External Email - Use Caution
Your crash report listed an Intel Mac running BigSur 11.4. The screenshot below shows running the freesurfer 7.2.0 release installed on an Intel Mac running BigSur 11.4 (after installing the pkg file from https://secure-web.cisco.com/1w0xxEMjJUzMzaNI7qL3KE_kI0NAwbdBtOtoYDxzwRigNsm...). In the terminal window you will see FS_LICENSE was manually set in the environment to point to the license.txt file. But the environment variable QT_MAC_WANTS_LAYER is not in the environment at all. After opening an empty freeview window, the volume /Applications/freesurfer/7.2.0/subjects/bert/mri/brain.mgz was loaded. Please give that a try on your machine. - R.
External Email - Use Caution
Hi,
I reinstalled FreeSurfer and now the latest version i.e., 7.2.0, but somehow I am still getting the same error message, please see below. I am still unsure how can I fix this issue?
Last login: Wed Jul 21 12:43:52 on ttys003
-------- freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b --------
Setting up environment for FreeSurfer/FS-FAST (and FSL)
FREESURFER_HOME /Applications/freesurfer/7.2.0
FSFAST_HOME /Applications/freesurfer/7.2.0/fsfast
FSF_OUTPUT_FORMAT nii.gz
SUBJECTS_DIR /Applications/freesurfer/7.2.0/subjects
MNI_DIR /Applications/freesurfer/7.2.0/mni
FSL_DIR /usr/local/fsl
The default interactive shell is now zsh.
To update your account to use zsh, please run `chsh -s /bin/zsh`.
For more details, please visit https://secure-web.cisco.com/1NayViq948wI2yc5kOEBSjlYK5Yuaj55DlGmUeAwVLjh0SO....
BT136080:~ bajsah$ export FS_LICENSE=/Applications/freesurfer/7.2.0/license.txt
BT136080:~ bajsah$ ls -l $FS_LICENSE
-rw-r--r--@ 1 bajsah FFBHNTS\Domain Users 58 Jul 21 12:34 /Applications/freesurfer/7.2.0/license.txt
BT136080:~ bajsah$ which freeview
/Applications/freesurfer/7.2.0/bin/freeview
BT136080:~ bajsah$ freeview
/Applications/freesurfer/7.2.0/bin/freeview: line 2: 19977 Segmentation fault: 11 $FREESURFER_HOME/Freeview.app/Contents/MacOS/freeview "$@"
BT136080:~ bajsah$
On Tue, Jul 20, 2021 at 6:01 AM fsbuild fsbuild@contbay.com wrote:
Your crash report listed an Intel Mac running BigSur 11.4. The screenshot below shows running the freesurfer 7.2.0 release installed on an Intel Mac running BigSur 11.4 (after installing the pkg file from https://secure-web.cisco.com/1uAAvCdKWzVjf3-skvFQVJnuofl7-ctvviv3iwprsfxL19Y...).
In the terminal window you will see FS_LICENSE was manually set in the environment to point to the license.txt file. But the environment variable QT_MAC_WANTS_LAYER is not in the environment at all. After opening an empty freeview window, the volume /Applications/freesurfer/7.2.0/subjects/bert/mri/brain.mgz was loaded. Please give that a try on your machine.
- R.
Can you try resetting freeview’s preferences. You can do it in a terminal with the following command:
rm ~/Library/Preferences/edu.harvard.mgh.nmr.FreeView.plist
Wait for a few seconds and try starting freeview again.
Ruopeng
On Jul 21, 2021, at 1:49 PM, Sahil Bajaj <sahil.brain@gmail.commailto:sahil.brain@gmail.com> wrote:
External Email - Use Caution
Hi,
I reinstalled FreeSurfer and now the latest version i.e., 7.2.0, but somehow I am still getting the same error message, please see below. I am still unsure how can I fix this issue?
