External Email - Use Caution Dear Eugenio
I have 8GB 2400 MHz DDR4. I am not sure this might be a problem cause now I run only freesurfer to segment hippocampal subfields and nuclei of amygdala with mac. I already updated the freesurfer to the latest version and installed matlab runtime(2014b) properly and I cannot figure it out which is the problem. Do I need to update software of the macOS? Thank you for your help. Jinyoung 2018년 10월 30일 (화) 오후 4:41, Iglesias Gonzalez, Eugenio <e.igles...@ucl.ac.uk>님이 작성: > External Email - Use Caution > > Dear J > How much RAM memory do you have? > Andrew: do you think this might be the problem? > Cheers > E > > > Sent from my phone, please excuse brevity and typos > > ------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of 오진영 < > jinyoung.oh...@gmail.com> > *Sent:* Tuesday, October 30, 2018 5:51:22 AM > *To:* Freesurfer support list > *Subject:* [Freesurfer] error in hippocampal subfields and nuclei of > amygdala segmentation > > > External Email - Use Caution > > Dear freesurfer experts, > > I'm trying to run segmentation of hippocampal subfields and nuclei of > amygdala with segmentHA_T1.sh command. > I already run segmentation of hippocampal subfields and nuclei of amygdala > several times, however, after segment nuclei of amygdala in left hemisphere > and before segment nuclei of amygdala in right hemisphere, there appears > same error "MATLAB is exiting because of fatal error" and hippocampal > subfields segmentation stops. > Ignoring and Trying the same command few more times, I can make it to > segment subfields of amygdala, but I am still wondering if I can run > segmentHA_T1.sh without any error. > > Following is the repeated error with the few lines: > > #-------------------------------------------- > > #@# Hippocampal Subfields processing (T1) right 2018년 10월 30일 화요일 14시 07분 > 17초 KST > > ------------------------------------------ > > Setting up environment variables > > --- > > DYLD_LIBRARY_PATH is > .:/Applications/freesurfer/MCRv84//runtime/maci64:/Applications/freesurfer/MCRv84//bin/maci64:/Applications/freesurfer/MCRv84//sys/os/maci64:/Applications/freesurfer/lib/gcc/lib: > > PostVMInit failed to initialize com.mathworks.mwswing.MJStartupForDesktop > > > ------------------------------------------------------------------------ > > Segmentation violation detected at Tue Oct 30 14:07:20 2018 > > ------------------------------------------------------------------------ > > > Configuration: > > Crash Decoding : Disabled > > Current Visual : Quartz > > Default Encoding : US-ASCII > > MATLAB Architecture: maci64 > > MATLAB Root : /Applications/freesurfer/MCRv84 > > MATLAB Version : 8.4.0.150421 (R2014b) > > Operating System : Darwin 17.7.0 Darwin Kernel Version 17.7.0: Thu > Jun 21 22:53:14 PDT 2018; root:xnu-4570.71.2~1/RELEASE_X86_64 x86_64 > > Processor ID : x86 Family 6 Model 158 Stepping 9, GenuineIntel > > Software OpenGL : 0 > > Virtual Machine : Java 1.7.0_55-b13 with Oracle Corporation Java > HotSpot(TM) 64-Bit Server VM mixed mode > > Window System : Quartz > > > Fault Count: 2 > > > > Abnormal termination: > > Segmentation violation > > > Register State (from fault): > > RAX = 00007fafcba4f000 RBX = 00007fafcba4f000 > > RCX = 000070000cdf72d0 RDX = 0000000111cba97e > > RSP = 00007fafcba4f000 RBP = 00009b630cdf72d0 > > RSI = 00007fafcdb8a9b0 RDI = 0000000000000000 > > > R8 = 