External Email - Use Caution
Dear Freesurfer experts,
I am writing to request technical assistance with freeview. I use freesurfer and freeview in my current research, where they are very valuable tools. However, upon upgrading my macbook's OS to macOS Monterey, Version 12.2.1, I now am unable to open freeview; it quits immediately upon starting. The error message indicates a segmentation fault, and in fact my error (and the error message) appears to be exactly the same as the one encountered by Alex White in this thread: https://secure-web.cisco.com/1IXdnFyTKmN2mh6oaF1iVQ3_Ho1Z9szlPmaAOZrSIy7EZwF...
I have been in correspondence with Alex, and he mentioned that you were able to help him resolve the issue, but that it required you to send him a patched version of freeview (or freesurfer?). I have the identical problem on freeview 7.1.1 and 7.2.0, but if possible I would prefer to continue working with your latest version, 7.2.0.
Please do let me know if further information could help you understand this issue better. For the time being, I have copied the error message that prints to terminal and the full error report, both below.
Any help/advice is much appreciated.
Sincerely,
Sam Johnson Postdoctoral Scholar Yeatman Brain and Education Lab, Stanford University GSE
-----
# terminal error message:
(base) samjohns@DNab40bbcb 7.2.0 % freeview /Applications/freesurfer/7.2.0/bin/freeview: line 2: 1968 Segmentation fault: 11 $FREESURFER_HOME/Freeview.app/Contents/MacOS/freeview "$@"
# full crash report
------------------------------------- Translated Report (Full Report Below) -------------------------------------
Process: freeview [1673] Path: /Applications/freesurfer/*/Freeview.app/Contents/MacOS/freeview Identifier: com.freesurfer.freeview Version: ??? Code Type: X86-64 (Translated) Parent Process: Exited process [1672] Responsible: Terminal [1587] User ID: 502
Date/Time: 2022-03-01 15:12:51.8713 -0800 OS Version: macOS 12.2.1 (21D62) Report Version: 12 Anonymous UUID: DCA45306-7159-2569-6BDE-CF94BEE1E522
Time Awake Since Boot: 1200 seconds
System Integrity Protection: enabled
Crashed Thread: 0 Dispatch queue: com.apple.main-thread
Exception Type: EXC_BAD_ACCESS (SIGSEGV) Exception Codes: KERN_INVALID_ADDRESS at 0x0000545845545f67 Exception Codes: 0x0000000000000001, 0x0000545845545f67 Exception Note: EXC_CORPSE_NOTIFY
Termination Reason: Namespace SIGNAL, Code 11 Segmentation fault: 11 Terminating Process: exc handler [1673]
VM Region Info: 0x545845545f67 is not in any region. Bytes after previous region: 92257060675432 Bytes before following region: 12815019253913 REGION TYPE START - END [ VSIZE] PRT/MAX SHRMOD REGION DETAIL commpage (reserved) 1000000000-7000000000 [384.0G] ---/--- SM=NUL ...(unallocated) ---> GAP OF 0x5f9000000000 BYTES MALLOC_NANO 600000000000-600008000000 [128.0M] rw-/rwx SM=PRV
