll+02616155
[  8] 0x000000005f897666 C:\Program
Files\MATLAB\R2017b\sys\java\jre\win64\jre\bin\server\jvm.dll+02717286
[  9] 0x000000005f89bf6c C:\Program
Files\MATLAB\R2017b\sys\java\jre\win64\jre\bin\server\jvm.dll+02735980
[ 10] 0x000000005f9323e8 C:\Program
Files\MATLAB\R2017b\sys\java\jre\win64\jre\bin\server\jvm.dll+03351528
[ 11] 0x00007ffab970eced                    
C:\WINDOWS\SYSTEM32\ntdll.dll+00650477
[ 12] 0x00007ffab9676c86                    
C:\WINDOWS\SYSTEM32\ntdll.dll+00027782
[ 13] 0x00007ffab970dc1e                    
C:\WINDOWS\SYSTEM32\ntdll.dll+00646174
[ 14] 0x00007ffaab013084 C:\Program
Files\Micro-Manager-1.4\mmgr_dal_PVCAM.dll+00012420
[ 15] 0x00007ffaab03cacf C:\Program
Files\Micro-Manager-1.4\mmgr_dal_PVCAM.dll+00182991
[ 16] 0x00007ffaab04115c C:\Program
Files\Micro-Manager-1.4\mmgr_dal_PVCAM.dll+00201052
[ 17] 0x00007ffaab13ea16 C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00518678
[ 18] 0x00007ffaab119dad C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00368045
[ 19] 0x00007ffaab13fb0a C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00523018
[ 20] 0x00007ffaab0febbf C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00256959
[ 21] 0x00007ffaab126761 C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00419681
[ 22] 0x00007ffaab1275ac C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00423340
[ 23] 0x00007ffaab0c7a75 C:\Program
Files\Micro-Manager-1.4\MMCoreJ_wrap.dll+00031349
[ 24] 0x0000000060347f74                                  
<unknown-module>+00000000

And here is the Java crash report:

#
# A fatal error has been detected by the Java Runtime Environment:
#
#  EXCEPTION_ACCESS_VIOLATION (0xc0000005) at pc=0x00007ffaab013084,
pid=1132, tid=0x00000000000009d8
#
# JRE version: Java(TM) SE Runtime Environment (8.0_121-b13) (build
1.8.0_121-b13)
# Java VM: Java HotSpot(TM) 64-Bit Server VM (25.121-b13 mixed mode
windows-amd64 compressed oops)
# Problematic frame:
# C  0x00007ffaab013084
#
# Failed to write core dump. Minidumps are not enabled by default on client
versions of Windows
#
# If you would like to submit a bug report, please visit:
#   http://bugreport.java.com/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
---------------  T H R E A D  ---------------
Current thread (0x000000005957d800):  JavaThread "main" [_thread_in_native,
id=2520, stack(0x0000000000400000,0x0000000004400000)]
siginfo: ExceptionCode=0xc0000005, reading address 0x0000000108a7f6c0
Registers:
RAX=0x0000000108a6deb0, RBX=0x00000000043f3060, RCX=0x00000000043f3060,
RDX=0x0000000108a7f6b0
RSP=0x00000000043f2e60, RBP=0x00000000043f2fc0, RSI=0x00007ffaab052070,
RDI=0x0000000000000000
R8 =0x0000000000000000, R9 =0xffffffffffffffff, R10=0x0000000090a2b6f0,
R11=0x0000000000000000
R12=0x00000000f6ad2230, R13=0x000000000000003c, R14=0x00007ffaab051380,
R15=0x0000000000000000
RIP=0x00007ffaab013084, EFLAGS=0x0000000000010206
Top of Stack: (sp=0x00000000043f2e60)
0x00000000043f2e60:   0000000000000000 000000005f588ddb
0x00000000043f2e70:   0000000000000018 00007ffaab052070
0x00000000043f2e80:   0000000000000000 00007ffaab03cacf
0x00000000043f2e90:   00000000043f3060 00000000043f2fc0
0x00000000043f2ea0:   00007ffaab052070 00000000043f2fc0
0x00000000043f2eb0:   0000000090a2faa0 00007ffaab04115c
0x00000000043f2ec0:   0000000000000000 0000000000000000
0x00000000043f2ed0:   00007ffaab055120 0000000000000005
0x00000000043f2ee0:   00000000043f3001 0000000090a2ffa0
0x00000000043f2ef0:   00000000043f2f00 00000000043f2fc0
0x00000000043f2f00:   00000000b891d5e0 0000000000000000
0x00000000043f2f10:   00000000043f3020 00000000043f2fd0
0x00000000043f2f20:   00000000b891cbf0 00000001043f0365
0x00000000043f2f30:   00007ffaab0513e0 0000000000000000
0x00000000043f2f40:   00007ffaab0513d8 00007ffaab051278
0x00000000043f2f50:   00000000bc3ccf10 00000000b2b62e90
Instructions: (pc=0x00007ffaab013084)
0x00007ffaab013064:   20 4c 89 5c 24 20 e8 a7 2a 03 00 cc 48 89 5c 24
0x00007ffaab013074:   08 48 89 6c 24 10 48 89 74 24 18 57 48 83 ec 20
0x00007ffaab013084:   48 8b 7a 10 49 8b e8 48 8b f2 48 8b d9 49 3b f8
0x00007ffaab013094:   73 0e 48 8d 0d 8b cd 03 00 ff 15 e5 c1 03 00 cc