00007fafcc2dc270 R9 = 00007fafcba4f000 > > R10 = 000000011bd1f76a R11 = 0000000000000000 > > R12 = 000070000cdf7330 R13 = 0000000111b083c7 > > R14 = 000070000cdf73a0 R15 = 000000011bd1f777 > > > RIP = 0000000116ca6f40 RFL = 00007fafcc2dc270 > > > CS = 00009b6300305bc3 FS = 000000011bd1f76a GS = 00007fafcba4f1e8 > > > Stack Trace (from fault): > > [ 0] 0x0000000105f76e64 > /Applications/freesurfer/MCRv84//bin/maci64/libmwfl.dylib+00028260 > _ZN2fl4diag15stacktrace_base7captureERKNS0_14thread_contextEm+00000052 > > [ 1] 0x0000000105f7aa2a > /Applications/freesurfer/MCRv84//bin/maci64/libmwfl.dylib+00043562 > _ZN2fl4test17terminate_handledEv+00000906 > > [ 2] 0x0000000105f7a477 > /Applications/freesurfer/MCRv84//bin/maci64/libmwfl.dylib+00042103 > _ZN2fl4diag13terminate_logEPKcPK17__darwin_ucontext+00000119 > > [ 3] 0x000000010d041b7a > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00387962 > _Z32mnRunPathDependentInitializationv+00003146 > > [ 4] 0x000000010d041e58 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00388696 > _Z32mnRunPathDependentInitializationv+00003880 > > [ 5] 0x000000010d03f733 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00378675 > mnFatalSignalHandler+00000275 > > [ 6] 0x00007fff74b75f5a > /usr/lib/system/libsystem_platform.dylib+00008026 > _sigtramp+00000026 > > [ 7] 0x0000000111b096f8 > /Applications/freesurfer/MCRv84/sys/java/jre/maci64/jre//lib/server/libjvm.dylib+03192568 > _ZN23JNI_ArgumentPusherVaArg7iterateEy+00000000 > > [ 8] 0x0000000111af9d67 > /Applications/freesurfer/MCRv84/sys/java/jre/maci64/jre//lib/server/libjvm.dylib+03128679 > jni_GetMethodID+00000126 > > [ 9] 0x00000001104dd271 > /Applications/freesurfer/MCRv84//bin/maci64/libmwjmi.dylib+00160369 > _Z12mljGetMethodP7_jclassPKcS2_+00000049 > > [ 10] 0x000000011b57a366 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00598886 > _ZN2ui14JavaScreenData20getPrimaryScreenRectEv+00000150 > > [ 11] 0x000000011b57fef4 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00622324 > _ZN10ScreenImpl13getScreenSizeEv+00000036 > > [ 12] 0x000000011b57e2e2 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00615138 > _ZNK2ui24RootScreenAndPointerImpl13getScreenSizeEv+00000018 > > [ 13] 0x000000011b582f58 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00634712 > _ZN2ui4Root17getScreenSizeImplEPN4mcos11COSPropInfoEPNS1_9COSClientEPNS1_12COSInterfaceE+00000040 > > [ 14] 0x000000011b9b9d13 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+05053715 > _ZN7hgutils6StubPIIN2ui4RootENS_15PropertyStorageIN8graphics8datatype8PositionENS_6NoModeENS_21NoSerializableStorageEEEE8getValueEPN4mcos12COSInterfaceE+00000099 > > [ 15] 0x000000010e0e7a6e > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00371310 > _ZN4mcos13COSInterfaceI18igetDirectInternalEPNS_12COSInterfaceE+00000110 > > [ 16] 0x000000010e0ddc80 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00330880 > _ZN4mcos13COSInterfaceI10igetDirectEPKNS_9COSClientEPNS_12COSInterfaceE+00000128 > > [ 17] 0x000000010e14d12b > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00786731 > _ZN4mcos28getValueOfKnownClassPropertyEP11mxArray_tagmPKS0_NS_15COSInterfacePtrEPKNS_9COSClientE+00000411 > > [ 18] 0x000000010e14e070 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00790640 > _ZN4mcos16getPropertyValueEPKNS_9COSClientEPNS_8COSClassEPK11mxArray_tagPKcmPS5_+00000416 > > [ 19] 0x000000010e14e483 