Thread 0 Crashed:: Dispatch queue: com.apple.main-thread 0 freeview 0x104ec0ff8 0x104ce2000 + 1961976 1 QtWidgets 0x12046c6ed QWidget::event(QEvent*) + 1117 2 QtWidgets 0x12057dc45 QMainWindow::event(QEvent*) + 277 3 QtWidgets 0x12043070d QApplicationPrivate::notify_helper(QObject*, QEvent*) + 269 4 QtWidgets 0x120431b12 QApplication::notify(QObject*, QEvent*) + 594 5 QtCore 0x12266e564 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212 6 QtWidgets 0x12048aa74 0x120420000 + 436852 7 QtWidgets 0x12043070d QApplicationPrivate::notify_helper(QObject*, QEvent*) + 269 8 QtWidgets 0x120431b12 QApplication::notify(QObject*, QEvent*) + 594 9 QtCore 0x12266e564 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212 10 QtGui 0x1211e2a74 QGuiApplicationPrivate::processGeometryChangeEvent(QWindowSystemInterfacePrivate::GeometryChangeEvent*) + 516 11 QtGui 0x1211e3420 QGuiApplicationPrivate::processWindowScreenChangedEvent(QWindowSystemInterfacePrivate::WindowScreenChangedEvent*) + 736 12 QtGui 0x1211c1c33 bool QWindowSystemInterfacePrivate::handleWindowSystemEventQWindowSystemInterface::SynchronousDelivery(QWindowSystemInterfacePrivate::WindowSystemEvent*) + 115 13 libqcocoa.dylib 0x121eb4c77 0x121e96000 + 126071 14 libqcocoa.dylib 0x121eae862 0x121e96000 + 100450 15 libqcocoa.dylib 0x121eae2eb 0x121e96000 + 99051 16 QtGui 0x1211ec1dc QWindowPrivate::create(bool, unsigned long long) + 140 17 QtWidgets 0x120459e31 QWidgetPrivate::create() + 1201 18 QtWidgets 0x120458b22 QWidget::create(unsigned long long, bool, bool) + 322 19 QtWidgets 0x12057e4d7 QMainWindow::setUnifiedTitleAndToolBarOnMac(bool) + 55 20 freeview 0x104eaf497 0x104ce2000 + 1889431 21 freeview 0x104ea950e 0x104ce2000 + 1864974 22 freeview 0x104de279a 0x104ce2000 + 1050522 23 dyld 0x2158184fe start + 462
Thread 1:: com.apple.rosetta.exceptionserver 0 runtime 0x7ff7ffc578e4 0x7ff7ffc53000 + 18660 1 runtime 0x7ff7ffc64928 0x7ff7ffc53000 + 71976 2 runtime 0x7ff7ffc660a4 0x7ff7ffc53000 + 77988
Thread 2: 0 runtime 0x7ff7ffc75814 0x7ff7ffc53000 + 141332
Thread 3: 0 runtime 0x7ff7ffc75814 0x7ff7ffc53000 + 141332
Thread 4:: Dispatch queue: com.apple.dock.fullscreen 0 dyld 0x215824e0c dyld4::Loader::LoaderRef::loader(dyld4::RuntimeState const&) const + 68 1 dyld 0x21582cdb1 dyld4::PrebuiltLoader::dependent(dyld4::RuntimeState const&, unsigned int, dyld4::Loader::DependentKind*) const + 95 2 dyld 0x215828a1e dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 532 3 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 4 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 5 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 6 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 7 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 8 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 9 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 10 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 11 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 12 dyld 0x215828a5b dyld4::Loader::hasExportedSymbol(Diagnostics&, dyld4::RuntimeState&, char const*, dyld4::Loader::ExportedSymbolMode, dyld4::Loader::ResolvedSymbol*, dyld3::Array<dyld4::Loader const*>*) const + 593 13 dyld 0x215837b4c dyld4::APIs::dlsym(void*, char const*) + 656 14 SkyLight 0x7ff811fbf581 __loginframework_vtable_block_invoke + 605 15 libdispatch.dylib 0x7ff80ccd8cc9 _dispatch_client_callout + 8 16 libdispatch.dylib 0x7ff80ccd9ec1 _dispatch_once_callout + 20 17 SkyLight 0x7ff811fc0de5 SLSCopyCurrentSessionPropertiesInternalBridge + 366 18 SkyLight 