Register to memory mapping:
RAX=0x0000000108a6deb0 is an unknown value
RBX=0x00000000043f3060 is pointing into the stack for thread:
0x000000005957d800
RCX=0x00000000043f3060 is pointing into the stack for thread:
0x000000005957d800
RDX=0x0000000108a7f6b0 is an unknown value
RSP=0x00000000043f2e60 is pointing into the stack for thread:
0x000000005957d800
RBP=0x00000000043f2fc0 is pointing into the stack for thread:
0x000000005957d800
RSI=0x00007ffaab052070 is an unknown value
RDI=0x0000000000000000 is an unknown value
R8 =0x0000000000000000 is an unknown value
R9 =0xffffffffffffffff is an unknown value
R10=0x0000000090a2b6f0 is an unknown value
R11=0x0000000000000000 is an unknown value
R12=0x00000000f6ad2230 is an unknown value
R13=0x000000000000003c is an unknown value
R14=0x00007ffaab051380 is an unknown value
R15=0x0000000000000000 is an unknown value

Stack: [0x0000000000400000,0x0000000004400000],  sp=0x00000000043f2e60,
free space=65483k
Native frames: (J=compiled Java code, j=interpreted, Vv=VM code, C=native
code)
C  0x00007ffaab013084
C  0x00007ffaab03cacf
C  0x00007ffaab04115c
C  0x00007ffaab13ea16
C  0x00007ffaab119dad
C  0x00007ffaab13fb0a
C  0x00007ffaab0febbf
C  0x00007ffaab126761
C  0x00007ffaab1275ac
C  0x00007ffaab0c7a75
C  0x0000000060347f74
Java frames: (J=compiled Java code, j=interpreted, Vv=VM code)
j
mmcorej.MMCoreJJNI.CMMCore_loadSystemConfiguration(JLmmcorej/CMMCore;Ljava/lang/String;)V+0
j  mmcorej.CMMCore.loadSystemConfiguration(Ljava/lang/String;)V+6
j  org.micromanager.MMStudio.loadSystemConfiguration()Z+69
j  org.micromanager.MMStudio.initializationSequence()V+416
j  org.micromanager.MMStudio.<init>(Z)V+748
v  ~StubRoutines::call_stub
---------------  P R O C E S S  ---------------
Java Threads: ( => current thread )
  0x0000000109203000 JavaThread "BeanShell interpreter" [_thread_blocked,
id=656, stack(0x00000001d0180000,0x00000001d4180000)]
  0x0000000109209800 JavaThread "Thread-20" [_thread_blocked, id=11216,
stack(0x00000001cc180000,0x00000001d0180000)]
  0x0000000109206000 JavaThread "CFB SC Service: 3" daemon [_thread_blocked,
id=11480, stack(0x00000001a4180000,0x00000001a8180000)]
  0x0000000109206800 JavaThread "Startup Class Loader-SharedResourceRunner"
daemon [_thread_blocked, id=3664,
stack(0x00000001a8180000,0x00000001ac180000)]
  0x0000000109205000 JavaThread "MultiThreadedHttpConnectionManager cleanup"
daemon [_thread_blocked, id=9680,
stack(0x0000000198180000,0x000000019c180000)]
  0x0000000109201000 JavaThread "pool-7-thread-1" [_thread_blocked, id=3040,
stack(0x0000000184180000,0x0000000188180000)]
  0x0000000109202000 JavaThread "Toolbox Management" daemon
[_thread_blocked, id=6600, stack(0x000000018c180000,0x0000000190180000)]
  0x00000001091ff000 JavaThread "ZIPs in Add-Ons" daemon [_thread_blocked,
id=8064, stack(0x0000000194180000,0x0000000198180000)]
  0x0000000109200800 JavaThread "Source Control Thread" daemon
[_thread_blocked, id=8760, stack(0x0000000190180000,0x0000000194180000)]
  0x0000000109204800 JavaThread "Apps in Add-Ons" daemon [_thread_blocked,
id=5208, stack(0x0000000188180000,0x000000018c180000)]
  0x00000000b30d8800 JavaThread
"com.mathworks.addons_common.notificationframework.InstalledAddOnsCache"
daemon [_thread_blocked, id=4184,
stack(0x0000000120390000,0x0000000124390000)]
  0x00000000b30d7800 JavaThread "Code Analyzer updating thread" daemon
[_thread_blocked, id=5328, stack(0x000000016c030000,0x0000000170030000)]
  0x00000000b30d6000 JavaThread "Active Reference Queue Daemon" daemon
[_thread_blocked, id=5880, stack(0x0000000154030000,0x0000000158030000)]
  0x00000000b30d5800 JavaThread "Timer-0" daemon [_thread_blocked, id=2476,
stack(0x0000000150030000,0x0000000154030000)]
  0x00000000b30d4800 JavaThread "History Command Saver" daemon
[_thread_blocked, id=11768, stack(0x0000000130390000,0x0000000134390000)]
  0x00000000b30da000 JavaThread "ClipboardMonitor Timer" daemon
[_thread_blocked, id=9940, stack(0x000000012c390000,0x0000000130390000)]
  0x00000000b30d2800 JavaThread "Explorer NavigationContext request queue"
daemon [_thread_blocked, id=2060,
stack(0x000000011c390000,0x0000000120390000)]
  0x00000000b30cb000 JavaThread "AddressBar directory emptiness poller"
daemon [_thread_blocked, id=2732,
stack(0x00000001133c0000,0x00000001173c0000)]
  0x00000000b30cf800 JavaThread "Explorer Refresh Service 2103425590" daemon