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00791683 > _ZNK4mcos5GetMI6invokeEPKNS_9COSClientERiPNS_8COSValueEiPKS5_+00000355 > > [ 20] 0x000000010e1361f2 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00692722 > _ZN24OpaqueMethodCallMetaData11callCMethodEPN4mcos13COSMethodInfoEPP11mxArray_tagPKNS0_9COSClientE+00000466 > > [ 21] 0x000000010e138f4e > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00704334 > _ZN24OpaqueMethodCallMetaData23callMethodOrConstructorEP11mxArray_tagbiPS1_iPPKS0_bPKN4mcos9COSClientEPS9_PPNS6_13COSMethodInfoE+00000494 > > [ 22] 0x000000010e136b3e > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00695102 > _Z18mcosCallMethodImplN4mcos9COSNameIDES0_PKNS_9COSClientEiPP11mxArray_tagiPPKS4_bb+00000286 > > [ 23] 0x000000010e137a82 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00699010 > _Z12omCallMethodN4mcos9COSNameIDES0_PKNS_9COSClientEiPP11mxArray_tagiPPKS4_b+00000114 > > [ 24] 0x000000011cd286c2 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhgutils.dylib+00440002 > _ZN7hgutils17MCOSMethodInvoker6invokeEPKN4mcos9COSClientERiPNS1_8COSValueEiPKS6_+00000866 > > [ 25] 0x000000011cd28220 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhgutils.dylib+00438816 > _ZN7hgutils14callMCOSMethodERKN4mcos9COSNameIDERKNS0_12MemberAccessEPNS0_8COSClassEPKNS0_9COSClientERiPNS0_8COSValueEiPKSD_+00000112 > > [ 26] 0x000000011cd281a7 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhgutils.dylib+00438695 > _ZN7hgutils14callMCOSMethodERKN4mcos9COSNameIDEPNS0_8COSClassEPKNS0_9COSClientERiPNS0_8COSValueEiPKSA_+00000055 > > [ 27] 0x000000011cd0e292 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhgutils.dylib+00332434 > _ZThn8_NK7hgutils22HGPropHandlerClassInfo16areChildrenSavedEv+00029170 > > [ 28] 0x000000010e1361f2 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00692722 > _ZN24OpaqueMethodCallMetaData11callCMethodEPN4mcos13COSMethodInfoEPP11mxArray_tagPKNS0_9COSClientE+00000466 > > [ 29] 0x000000010e138f4e > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00704334 > _ZN24OpaqueMethodCallMetaData23callMethodOrConstructorEP11mxArray_tagbiPS1_iPPKS0_bPKN4mcos9COSClientEPS9_PPNS6_13COSMethodInfoE+00000494 > > [ 30] 0x000000010e137d41 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00699713 > _Z22omCallMethodWithClientP11mxArray_tagbS0_iPS0_iPPKS_PKN4mcos9COSClientEPS8_PPNS5_13COSMethodInfoE+00000417 > > [ 31] 0x000000010e1c3930 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+01272112 > _Z18omCallOpaqueMethodP11mxArray_tagS0_iPS0_iPPKS_+00000112 > > [ 32] 0x000000011adc9353 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhgbuiltins.dylib+00193363 > hgGetWrapper+00000435 > > [ 33] 0x000000010df6ecc6 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_dispatcher.dylib+00117958 > _ZN11Mfh_builtin11dispatch_mfEiPP11mxArray_tagiS2_+00000086 > > [ 34] 0x000000010df5712d > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_dispatcher.dylib+00020781 > _ZN13Mfh_MATLAB_fn11dispatch_fhEiPP11mxArray_tagiS2_+00000333 > > [ 35] 0x000000010d314d62 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01523042 > _Z19inDispatchFromStackiPKcii+00001650 > > [ 36] 0x000000010d2b6dd8 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01138136 > inPcodeWalker+00022552 > > [ 37] 0x000000010d2b3917 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01124631 > inPcodeWalker+00009047 > > [ 38] 0x000000010d2aefb7 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01105847 > inInterPcode+00000935 > > [ 39] 0x000000010d2b01c6 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01110470 > _Z26inExecuteMFunctionOrScriptP6Mfh_mpb+00000886 > > [ 40] 0x000000010d3521f1 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01774065 > _Z10inRunMfileiPP11mxArray_tagiS1_P6Mfh_mpP15inWorkSpace_tag+00002337 > > [ 41] 0x000000010dfb3c28 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_dispatcher.dylib+00400424 > _ZN8Mfh_file11dispatch_fhEiPP11mxArray_tagiS2_+00000600 > > [ 42] 0x000000010e197e8e > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+01093262 > _ZNK4mcos17MScopedMethodInfo6invokeEPKNS_9COSClientERiPNS_8COSValueEiPKS5_+00000606 > > [ 43] 0x000000010e135597 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00689559 > _ZN24OpaqueMethodCallMetaData11callMMethodEPN4mcos13COSMethodInfoEPP11mxArray_tagPKNS0_9COSClientE+00000359 > > [ 44] 0x000000010e138e63 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00704099 > _ZN24OpaqueMethodCallMetaData23callMethodOrConstructorEP11mxArray_tagbiPS1_iPPKS0_bPKN4mcos9COSClientEPS9_PPNS6_13COSMethodInfoE+00000259 > > [ 45] 0x000000010e137d41 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+00699713 > _Z22omCallMethodWithClientP11mxArray_tagbS0_iPS0_iPPKS_PKN4mcos9COSClientEPS8_PPNS5_13COSMethodInfoE+00000417 > > [ 46] 0x000000010e1c3ee8 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+01273576 > _Z18omCallStaticMethodP11mxArray_tagiPS0_iPPKS_+00000088 > > [ 47] 0x000000010e24ce64 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+01834596 > _ZN17Mfh_opaque_static11dispatch_mfEiPP11mxArray_tagiS2_+00000116 > > [ 48] 0x000000010df5712d > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_dispatcher.dylib+00020781 > _ZN13Mfh_MATLAB_fn11dispatch_fhEiPP11mxArray_tagiS2_+00000333 > > [ 49] 0x000000010e249acc > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcos.dylib+01821388 > _ZN10Mfh_opaque11dispatch_fhEiPP11mxArray_tagiS2_+00000028 > > [ 50] 0x000000010d314d62 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01523042 > _Z19inDispatchFromStackiPKcii+00001650 > > [ 51] 0x000000010d26a59e > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+00824734 > inCallFcnFromReference+00000110 > > [ 52] 0x000000010d2b3003 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01122307 > inPcodeWalker+00006723 > > [ 53] 0x000000010d2aefb7 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01105847 > inInterPcode+00000935 > > [ 54] 0x000000010d2b01c6 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01110470 > _Z26inExecuteMFunctionOrScriptP6Mfh_mpb+00000886 > > [ 55] 0x000000010d3521f1 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01774065 > _Z10inRunMfileiPP11mxArray_tagiS1_P6Mfh_mpP15inWorkSpace_tag+00002337 > > [ 56] 0x000000010dfb3c55 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_dispatcher.dylib+00400469 > _ZN8Mfh_file11dispatch_fhEiPP11mxArray_tagiS2_+00000645 > > [ 57] 0x000000010d314d62 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01523042 > _Z19inDispatchFromStackiPKcii+00001650 > > [ 58] 0x000000010d2b6dd8 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01138136 > inPcodeWalker+00022552 > > [ 59] 0x000000010d2b3702 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01124098 > inPcodeWalker+00008514 > > [ 60] 0x000000010d2aefb7 