Last login: Wed Jul 21 12:43:52 on ttys003 -------- freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /Applications/freesurfer/7.2.0 FSFAST_HOME /Applications/freesurfer/7.2.0/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /Applications/freesurfer/7.2.0/subjects MNI_DIR /Applications/freesurfer/7.2.0/mni FSL_DIR /usr/local/fsl
The default interactive shell is now zsh. To update your account to use zsh, please run `chsh -s /bin/zsh`. For more details, please visit MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to behttps://support.apple.com/kb/HT208050https://secure-web.cisco.com/1NayViq948wI2yc5kOEBSjlYK5Yuaj55DlGmUeAwVLjh0SOnYolzcsDDzFjElrcTSCPI-IaIAPpsbwB0s-bYXnq99HUpLfsLvOZE6U7BQs-Kh4MH81jn_4rG_u3nhhMS2CRiNDob1u5QrNOelD1g9JnANo-5sDH57hqOLAR2pWxqfUVVraFB9qJblNa8-8owff42fyWher7Cx8Q8B2GKv3yOqtM2RMI2MGOCzbzRhfrmiTSUBbTmYX4tx33ZuLbR-q1URO--snaUaYixEXh-1zQ/https%3A%2F%2Fsupport.apple.com%2Fkb%2FHT208050. BT136080:~ bajsah$ export FS_LICENSE=/Applications/freesurfer/7.2.0/license.txt BT136080:~ bajsah$ ls -l $FS_LICENSE -rw-r--r--@ 1 bajsah FFBHNTS\Domain Users 58 Jul 21 12:34 /Applications/freesurfer/7.2.0/license.txt BT136080:~ bajsah$ which freeview /Applications/freesurfer/7.2.0/bin/freeview BT136080:~ bajsah$ freeview /Applications/freesurfer/7.2.0/bin/freeview: line 2: 19977 Segmentation fault: 11 $FREESURFER_HOME/Freeview.app/Contents/MacOS/freeview "$@" BT136080:~ bajsah$
On Tue, Jul 20, 2021 at 6:01 AM fsbuild <fsbuild@contbay.commailto:fsbuild@contbay.com> wrote: Your crash report listed an Intel Mac running BigSur 11.4. The screenshot below shows running the freesurfer 7.2.0 release installed on an Intel Mac running BigSur 11.4 (after installing the pkg file from MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to behttps://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.2.0/freesurfer-darw...https://secure-web.cisco.com/1uAAvCdKWzVjf3-skvFQVJnuofl7-ctvviv3iwprsfxL19YZU1CH-LLyuYt-xiKotqw9g5WovPaqeuijYbf46QJLJC0zP6RkHk0Ee06ddctL90CjCxv7ZhO48WfcSaQiFPbFZbG0_6aqUlE3qRwo8K55JIcUDnB4IP3q4suMmKXjdE-vHHxNl7c0Z5aVg4O0krQ2ZWp5RirTOEFV86EFHKXMhSxVfXK2pe2393vbg2NrSSO9jIOOUS0lTianON_UYQtogdCsHFuRQ7Rd_y4-fGg/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2F7.2.0%2Ffreesurfer-darwin-macOS-7.2.0.pkg).
In the terminal window you will see FS_LICENSE was manually set in the environment to point to the license.txt file. But the environment variable QT_MAC_WANTS_LAYER is not in the environment at all. After opening an empty freeview window, the volume /Applications/freesurfer/7.2.0/subjects/bert/mri/brain.mgz was loaded. Please give that a try on your machine.
- R.
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Hi Ruopeng,
I did that and still its not working. Detailed crash report is attached below. Somehow, with previous version, at-least I was able to open FreeeView through the app by double clicking the app in FreeSurfer directory (and not via terminal), but now with 7.2.0, it's neither opening with app nor via terminal. With 7.2.0, it crashes in both cases.