[_thread_blocked, id=904, stack(0x000000010f3c0000,0x00000001133c0000)]
  0x00000000b30ce000 JavaThread "TimerQueue" daemon [_thread_blocked,
id=9708, stack(0x0000000104450000,0x0000000108450000)]
  0x00000000b30cb800 JavaThread "Thread-5" daemon [_thread_blocked, id=3220,
stack(0x0000000100450000,0x0000000104450000)]
  0x00000000b30cd000 JavaThread "Thread-4" daemon [_thread_blocked,
id=10876, stack(0x00000000ecae0000,0x00000000f0ae0000)]
  0x00000000b30ce800 JavaThread "AWT-EventQueue-0" [_thread_blocked,
id=1364, stack(0x00000000f0ae0000,0x00000000f4ae0000)]
  0x00000000ad899000 JavaThread "AWT-Windows" daemon [_thread_in_native,
id=10276, stack(0x00000000d8ae0000,0x00000000dcae0000)]
  0x00000000ad897800 JavaThread "AWT-Shutdown" [_thread_blocked, id=3524,
stack(0x00000000d4ae0000,0x00000000d8ae0000)]
  0x00000000ad897000 JavaThread "Java2D Disposer" daemon [_thread_blocked,
id=9188, stack(0x00000000d0ae0000,0x00000000d4ae0000)]
  0x00000000ad896000 JavaThread "FelixPackageAdmin" daemon [_thread_blocked,
id=6040, stack(0x00000000ccae0000,0x00000000d0ae0000)]
  0x00000000ad89a000 JavaThread "FelixStartLevel" daemon [_thread_blocked,
id=10316, stack(0x00000000c8ae0000,0x00000000ccae0000)]
  0x00000000ad894800 JavaThread "Settings Releaser" daemon [_thread_blocked,
id=9220, stack(0x00000000c4ae0000,0x00000000c8ae0000)]
  0x00000000ad895800 JavaThread "FelixDispatchQueue" daemon
[_thread_blocked, id=8600, stack(0x00000000c0ae0000,0x00000000c4ae0000)]
  0x00000000b2925800 JavaThread "MatlabKeepAlive Timer" daemon
[_thread_blocked, id=484, stack(0x00000000b3a00000,0x00000000b7a00000)]
  0x00000000adf64000 JavaThread "EventMgr Dispatcher" daemon
[_thread_in_native, id=7620, stack(0x00000000ae820000,0x00000000b2820000)]
  0x0000000090a4b800 JavaThread "Service Thread" daemon [_thread_blocked,
id=1032, stack(0x00000000a4eb0000,0x00000000a8eb0000)]
  0x00000000909c9800 JavaThread "C1 CompilerThread3" daemon
[_thread_blocked, id=8992, stack(0x00000000a0db0000,0x00000000a4db0000)]
  0x000000005f22c800 JavaThread "C2 CompilerThread2" daemon
[_thread_blocked, id=1648, stack(0x000000009cdb0000,0x00000000a0db0000)]
  0x00000000909c8800 JavaThread "C2 CompilerThread1" daemon
[_thread_blocked, id=6668, stack(0x0000000098db0000,0x000000009cdb0000)]
  0x00000000909c4000 JavaThread "C2 CompilerThread0" daemon
[_thread_blocked, id=6484, stack(0x0000000094db0000,0x0000000098db0000)]
  0x00000000909c3000 JavaThread "Attach Listener" daemon [_thread_blocked,
id=6024, stack(0x0000000090db0000,0x0000000094db0000)]
  0x000000005f226800 JavaThread "Finalizer" daemon [_thread_blocked,
id=10452, stack(0x000000008c9b0000,0x00000000909b0000)]
  0x000000005f1fa800 JavaThread "Reference Handler" daemon [_thread_blocked,
id=5048, stack(0x00000000889b0000,0x000000008c9b0000)]
=>0x000000005957d800 JavaThread "main" [_thread_in_native, id=2520,
stack(0x0000000000400000,0x0000000004400000)]
Other Threads:
  0x000000005f1f4800 VMThread [stack: 0x00000000849b0000,0x00000000889b0000]
[id=9880]
  0x0000000090aff000 WatcherThread [stack:
0x00000000a8eb0000,0x00000000aceb0000] [id=9908]
VM state:not at safepoint (normal execution)
VM Mutex/Monitor currently owned by a thread: None
Heap:
 PSYoungGen      total 82432K, used 42690K [0x00000007ba000000,
0x00000007c0000000, 0x00000007c0000000)
  eden space 66560K, 41% used
[0x00000007ba000000,0x00000007bbaafa30,0x00000007be100000)
  from space 15872K, 96% used
[0x00000007be100000,0x00000007bf001020,0x00000007bf080000)
  to   space 15872K, 0% used
[0x00000007bf080000,0x00000007bf080000,0x00000007c0000000)
 ParOldGen       total 83456K, used 55969K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 67% used
[0x00000007a8000000,0x00000007ab6a8488,0x00000007ad180000)
 Metaspace       used 89759K, capacity 90284K, committed 90800K, reserved
1126400K
  class space    used 14339K, capacity 14515K, committed 14544K, reserved
1048576K
Card table byte_map: [0x0000000059a20000,0x0000000059af0000] byte_map_base:
0x0000000055ce0000
Marking Bits: (ParMarkBitMap*) 0x000000005fe1b6d0
 Begin Bits: [0x000000005db80000, 0x000000005e180000)
 End Bits:   [0x000000005e180000, 0x000000005e780000)
Polling page: 0x000000003bfc0000
CodeCache: size=245760Kb used=25059Kb max_used=25064Kb free=220700Kb
 bounds [0x0000000060330000, 0x0000000061be0000, 0x000000006f330000]