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01105847 > inInterPcode+00000935 > > [ 61] 0x000000010d2aecad > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01105069 > inInterPcode+00000157 > > [ 62] 0x000000010d2a5b9f > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01067935 > _ZN12InterpBridge33DoMatlabFcnCallInDesiredWorkspaceEiPP11mxArray_tagiPPKS0_P13Mfh_MATLAB_fnP15inWorkSpace_tag+00004015 > > [ 63] 0x000000010d2a7a79 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01075833 > _Z25in_local_call_with_setjmpIN5boost3_bi6bind_tIvPFvPiP12_pcodeheaderS3_PP11mxArray_tag12inDebugCheckENS1_5list5INS1_5valueIS3_EENSD_IS5_EENS0_3argILi1EEENSG_ILi2EEENSD_IS9_EEEEEEEN6mlutil14cmddistributor17inExecutionStatusET_S3_S8_b+00000073 > > [ 64] 0x000000010d2a328d > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01057421 > _Z12inEvalStringP15_memory_contextRKSbItSt11char_traitsItESaItEE8EvalTypeiPP11mxArray_tag12inDebugCheckP12_pcodeheaderPib+00002877 > > [ 65] 0x000000010d2a37cd > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01058765 > _ZN12InterpBridge22EvalCmdWithLocalReturnERKSbItSt11char_traitsItESaItEEPibb+00000141 > > [ 66] 0x000000010d2a3c05 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+01059845 > _ZN12InterpBridge7EvalCmdERKSbItSt11char_traitsItESaItEEb+00000021 > > [ 67] 0x000000010d201347 > /Applications/freesurfer/MCRv84//bin/maci64/libmwm_interpreter.dylib+00394055 > inEvalCmd+00000119 > > [ 68] 0x000000010d0197fa > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00223226 > _Z16mnRunLoginScriptv+00000586 > > [ 69] 0x000000010d040f63 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00384867 > _Z32mnRunPathDependentInitializationv+00000051 > > [ 70] 0x000000010d02780c > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00280588 > _ZN11mcrInstance26init_on_interpreter_threadEP11MfileReaderP13MexFileReader+00000988 > > [ 71] 0x000000010d035fb8 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00339896 > _ZN5boost6detail8function21function_obj_invoker0INS_3_bi6bind_tIbNS_4_mfi3mf2Ib11mcrInstanceP11MfileReaderP13MexFileReaderEENS3_5list3INS3_5valueIPS7_EENSE_IS9_EENSE_ISB_EEEEEEbE6invokeERNS1_15function_bufferE+00000040 > > [ 72] 0x000000010d034dc1 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00335297 > _ZN3mcr7runtime17InterpreterThread4Impl22TypedInvocationRequestIbE29doNotRethrowMxArrayExceptionsERKN5boost8functionIFbvEEE+00000033 > > [ 73] 0x000000010d035bd9 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00338905 > _ZN5boost6detail11task_objectIbNS_3_bi6bind_tIbPFbRKNS_8functionIFbvEEEENS2_5list1INS2_5valueIS6_EEEEEEE6do_runEv+00000025 > > [ 74] 0x000000010d035276 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00336502 > _ZN5boost6detail9task_baseIbE3runEv+00000166 > > [ 75] 0x000000010d035067 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00335975 > _ZN3mcr7runtime17InterpreterThread4Impl22TypedInvocationRequestIbE3runEv+00000023 > > [ 76] 0x000000010cffff90 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00118672 > _ZN3mcr7runtime17InterpreterThread4Impl26invocation_request_handlerEl+00000032 > > [ 77] 0x00000001053fd005 > /Applications/freesurfer/MCRv84//bin/maci64/libmwservices.dylib+00196613 > _ZN10eventqueue18UserEventQueueImpl5flushEv+00001205 > > [ 78] 0x000000010e7e9a65 > /Applications/freesurfer/MCRv84//bin/maci64/libmwuix.dylib+00043621 > _Z25isHandleUserEventCallbackPFvPvE+00000501 > > [ 79] 0x00000001054cca45 > /Applications/freesurfer/MCRv84//bin/maci64/libmwservices.dylib+01047109 > _Z21svWS_ProcessCallbacksv+00016693 > > [ 80] 0x00000001054c8152 > /Applications/freesurfer/MCRv84//bin/maci64/libmwservices.dylib+01028434 > _Z25svWS_ProcessPendingEventsiib+00000834 > > [ 81] 0x00000001054c7e5e > /Applications/freesurfer/MCRv84//bin/maci64/libmwservices.dylib+01027678 > _Z25svWS_ProcessPendingEventsiib+00000078 > > [ 82] 0x000000010d00018f > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00119183 > _ZN3mcr7runtime17InterpreterThread4Impl14process_eventsERKN5boost10shared_ptrIS2_EE+00000095 > > [ 83] 0x000000010d00049f > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00119967 > _ZN3mcr7runtime17InterpreterThread4Impl3runERKN5boost10shared_ptrIS2_EEPNS2_12init_contextE+00000335 > > [ 84] 0x000000010cfe6d1b > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00015643 > _Z26run_init_and_handle_eventsPv+00000059 > > [ 85] 0x00007fff74b7f661 > /usr/lib/system/libsystem_pthread.dylib+00013921 > _pthread_body+00000340 > > [ 86] 0x00007fff74b7f50d > /usr/lib/system/libsystem_pthread.dylib+00013581 > _pthread_body+00000000 > > [ 87] 0x00007fff74b7ebf9 > /usr/lib/system/libsystem_pthread.dylib+00011257 > thread_start+00000013 > > > > Abnormal termination: > > Segmentation violation > > > Register State (from fault): > > RAX = 00007fafcba4f000 RBX = 00007fafcba4f000 > > RCX = 000070000cdff9e0 RDX = 0000000111cba97e > > RSP = 00007fafcba4f000 RBP = 00009b630cdff9e0 > > RSI = 00007fafcdb8a9b0 RDI = 0000000000000000 > > > R8 = 00007fafcc2dc270 R9 = 00007fafcba4f000 > > R10 = 000000011bd1f76a R11 = 0000000000000000 > > R12 = 000070000cdffa40 R13 = 0000000111b083c7 > > R14 = 000070000cdffab0 R15 = 000000011bd1f777 > > > RIP = 0000000116ca6f40 RFL = 00007fafcc2dc270 > > > CS = 00009b6300305bc3 FS = 000000011bd1f76a GS = 00007fafcba4f1e8 > > > Stack Trace (from fault): > > [ 0] 0x0000000105f76e64 > /Applications/freesurfer/MCRv84//bin/maci64/libmwfl.dylib+00028260 > _ZN2fl4diag15stacktrace_base7captureERKNS0_14thread_contextEm+00000052 > > [ 1] 0x0000000105f7aa2a > /Applications/freesurfer/MCRv84//bin/maci64/libmwfl.dylib+00043562 > _ZN2fl4test17terminate_handledEv+00000906 > > [ 2] 0x0000000105f7a477 > /Applications/freesurfer/MCRv84//bin/maci64/libmwfl.dylib+00042103 > _ZN2fl4diag13terminate_logEPKcPK17__darwin_ucontext+00000119 > > [ 3] 0x000000010d041b7a > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00387962 > _Z32mnRunPathDependentInitializationv+00003146 > > [ 4] 0x000000010d041e58 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00388696 > _Z32mnRunPathDependentInitializationv+00003880 > > [ 5] 0x000000010d03f733 > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00378675 > mnFatalSignalHandler+00000275 > > [ 6] 0x00007fff74b75f5a > /usr/lib/system/libsystem_platform.dylib+00008026 > _sigtramp+00000026 > > [ 7] 0x0000000111b096f8 > /Applications/freesurfer/MCRv84/sys/java/jre/maci64/jre//lib/server/libjvm.dylib+03192568 > _ZN23JNI_ArgumentPusherVaArg7iterateEy+00000000 > > [ 8] 0x0000000111af9d67 > /Applications/freesurfer/MCRv84/sys/java/jre/maci64/jre//lib/server/libjvm.dylib+03128679 > jni_GetMethodID+00000126 > > [ 9] 0x00000001104dd271 > /Applications/freesurfer/MCRv84//bin/maci64/libmwjmi.dylib+00160369 > _Z12mljGetMethodP7_jclassPKcS2_+00000049 > > [ 10] 