BT136080:~ bajsah$ freeview
/Applications/freesurfer/7.2.0/bin/freeview: line 2: 22677 Segmentation fault: 11 $FREESURFER_HOME/Freeview.app/Contents/MacOS/freeview "$@"
Process: freeview [22677] Path: /Applications/freesurfer/*/Freeview.app/Contents/MacOS/freeview Identifier: com.freesurfer.freeview Version: 0 Code Type: X86-64 (Native) Parent Process: bash [22676] Responsible: Terminal [22571] User ID: 599948053
Date/Time: 2021-07-21 15:25:42.256 -0500 OS Version: macOS 11.4 (20F71) Report Version: 12 Bridge OS Version: 5.4 (18P4663) Anonymous UUID: 9CF8B868-CF42-53B6-2FDA-FEA989CF502C
Time Awake Since Boot: 73000 seconds
System Integrity Protection: enabled
Crashed Thread: 0 Dispatch queue: com.apple.main-thread
Exception Type: EXC_BAD_ACCESS (SIGSEGV) Exception Codes: EXC_I386_GPFLT Exception Note: EXC_CORPSE_NOTIFY
Termination Signal: Segmentation fault: 11 Termination Reason: Namespace SIGNAL, Code 0xb Terminating Process: exc handler [22677]
Application Specific Information: dyld: in dlsym()
Thread 0 Crashed:: Dispatch queue: com.apple.main-thread 0 com.freesurfer.freeview 0x00000001042b5164 0x10424f000 + 418148 1 com.freesurfer.freeview 0x000000010442e004 0x10424f000 + 1961988 2 org.qt-project.QtWidgets 0x0000000114d726ed QWidget::event(QEvent*) + 1117 3 org.qt-project.QtWidgets 0x0000000114e83c45 QMainWindow::event(QEvent*) + 277 4 org.qt-project.QtWidgets 0x0000000114d3670d QApplicationPrivate::notify_helper(QObject*, QEvent*) + 269 5 org.qt-project.QtWidgets 0x0000000114d37b12 QApplication::notify(QObject*, QEvent*) + 594 6 org.qt-project.QtCore 0x0000000115a09564 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212 7 org.qt-project.QtWidgets 0x0000000114d90a74 0x114d26000 + 436852 8 org.qt-project.QtWidgets 0x0000000114d3670d QApplicationPrivate::notify_helper(QObject*, QEvent*) + 269 9 org.qt-project.QtWidgets 0x0000000114d37b12 QApplication::notify(QObject*, QEvent*) + 594 10 org.qt-project.QtCore 0x0000000115a09564 QCoreApplication::notifyInternal2(QObject*, QEvent*) + 212 11 org.qt-project.QtGui 0x0000000115304a74 QGuiApplicationPrivate::processGeometryChangeEvent(QWindowSystemInterfacePrivate::GeometryChangeEvent*) + 516 12 org.qt-project.QtGui 0x0000000115305420 QGuiApplicationPrivate::processWindowScreenChangedEvent(QWindowSystemInterfacePrivate::WindowScreenChangedEvent*) + 736 13 org.qt-project.QtGui 0x00000001152e3c33 bool QWindowSystemInterfacePrivate::handleWindowSystemEventQWindowSystemInterface::SynchronousDelivery(QWindowSystemInterfacePrivate::WindowSystemEvent*) + 115 14 libqcocoa.dylib 0x0000000117da5c77 0x117d87000 + 126071 15 libqcocoa.dylib 0x0000000117d9f862 0x117d87000 + 100450 16 libqcocoa.dylib 0x0000000117d9f2eb 0x117d87000 + 99051 17 org.qt-project.QtGui 0x000000011530e1dc QWindowPrivate::create(bool, unsigned long long) + 140 18 org.qt-project.QtWidgets 0x0000000114d5fe31 QWidgetPrivate::create() + 1201 19 org.qt-project.QtWidgets 0x0000000114d5eb22 QWidget::create(unsigned long long, bool, bool) + 322 20 org.qt-project.QtWidgets 0x0000000114e844d7 QMainWindow::setUnifiedTitleAndToolBarOnMac(bool) + 55 21 com.freesurfer.freeview 0x000000010441c497 0x10424f000 + 1889431 22 com.freesurfer.freeview 0x000000010441650e 0x10424f000 + 1864974 23 com.freesurfer.freeview 0x000000010434f79a 0x10424f000 + 1050522 24 libdyld.dylib 0x00007fff20534f5d start + 1
Thread 1: 0 libsystem_pthread.dylib 0x00007fff20515420 start_wqthread + 0
Thread 2: 0 libsystem_pthread.dylib 0x00007fff20515420 start_wqthread + 0