 total_blobs=8995 nmethods=7846 adapters=1057
 compilation: enabled
Compilation events (10 events):
Event: 178.148 Thread 0x00000000909c9800 9473  s    3      
com.sun.java.swing.plaf.windows.XPStyle::getColor (125 bytes)
Event: 178.149 Thread 0x00000000909c9800 nmethod 9473 0x0000000061bcb890
code [0x0000000061bcbb00, 0x0000000061bcce18]
Event: 178.358 Thread 0x000000005f22c800 9474       4      
java.awt.EventQueue::getNextEventPrivate (76 bytes)
Event: 178.361 Thread 0x000000005f22c800 nmethod 9474 0x0000000061bc56d0
code [0x0000000061bc5820, 0x0000000061bc5a78]
Event: 178.408 Thread 0x00000000909c9800 9475   !   3      
java.lang.ThreadGroup::remove (94 bytes)
Event: 178.409 Thread 0x00000000909c9800 nmethod 9475 0x0000000061bcf850
code [0x0000000061bcfa00, 0x0000000061bd00e8]
Event: 178.532 Thread 0x00000000909c9800 9476       3      
java.util.EnumMap$KeyIterator::next (5 bytes)
Event: 178.533 Thread 0x00000000909c9800 nmethod 9476 0x0000000061bcf490
code [0x0000000061bcf600, 0x0000000061bcf7a8]
Event: 178.533 Thread 0x00000000909c9800 9477       3      
java.util.EnumMap$KeyIterator::next (43 bytes)
Event: 178.533 Thread 0x00000000909c9800 nmethod 9477 0x0000000061bcee10
code [0x0000000061bcefa0, 0x0000000061bcf2f8]
GC Heap History (10 events):
Event: 166.250 GC heap before
{Heap before GC invocations=46 (full 3):
 PSYoungGen      total 80384K, used 69953K [0x00000007ba000000,
0x00000007bfe80000, 0x00000007c0000000)
  eden space 66048K, 100% used
[0x00000007ba000000,0x00000007be080000,0x00000007be080000)
  from space 14336K, 27% used
[0x00000007bf080000,0x00000007bf450620,0x00000007bfe80000)
  to   space 15360K, 0% used
[0x00000007be080000,0x00000007be080000,0x00000007bef80000)
 ParOldGen       total 83456K, used 55373K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab613660,0x00000007ad180000)
 Metaspace       used 75830K, capacity 76306K, committed 76848K, reserved
1114112K
  class space    used 11680K, capacity 11848K, committed 11856K, reserved
1048576K
Event: 166.254 GC heap after
Heap after GC invocations=46 (full 3):
 PSYoungGen      total 81408K, used 4457K [0x00000007ba000000,
0x00000007c0000000, 0x00000007c0000000)
  eden space 66048K, 0% used
[0x00000007ba000000,0x00000007ba000000,0x00000007be080000)
  from space 15360K, 29% used
[0x00000007be080000,0x00000007be4da7a8,0x00000007bef80000)
  to   space 14848K, 0% used
[0x00000007bf180000,0x00000007bf180000,0x00000007c0000000)
 ParOldGen       total 83456K, used 55381K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab615660,0x00000007ad180000)
 Metaspace       used 75830K, capacity 76306K, committed 76848K, reserved
1114112K
  class space    used 11680K, capacity 11848K, committed 11856K, reserved
1048576K
}
Event: 166.987 GC heap before
{Heap before GC invocations=47 (full 3):
 PSYoungGen      total 81408K, used 70505K [0x00000007ba000000,
0x00000007c0000000, 0x00000007c0000000)
  eden space 66048K, 100% used
[0x00000007ba000000,0x00000007be080000,0x00000007be080000)
  from space 15360K, 29% used
[0x00000007be080000,0x00000007be4da7a8,0x00000007bef80000)
  to   space 14848K, 0% used
[0x00000007bf180000,0x00000007bf180000,0x00000007c0000000)
 ParOldGen       total 83456K, used 55381K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab615660,0x00000007ad180000)
 Metaspace       used 76048K, capacity 76498K, committed 77104K, reserved
1114112K
  class space    used 11699K, capacity 11848K, committed 11856K, reserved
1048576K
Event: 166.991 GC heap after
Heap after GC invocations=47 (full 3):
 PSYoungGen      total 81408K, used 4283K [0x00000007ba000000,
0x00000007bfe80000, 0x00000007c0000000)
  eden space 68096K, 0% used
[0x00000007ba000000,0x00000007ba000000,0x00000007be280000)
  from space 13312K, 32% used
[0x00000007bf180000,0x00000007bf5aee78,0x00000007bfe80000)
  to   space 14336K, 0% used
[0x00000007be280000,0x00000007be280000,0x00000007bf080000)
 ParOldGen       total 83456K, used 55389K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab617660,0x00000007ad180000)
 Metaspace       used 76048K, capacity 76498K, committed 77104K, reserved
1114112K
  class space    used 11699K, capacity 11848K, committed 11856K, reserved
1048576K
}
Event: 171.940 GC heap before
{Heap before GC invocations=48 (full 3):
 PSYoungGen      total 81408K, used 72379K [0x00000007ba000000,
0x00000007bfe80000, 0x00000007c0000000)