0x7ff811e6a097 SLSessionCopyCurrentDictionary + 12 19 AppKit 0x7ff80f9e04ee -[NSDockConnection _makeConnectionIfNeededWithRetryInterval:onDemand:] + 47 20 AppKit 0x7ff8101b9720 __35-[NSDockConnection startConnection]_block_invoke.37 + 45 21 libdispatch.dylib 0x7ff80ccd7ad8 _dispatch_call_block_and_release + 12 22 libdispatch.dylib 0x7ff80ccd8cc9 _dispatch_client_callout + 8 23 libdispatch.dylib 0x7ff80ccdecee _dispatch_lane_serial_drain + 696 24 libdispatch.dylib 0x7ff80ccdf7c8 _dispatch_lane_invoke + 366 25 libdispatch.dylib 0x7ff80cce97e1 _dispatch_workloop_worker_thread + 758 26 libsystem_pthread.dylib 0x7ff80ce8f074 _pthread_wqthread + 326 27 libsystem_pthread.dylib 0x7ff80ce8dffb start_wqthread + 15
Thread 5: 0 runtime 0x7ff7ffc75814 0x7ff7ffc53000 + 141332
Thread 6: 0 runtime 0x7ff7ffc75814 0x7ff7ffc53000 + 141332
Thread 7: 0 runtime 0x7ff7ffc75814 0x7ff7ffc53000 + 141332
Thread 0 crashed with X86 Thread State (64-bit): rax: 0x0000545845545f5f rbx: 0x000000031e5aac00 rcx: 0x0000000000010000 rdx: 0x000000012046c6dd rdi: 0x00007ff815d4f000 rsi: 0x000000031e5a9c78 rbp: 0x000000031e5a9730 rsp: 0x000000031e5a9720 r8: 0x0000000000000000 r9: 0x0000000000000000 r10: 0x00000001220129e0 r11: 0x00007ff80f8c8bb9 r12: 0x00007ff175745090 r13: 0x000000031e5aac00 r14: 0x000000031e5a9c78 r15: 0x000000031e5a9c78 rip: 0x0000000104ec0ff8 rfl: 0x0000000000000203 tmp0: 0x0000000115a9c01c tmp1: 0x000000012046c6ed tmp2: 0x0000000120a3c1e8
Binary Images: 0x104ce2000 - 0x106349fff com.freesurfer.freeview (*) <35cc1656-e7ff-32a5-8ec9-9faf896f9915> /Applications/freesurfer/*/Freeview.app/Contents/MacOS/freeview 0x120420000 - 0x12085efff org.qt-project.QtWidgets (5.12) <ef671b84-7965-3c74-89df-09c3fa9096ca> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtWidgets.framework/Versions/5/QtWidgets 0x122484000 - 0x1229b9fff org.qt-project.QtCore (5.12) <ae294ca9-b3ec-3f0e-b67a-509a13c0c913> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtCore.framework/Versions/5/QtCore 0x1211ac000 - 0x1215f8fff org.qt-project.QtGui (5.12) <9cc34b01-ae4a-3ff2-ac1b-de08b8fbbbae> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtGui.framework/Versions/5/QtGui 0x121e96000 - 0x121ffcfff libqcocoa.dylib (*) <14bc2336-68e6-3ace-b3a9-f21152a64785> /Applications/freesurfer/*/Freeview.app/Contents/PlugIns/platforms/libqcocoa.dylib 0x215813000 - 0x21587efff dyld (*) <7de33963-bbc5-3996-ba6e-f1d562c17c95> /usr/lib/dyld 0x7ff7ffc53000 - 0x7ff7ffc82fff runtime (*) <faca02c7-0a4c-3629-a746-55ddcfee9116> /usr/libexec/rosetta/runtime 0x7ff811d55000 - 0x7ff8120eafff com.apple.SkyLight (1.600.0) <eab4373e-52ca-38d7-963a-9f5bd71824e9> /System/Library/PrivateFrameworks/SkyLight.framework/Versions/A/SkyLight 0x7ff80ccd6000 - 0x7ff80cd1cfff libdispatch.dylib (*) <67d92c93-aa68-34c2-964b-23e8a8d32098> /usr/lib/system/libdispatch.dylib 0x7ff80f86e000 - 0x7ff8106fffff com.apple.AppKit (6.9) <9d3ab204-4858-3120-b002-5c38b02edec4> /System/Library/Frameworks/AppKit.framework/Versions/C/AppKit 0x7ff80ce8c000 - 0x7ff80ce97fff libsystem_pthread.dylib (*) <ee564342-d8f2-396d-b642-40092cf34d82> /usr/lib/system/libsystem_pthread.dylib 0x0 - 0xffffffffffffffff ??? (*) <00000000-0000-0000-0000-000000000000> ???
