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Visiting tree hierarchy from value field often triggers premature JVM exit. #108

Open kodecharlie opened 5 years ago

kodecharlie commented 5 years ago
  1. After starting the template editor, open schema.json.
  2. In the left panel under common assay template, select assay cell line.
  3. In the right panel under Values, press Lookup button for the first value with URI http://dto.org/DTO/DTO_000 (corresponding to the Name field BRENDA tissues and cell lines).
  4. If you the template editor does not immediately crash after pressing on the Lookup button, then press on the Hierarchy tab in the Lookup panel that pops up. Search for some terms, scroll, left-click. At some point, the JVM should crash.

I am suspicious this is a JVM version issue, but am not sure.

Here are diagnostics printed by the JVM to my bash console after the JVM crashes:

2018-11-02 15:07:37.468 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:07:37.468 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:08:03.141 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:08:03.141 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
objc[19398]: Class FIFinderSyncExtensionHost is implemented in both /System/Library/PrivateFrameworks/FinderKit.framework/Versions/A/FinderKit (0x7fffa6f721d0) and /System/Library/PrivateFrameworks/FileProvider.framework/OverrideBundles/FinderSyncCollaborationFileProviderOverride.bundle/Contents/MacOS/FinderSyncCollaborationFileProviderOverride (0x11d1b9dc8). One of the two will be used. Which one is undefined.
2018-11-02 15:08:08.802 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:08:08.802 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:14.291 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:14.291 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:15.501 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:15.501 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:22.091 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:22.091 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:25.139 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:25.139 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:27.527 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:27.527 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:28.095 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:28.095 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:32.025 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:32.025 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:37.184 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:37.184 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:40.846 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:40.846 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:41.326 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:41.326 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:46.670 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:46.670 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:47.294 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:47.294 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:51.703 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:51.703 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:09:56.021 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:09:56.022 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:06.573 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:06.573 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:07.565 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:07.565 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:12.724 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:12.724 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:24.091 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:24.092 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:32.243 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:32.243 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:32.859 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:32.859 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:39.779 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:39.779 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:42.618 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:42.619 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:47.180 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:47.180 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:10:51.338 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:10:51.338 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:11:34.315 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:11:34.315 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:11:40.263 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:11:40.263 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:12:11.238 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:12:11.238 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:12:14.292 java[19398:1013939] unrecognized type is 4294967295
2018-11-02 15:12:14.292 java[19398:1013939] *** Assertion failure in -[NSEvent _initWithCGEvent:eventRef:], /BuildRoot/Library/Caches/com.apple.xbs/Sources/AppKit/AppKit-1671/AppKit.subproj/NSEvent.m:1969
2018-11-02 15:12:14.294 java[19398:1013939] *** Terminating app due to uncaught exception 'NSInternalInconsistencyException', reason: 'Invalid parameter not satisfying: _type > 0 && _type <= kCGSLastEventType'
*** First throw call stack:
(
    0   CoreFoundation                      0x00007fff4bbff43d __exceptionPreprocess + 256
    1   libobjc.A.dylib                     0x00007fff77b0c720 objc_exception_throw + 48
    2   CoreFoundation                      0x00007fff4bc1a08e +[NSException raise:format:arguments:] + 98
    3   Foundation                          0x00007fff4dfb655d -[NSAssertionHandler handleFailureInMethod:object:file:lineNumber:description:] + 194
    4   AppKit                              0x00007fff490a5acd -[NSEvent _initWithCGEvent:eventRef:] + 3272
    5   AppKit                              0x00007fff493f9188 +[NSEvent eventWithCGEvent:] + 120
    6   libglass.dylib                      0x000000011c6ad93b listenTouchEvents + 59
    7   SkyLight                            0x00007fff71bca782 _ZL19processEventTapDataPvjjjPhj + 148
    8   SkyLight                            0x00007fff71ac9bb2 _XPostEventTapData + 278
    9   SkyLight                            0x00007fff71bca690 _ZL22eventTapMessageHandlerP12__CFMachPortPvlS1_ + 132
    10  CoreFoundation                      0x00007fff4bb5da7f __CFMachPortPerform + 282
    11  CoreFoundation                      0x00007fff4bb5d959 __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE1_PERFORM_FUNCTION__ + 41
    12  CoreFoundation                      0x00007fff4bb5d8b7 __CFRunLoopDoSource1 + 527
    13  CoreFoundation                      0x00007fff4bb45945 __CFRunLoopRun + 2574
    14  CoreFoundation                      0x00007fff4bb44ce4 CFRunLoopRunSpecific + 463
    15  Foundation                          0x00007fff4dea55da -[NSRunLoop(NSRunLoop) runMode:beforeDate:] + 280
    16  libglass.dylib                      0x000000011c69b6d8 +[GlassApplication enterNestedEventLoopWithEnv:] + 136
    17  libglass.dylib                      0x000000011c69c13a Java_com_sun_glass_ui_mac_MacApplication__1enterNestedEventLoopImpl + 74
    18  ???                                 0x00000001057df9f4 0x0 + 4387109364
    19  ???                                 0x00000001057d0040 0x0 + 4387045440
)
libc++abi.dylib: terminating with uncaught exception of type NSException
Abort trap: 6
aclarkxyz commented 5 years ago

I was running into that (or something analogous) after I updated to the latest macOS. Updating to the latest Java 8 runtime fixed it, so try that first...