  eden space 68096K, 100% used
[0x00000007ba000000,0x00000007be280000,0x00000007be280000)
  from space 13312K, 32% used
[0x00000007bf180000,0x00000007bf5aee78,0x00000007bfe80000)
  to   space 14336K, 0% used
[0x00000007be280000,0x00000007be280000,0x00000007bf080000)
 ParOldGen       total 83456K, used 55389K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab617660,0x00000007ad180000)
 Metaspace       used 77121K, capacity 77546K, committed 78000K, reserved
1116160K
  class space    used 11831K, capacity 11980K, committed 11984K, reserved
1048576K
Event: 171.944 GC heap after
Heap after GC invocations=48 (full 3):
 PSYoungGen      total 82432K, used 5089K [0x00000007ba000000,
0x00000007bff00000, 0x00000007c0000000)
  eden space 68096K, 0% used
[0x00000007ba000000,0x00000007ba000000,0x00000007be280000)
  from space 14336K, 35% used
[0x00000007be280000,0x00000007be778748,0x00000007bf080000)
  to   space 13312K, 0% used
[0x00000007bf200000,0x00000007bf200000,0x00000007bff00000)
 ParOldGen       total 83456K, used 55397K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab619660,0x00000007ad180000)
 Metaspace       used 77121K, capacity 77546K, committed 78000K, reserved
1116160K
  class space    used 11831K, capacity 11980K, committed 11984K, reserved
1048576K
}
Event: 172.454 GC heap before
{Heap before GC invocations=49 (full 3):
 PSYoungGen      total 82432K, used 73185K [0x00000007ba000000,
0x00000007bff00000, 0x00000007c0000000)
  eden space 68096K, 100% used
[0x00000007ba000000,0x00000007be280000,0x00000007be280000)
  from space 14336K, 35% used
[0x00000007be280000,0x00000007be778748,0x00000007bf080000)
  to   space 13312K, 0% used
[0x00000007bf200000,0x00000007bf200000,0x00000007bff00000)
 ParOldGen       total 83456K, used 55397K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab619660,0x00000007ad180000)
 Metaspace       used 83621K, capacity 84064K, committed 84656K, reserved
1120256K
  class space    used 13024K, capacity 13169K, committed 13264K, reserved
1048576K
Event: 172.463 GC heap after
Heap after GC invocations=49 (full 3):
 PSYoungGen      total 79872K, used 13305K [0x00000007ba000000,
0x00000007c0000000, 0x00000007c0000000)
  eden space 66560K, 0% used
[0x00000007ba000000,0x00000007ba000000,0x00000007be100000)
  from space 13312K, 99% used
[0x00000007bf200000,0x00000007bfefe580,0x00000007bff00000)
  to   space 15872K, 0% used
[0x00000007be100000,0x00000007be100000,0x00000007bf080000)
 ParOldGen       total 83456K, used 55517K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab637660,0x00000007ad180000)
 Metaspace       used 83621K, capacity 84064K, committed 84656K, reserved
1120256K
  class space    used 13024K, capacity 13169K, committed 13264K, reserved
1048576K
}
Event: 172.945 GC heap before
{Heap before GC invocations=50 (full 3):
 PSYoungGen      total 79872K, used 79865K [0x00000007ba000000,
0x00000007c0000000, 0x00000007c0000000)
  eden space 66560K, 100% used
[0x00000007ba000000,0x00000007be100000,0x00000007be100000)
  from space 13312K, 99% used
[0x00000007bf200000,0x00000007bfefe580,0x00000007bff00000)
  to   space 15872K, 0% used
[0x00000007be100000,0x00000007be100000,0x00000007bf080000)
 ParOldGen       total 83456K, used 55517K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 66% used
[0x00000007a8000000,0x00000007ab637660,0x00000007ad180000)
 Metaspace       used 88657K, capacity 89164K, committed 89776K, reserved
1124352K
  class space    used 14093K, capacity 14227K, committed 14288K, reserved
1048576K
Event: 172.956 GC heap after
Heap after GC invocations=50 (full 3):
 PSYoungGen      total 82432K, used 15364K [0x00000007ba000000,
0x00000007c0000000, 0x00000007c0000000)
  eden space 66560K, 0% used
[0x00000007ba000000,0x00000007ba000000,0x00000007be100000)
  from space 15872K, 96% used
[0x00000007be100000,0x00000007bf001020,0x00000007bf080000)
  to   space 15872K, 0% used
[0x00000007bf080000,0x00000007bf080000,0x00000007c0000000)
 ParOldGen       total 83456K, used 55969K [0x00000007a8000000,
0x00000007ad180000, 0x00000007ba000000)
  object space 83456K, 67% used
[0x00000007a8000000,0x00000007ab6a8488,0x00000007ad180000)
 Metaspace       used 88657K, capacity 89164K, committed 89776K, reserved
1124352K
  class space    used 14093K, capacity 14227K, committed 14288K, reserved
1048576K
}
Deoptimization events (10 events):