0x000000011b57a366 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00598886 > _ZN2ui14JavaScreenData20getPrimaryScreenRectEv+00000150 > > [ 11] 0x000000011b57f23a > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00619066 > _ZN10gbtobjects10ScreenData14getScreenWidthEv+00000010 > > [ 12] 0x000000011b5961a6 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00713126 > _ZN2ui9container9Container16getChildRefFrameEv+00000038 > > [ 13] 0x000000011b59655e > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00714078 > _ZN2ui9container9Container20fillInUpdateViewInfoERN7hgutils14UpdateViewInfoE+00000046 > > [ 14] 0x000000011b5834d6 > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00636118 > _ZN2ui4Root20fillInUpdateViewInfoERN7hgutils14UpdateViewInfoE+00000022 > > [ 15] 0x000000011b57e79a > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+00616346 > _ZN10gbtobjects13UpdateVisitor5applyERN2ui4RootE+00000218 > > [ 16] 0x000000011b693f9a > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+01752986 > _ZN10gbtobjects20CommitUpdatesManager13performUpdateEv+00000122 > > [ 17] 0x000000011b69407b > /Applications/freesurfer/MCRv84//bin/maci64/libmwhg.dylib+01753211 > _ZN10gbtobjects20CommitUpdatesManager24commitAllDatabaseUpdatesEbb+00000027 > > [ 18] 0x00000001054df7c8 > /Applications/freesurfer/MCRv84//bin/maci64/libmwservices.dylib+01124296 > _Z26svWS_CommitDatabaseUpdates27svCommitDatabaseUpdatesType+00000152 > > [ 19] 0x00000001054c7e2f > /Applications/freesurfer/MCRv84//bin/maci64/libmwservices.dylib+01027631 > _Z25svWS_ProcessPendingEventsiib+00000031 > > [ 20] 0x000000010d00018f > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00119183 > _ZN3mcr7runtime17InterpreterThread4Impl14process_eventsERKN5boost10shared_ptrIS2_EE+00000095 > > [ 21] 0x000000010d00049f > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00119967 > _ZN3mcr7runtime17InterpreterThread4Impl3runERKN5boost10shared_ptrIS2_EEPNS2_12init_contextE+00000335 > > [ 22] 0x000000010cfe6d1b > /Applications/freesurfer/MCRv84//bin/maci64/libmwmcr.dylib+00015643 > _Z26run_init_and_handle_eventsPv+00000059 > > [ 23] 0x00007fff74b7f661 > /usr/lib/system/libsystem_pthread.dylib+00013921 > _pthread_body+00000340 > > [ 24] 0x00007fff74b7f50d > /usr/lib/system/libsystem_pthread.dylib+00013581 > _pthread_body+00000000 > > [ 25] 0x00007fff74b7ebf9 > /usr/lib/system/libsystem_pthread.dylib+00011257 > thread_start+00000013 > > > > If this problem is reproducible, please submit a Service Request via: > > http://www.mathworks.com/support/contact_us/ > > > A technical support engineer might contact you with further information. > > > Thank you for your help.** This crash report has been saved to disk as > /Users/mnd_mac/matlab_crash_dump.49812-2 ** > > > > > MATLAB is exiting because of fatal error > > /Applications/freesurfer/bin/run_segmentSubjectT1_autoEstimateAlveusML.sh: > line 37: 49812 Killed: 9 > "${exe_dir}"/segmentSubjectT1_autoEstimateAlveusML.app/Contents/MacOS/segmentSubjectT1_autoEstimateAlveusML > $args > Darwin MnD-macui-iMac.local 17.7.0 Darwin Kernel Version 17.7.0: Thu Jun > 21 22:53:14 PDT 2018; root:xnu-4570.71.2~1/RELEASE_X86_64 x86_64 > > Do I need to request to mathworks? > If you have any recommendation, please send me mail back. > > Thanks a lot! > and I hope you to have a good day! > > Jinyoung > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