External Modification Summary: Calls made by other processes targeting this process: task_for_pid: 0 thread_create: 0 thread_set_state: 0 Calls made by this process: task_for_pid: 0 thread_create: 0 thread_set_state: 0 Calls made by all processes on this machine: task_for_pid: 0 thread_create: 0 thread_set_state: 0
VM Region Summary: ReadOnly portion of Libraries: Total=964.1M resident=0K(0%) swapped_out_or_unallocated=964.1M(100%) Writable regions: Total=1.2G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.2G(100%)
VIRTUAL REGION REGION TYPE SIZE COUNT (non-coalesced) =========== ======= ======= Accelerate framework 256K 2 Activity Tracing 256K 1 CG backing stores 5056K 8 ColorSync 228K 25 CoreGraphics 8K 2 CoreUI image data 152K 1 Foundation 16K 1 Kernel Alloc Once 8K 1 MALLOC 216.2M 34 MALLOC guard page 192K 9 MALLOC_MEDIUM (reserved) 240.0M 2 reserved VM address space (unallocated) MALLOC_NANO (reserved) 384.0M 1 reserved VM address space (unallocated) Rosetta Arena 4096K 2 Rosetta Generic 736K 181 Rosetta IndirectBranch 512K 1 Rosetta JIT 128.0M 1 Rosetta Return Stack 100K 10 Rosetta Thread Context 100K 10 STACK GUARD 20K 5 Stack 11.1M 7 Stack Guard 56.0M 2 VM_ALLOCATE 8280K 29 VM_ALLOCATE (reserved) 4K 1 reserved VM address space (unallocated) __DATA 262.5M 320 __DATA_CONST 12.2M 173 __DATA_DIRTY 539K 99 __FONT_DATA 4K 1 __LINKEDIT 704.8M 29 __OBJC_RO 81.8M 1 __OBJC_RW 3136K 2 __TEXT 259.3M 332 __UNICODE 588K 1 dyld private memory 1024K 1 mapped file 5.1G 429 shared memory 848K 22 unshared pmap 5504K 3 =========== ======= ======= TOTAL 7.4G 1749 TOTAL, minus reserved VM space 6.8G 1749
----------- Full Report -----------
{"app_name":"freeview","timestamp":"2022-03-01 15:12:52.00 -0800","app_version":"","slice_uuid":"35cc1656-e7ff-32a5-8ec9-9faf896f9915","build_version":"","platform":1,"bundleID":"com.freesurfer.freeview","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 12.2.1 (21D62)","incident_id":"78ED639A-5BDF-48BF-88B6-8A9AE3997115","name":"freeview"} { "uptime" : 1200, "procLaunch" : "2022-03-01 15:12:51.6463 -0800", "procRole" : "Background", "version" : 2, "userID" : 502, "deployVersion" : 210, "modelCode" : "MacBookPro17,1", "procStartAbsTime" : 30601251608, "coalitionID" : 1327, "osVersion" : { "train" : "macOS 12.2.1", "build" : "21D62", "releaseType" : "User" }, "captureTime" : "2022-03-01 15:12:51.8713 -0800", "incident" : "78ED639A-5BDF-48BF-88B6-8A9AE3997115", "bug_type" : "309", "pid" : 1673, "procExitAbsTime" : 30606634548, "translated" : true, "cpuType" : "X86-64", "procName" : "freeview", "procPath" : "/Applications/freesurfer/*/Freeview.app/Contents/MacOS/freeview", "bundleInfo" : {"CFBundleIdentifier":"com.freesurfer.freeview"}, "storeInfo" : {"deviceIdentifierForVendor":"61B48C8D-0860-568E-953B-3DE776CD3C66","thirdParty":true}, "parentProc" : "Exited process", "parentPid" : 1672, "coalitionName" : "com.apple.Terminal", "crashReporterKey" : "DCA45306-7159-2569-6BDE-CF94BEE1E522", "responsiblePid" : 1587, "responsibleProc" : "Terminal", "sip" : "enabled", "vmRegionInfo" : "0x545845545f67 is not in any region. 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