Event: 172.876 Thread 0x00000001091ff800 Uncommon trap: reason=unstable_if
action=reinterpret pc=0x0000000061425efc
method=clojure.lang.PersistentHashMap$NodeSeq.create([Ljava/lang/Object;ILclojure/lang/ISeq;)Lclojure/lang/ISeq;
@ 68
Event: 172.882 Thread 0x00000001091ff800 Uncommon trap: reason=unstable_if
action=reinterpret pc=0x000000006143ca68
method=clojure.lang.PersistentHashMap.valAt(Ljava/lang/Object;Ljava/lang/Object;)Ljava/lang/Object;
@ 1
Event: 172.892 Thread 0x00000001091ff800 Uncommon trap: reason=unstable_if
action=reinterpret pc=0x00000000609b90c4
method=clojure.lang.Util.equiv(Ljava/lang/Object;Ljava/lang/Object;)Z @ 8
Event: 172.894 Thread 0x00000001091ff800 Uncommon trap: reason=unstable_if
action=reinterpret pc=0x0000000060e15de4
method=clojure.lang.Util.equiv(Ljava/lang/Object;Ljava/lang/Object;)Z @ 41
Event: 172.905 Thread 0x00000001091ff800 Uncommon trap: reason=class_check
action=maybe_recompile pc=0x0000000060d8b050
method=java.lang.Integer.equals(Ljava/lang/Object;)Z @ 1
Event: 172.914 Thread 0x00000001091ff800 Uncommon trap: reason=unstable_if
action=reinterpret pc=0x000000006079f658
method=clojure.lang.Symbol.equals(Ljava/lang/Object;)Z @ 40
Event: 176.899 Thread 0x000000005957d800 Uncommon trap: reason=bimorphic
action=maybe_recompile pc=0x0000000061b67c74
method=java.awt.Component.getGraphics()Ljava/awt/Graphics; @ 114
Event: 176.900 Thread 0x000000005957d800 Uncommon trap: reason=bimorphic
action=maybe_recompile pc=0x0000000061b67c74
method=java.awt.Component.getGraphics()Ljava/awt/Graphics; @ 114
Event: 176.901 Thread 0x00000000b30ce800 Uncommon trap: reason=bimorphic
action=maybe_recompile pc=0x0000000061b67c74
method=java.awt.Component.getGraphics()Ljava/awt/Graphics; @ 114
Event: 176.906 Thread 0x000000005957d800 Uncommon trap: reason=bimorphic
action=maybe_recompile pc=0x0000000061b67c74
method=java.awt.Component.getGraphics()Ljava/awt/Graphics; @ 114
Internal exceptions (10 events):
Event: 171.978 Thread 0x000000005957d800 Exception   (0x00000007ba478400)
thrown at
[C:\re\workspace\8-2-build-windows-amd64-cygwin\jdk8u121\8372\hotspot\src\share\vm\prims\nativeLookup.cpp,
line 378]
Event: 172.428 Thread 0x000000005957d800 Exception   (0x00000007bde5cfc8)
thrown at
[C:\re\workspace\8-2-build-windows-amd64-cygwin\jdk8u121\8372\hotspot\src\share\vm\prims\jni.cpp,
line 709]
Event: 172.439 Thread 0x00000001091ff800 Implicit null exception at
0x0000000061a9a06b to 0x0000000061a9a1a9
Event: 172.587 Thread 0x00000001091ff800 Implicit null exception at
0x0000000060617835 to 0x0000000060617969
Event: 172.650 Thread 0x000000005957d800 Exception   (0x00000007bc0f9618)
thrown at
[C:\re\workspace\8-2-build-windows-amd64-cygwin\jdk8u121\8372\hotspot\src\share\vm\classfile\systemDictionary.cpp,
line 210]
Event: 172.651 Thread 0x000000005957d800 Exception   (0x00000007bc21d678)
thrown at
[C:\re\workspace\8-2-build-windows-amd64-cygwin\jdk8u121\8372\hotspot\src\share\vm\classfile\systemDictionary.cpp,
line 210]
Event: 172.653 Thread 0x000000005957d800 Exception   (0x00000007bc273238)
thrown at
[C:\re\workspace\8-2-build-windows-amd64-cygwin\jdk8u121\8372\hotspot\src\share\vm\classfile\systemDictionary.cpp,
line 210]
Event: 172.655 Thread 0x000000005957d800 Exception   (0x00000007bc2ecbb0)
thrown at
[C:\re\workspace\8-2-build-windows-amd64-cygwin\jdk8u121\8372\hotspot\src\share\vm\classfile\systemDictionary.cpp,
line 210]
Event: 172.882 Thread 0x00000001091ff800 Implicit null exception at
0x000000006143c4af to 0x000000006143ca55
Event: 172.892 Thread 0x00000001091ff800 Implicit null exception at
0x00000000609b8f75 to 0x00000000609b90b1
Events (10 events):
Event: 176.908 loading class
javax/swing/RepaintManager$DisplayChangedRunnable done
Event: 176.909 loading class
org/micromanager/api/events/PropertyChangedEvent
Event: 176.909 loading class
org/micromanager/api/events/PropertyChangedEvent done
Event: 176.909 loading class com/google/common/eventbus/DeadEvent
Event: 176.909 loading class com/google/common/eventbus/DeadEvent done
Event: 177.710 Executing VM operation: RevokeBias
Event: 177.710 Executing VM operation: RevokeBias done
Event: 177.710 Thread 0x0000000109208000 Thread exited: 0x0000000109208000
Event: 178.408 Thread 0x000000010920a800 Thread added: 0x000000010920a800
Event: 178.408 Thread 0x000000010920a800 Thread exited: 0x000000010920a800

Dynamic libraries:
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Files\MATLAB\R2017b\bin\win64\MATLAB.exe
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0x00007ffab7b80000 - 0x00007ffab7c32000  C:\WINDOWS\System32\KERNEL32.DLL
0x00007ffab5be0000 - 0x00007ffab5e53000  C:\WINDOWS\System32\KERNELBASE.dll
0x00007ffab3d80000 - 0x00007ffab3e0b000  C:\WINDOWS\SYSTEM32\apphelp.dll
0x00007ffab5a40000 - 0x00007ffab5b3a000  C:\WINDOWS\System32\ucrtbase.dll
0x00000000fa830000 - 0x00000000fab46000  C:\Program
Files\MATLAB\R2017b\bin\win64\mvm.dll
0x00000000ffff0000 - 0x000000010044a000  C:\Program
Files\MATLAB\R2017b\bin\win64\libmwservices.dll
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Files\MATLAB\R2017b\bin\win64\boost_system-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\MSVCP140.dll
0x00007ffab7a30000 - 0x00007ffab7a9c000  C:\WINDOWS\System32\WS2_32.dll
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Files\MATLAB\R2017b\bin\win64\VCRUNTIME140.dll
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Files\MATLAB\R2017b\bin\win64\libmwms.dll
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Files\MATLAB\R2017b\bin\win64\libmwmst.dll
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Files\MATLAB\R2017b\bin\win64\libut.dll
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0x00007ffab5b40000 - 0x00007ffab5bba000
C:\WINDOWS\System32\bcryptPrimitives.dll
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Files\MATLAB\R2017b\bin\win64\mlutil.dll
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Files\MATLAB\R2017b\bin\win64\boost_chrono-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\boost_date_time-vc140-mt-1_56.dll
0x00007ffab6a60000 - 0x00007ffab6aff000  C:\WINDOWS\System32\msvcp_win.dll
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0x00007ffab60b0000 - 0x00007ffab67bd000
C:\WINDOWS\System32\windows.storage.dll
0x00007ffab9410000 - 0x00007ffab94d2000  C:\WINDOWS\System32\OLEAUT32.dll
0x00007ffab5a20000 - 0x00007ffab5a31000
C:\WINDOWS\System32\kernel.appcore.dll
0x00007ffab5a00000 - 0x00007ffab5a1f000  C:\WINDOWS\System32\profapi.dll
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Files\MATLAB\R2017b\bin\win64\boost_log-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\boost_serialization-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\boost_thread-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\tbb.dll
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Files\MATLAB\R2017b\bin\win64\libmwregexp.dll
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Files\MATLAB\R2017b\bin\win64\boost_iostreams-vc140-mt-1_56.dll
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C:\WINDOWS\WinSxS\amd64_microsoft.windows.common-controls_6595b64144ccf1df_5.82.17134.165_none_f954469b3093f6d5\COMCTL32.dll
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Files\MATLAB\R2017b\bin\win64\boost_filesystem-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\boost_regex-vc140-mt-1_56.dll
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Files\MATLAB\R2017b\bin\win64\MSVCP120.dll
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Files\MATLAB\R2017b\bin\win64\MSVCR120.dll
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Files\MATLAB\R2017b\bin\win64\zlib1.dll
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Files\MATLAB\R2017b\bin\win64\CppMicroServices3.dll
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Files\MATLAB\R2017b\bin\win64\libmwflstoragevfs.dll
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Files\MATLAB\R2017b\bin\win64\libmwstoragesharedlib.dll
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java_command: <unknown>
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Files\Micro-Manager-1.4\jre\lib\management-agent.jar;C:\Program
Files\Micro-Manager-1.4\jre\lib\plugin.jar;C:\Program
Files\Micro-Manager-1.4\jre\lib\resources.jar;C:\Program
Files\Micro-Manager-1.4\jre\lib\rt.jar;C:\Program
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PATH=C:\Program Files (x86)\Intel\iCLS Client\;C:\Program Files\Intel\iCLS
Client\;C:\WINDOWS\system32;C:\WINDOWS;C:\WINDOWS\System32\Wbem;C:\WINDOWS\System32\WindowsPowerShell\v1.0\;C:\Program
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(x86)\Intel\Intel(R) Management Engine Components\IPT;C:\Program
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(x86)\HP\HP Performance Advisor;C:\Program
Files\MATLAB\R2017b\bin;C:\WINDOWS\System32\OpenSSH\;C:\Program
Files\Micro-Manager-1.4;%USERPROFILE%\AppData\Local\Microsoft\WindowsApps;
USERNAME=Matthew Cabeen
OS=Windows_NT
PROCESSOR_IDENTIFIER=Intel64 Family 6 Model 79 Stepping 1, GenuineIntel

---------------  S Y S T E M  ---------------
OS: Windows 10.0 , 64 bit Build 17134 (10.0.17134.1)
CPU:total 8 (4 cores per cpu, 2 threads per core) family 6 model 79 stepping
1, cmov, cx8, fxsr, mmx, sse, sse2, sse3, ssse3, sse4.1, sse4.2, popcnt,
avx, avx2, aes, clmul, erms, rtm, 3dnowpref, lzcnt, ht, tsc, tscinvbit,
bmi1, bmi2, adx
Memory: 4k page, physical 33468528k(29225940k free), swap
38449264k(32861236k free)
vm_info: Java HotSpot(TM) 64-Bit Server VM (25.121-b13) for windows-amd64
JRE (1.8.0_121-b13), built on Dec 12 2016 18:21:36 by "java_re" with MS VC++
10.0 (VS2010)
time: Mon Aug 06 10:53:41 2018
elapsed time: 178 seconds (0d 0h 2m 58s)




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Re: Matlab crashes frequently when opening core

nanthony
Hi Matthew,

I have this same aggravating issue. For me micromanager works the first time
I open it in Matlab. But the second time causes a crash, this means I have
to close Matlab every time I'm done with micromanager.

I'm not sure if it's a micromanager issue or a matlab issue. Hopefully it
gets fixed though, it's very annoying.

--Nick



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Re: Matlab crashes frequently when opening core

Rybenkov, Valentin V.

Hi Nick,

 

Did you try clearing memory and all variables in MATLAB once you are done with MM? Just curious, I have similar issues with other programs sometimes.

 

Valentin

Valentin V. Rybenkov
University of Oklahoma
101 Stephenson Parkway
Norman, OK 73019
Ph: 405-325-1677

 


From: nickexists <[hidden email]>
Sent: Friday, August 10, 2018 12:28:22 PM
To: [hidden email]
Subject: Re: [micro-manager-general] Matlab crashes frequently when opening core
 
Hi Matthew,

I have this same aggravating issue. For me micromanager works the first time
I open it in Matlab. But the second time causes a crash, this means I have
to close Matlab every time I'm done with micromanager.

I'm not sure if it's a micromanager issue or a matlab issue. Hopefully it
gets fixed though, it's very annoying.

--Nick



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Re: Matlab crashes frequently when opening core

nanthony
Hi Valentin,

Thanks for the suggestion.

I have tried running 'clear all' and 'clc' but it doesn't seem to help.

--Nick



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