Thread 3:: Dispatch queue: com.apple.dock.fullscreen 0 dyld 0x000000011c113aff ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 53 1 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 2 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 3 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 4 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 5 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 6 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 7 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 8 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 9 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 10 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 11 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 12 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 13 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 14 dyld 0x000000011c113c6c ImageLoader::findExportedSymbolInDependentImagesExcept(char const*, ImageLoader const**, ImageLoader const**&, ImageLoader const**, ImageLoader const**) const + 418 15 dyld 0x000000011c113d88 ImageLoader::findExportedSymbolInImageOrDependentImages(char const*, ImageLoader::LinkContext const&, ImageLoader const**) const + 88 16 dyld 0x000000011c11101e dlsym_internal + 401 17 libdyld.dylib 0x00007fff20525914 dlsym + 202 18 com.apple.SkyLight 0x00007fff24fef753 __loginframework_vtable_block_invoke + 564 19 libdispatch.dylib 0x00007fff2036f806 _dispatch_client_callout + 8 20 libdispatch.dylib 0x00007fff2037098c _dispatch_once_callout + 20 21 com.apple.SkyLight 0x00007fff24ff100a SLSCopyCurrentSessionPropertiesInternalBridge + 366 22 com.apple.SkyLight 0x00007fff24ea6263 SLSessionCopyCurrentDictionary + 12 23 com.apple.AppKit 0x00007fff22f56629 -[NSDockConnection _makeConnectionIfNeededWithRetryInterval:onDemand:] + 47 24 com.apple.AppKit 0x00007fff2373e5d6 __35-[NSDockConnection startConnection]_block_invoke.37 + 45 25 libdispatch.dylib 0x00007fff2036e623 _dispatch_call_block_and_release + 12 26 libdispatch.dylib 0x00007fff2036f806 _dispatch_client_callout + 8 27 libdispatch.dylib 0x00007fff203755ea _dispatch_lane_serial_drain + 606 28 libdispatch.dylib 0x00007fff203760ad _dispatch_lane_invoke + 366 29 libdispatch.dylib 0x00007fff2037fc0d _dispatch_workloop_worker_thread + 811 30 libsystem_pthread.dylib 0x00007fff2051645d _pthread_wqthread + 314 31 libsystem_pthread.dylib 0x00007fff2051542f start_wqthread + 15
Thread 4: 0 libsystem_pthread.dylib 0x00007fff20515420 start_wqthread + 0
Thread 5: 0 libsystem_pthread.dylib 0x00007fff20515420 start_wqthread + 0
Thread 6: 0 libsystem_pthread.dylib 0x00007fff20515420 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit): rax: 0x9e667f3bcdba483f rbx: 0x00007ffeeb9ae9b0 rcx: 0x00007fff2a637aea rdx: 0x0000000114d726dd rdi: 0x00007fff815e0828 rsi: 0x00007ffeeb9ada28 rbp: 0x00007ffeeb9ad4c0 rsp: 0x00007ffeeb9ad4b0 r8: 0x0000000000000000 r9: 0x0000000000000100 r10: 0x0000000000000002 r11: 0x0000000115a095b0 r12: 0x00007fc89db0ed30 r13: 0x00007ffeeb9ae9b0 r14: 0x00007ffeeb9ada28 r15: 0x00007ffeeb9ada28 rip: 0x00000001042b5164 rfl: 0x0000000000010202 cr2: 0x00000001042b5150
Logical CPU: 6 Error Code: 0x00000000 Trap Number: 13
Thread 0 instruction stream: 01 48 89 df e8 65 9c 3a-01 48 8b 43 08 48 8b 4b .H...e.:.H.C.H.K 28 48 8b 40 10 48 8b 40-28 8b 51 20 f7 d2 03 50 (H.@.H.@(.Q ...P 20 03 51 18 8b 40 14 ff-c0 48 c1 e2 20 48 09 d0 .Q..@...H.. H.. 48 89 45 f0 48 8d 75 f0-48 89 df e8 28 9c 3a 01 H.E.H.u.H...(.:. 48 83 c4 08 5b 5d c3 0f-1f 44 00 00 55 48 89 e5 H...[]...D..UH.. 48 83 ec 10 48 8b 47 08-48 8b 4f 28 48 8b 40 10 H...H.G.H.O(H.@. [48]8b 40 28 44 8b 40 18-8b 70 20 8b 51 20 f7 d2 H.@(D.@..p .Q .. <== 44 29 c6 01 d6 03 71 18-8b 40 14 ff c0 44 01 c6 D)....q..@...D.. 48 c1 e6 20 48 09 f0 48-89 45 f8 48 8d 75 f8 e8 H.. H..H.E.H.u.. d4 9b 3a 01 48 83 c4 10-5d c3 66 90 55 48 89 e5 ..:.H...].f.UH.. 53 50 48 89 fb 48 8b 7f-38 e8 4e 98 3a 01 48 89 SPH..H..8.N.:.H. df e8 ac 9b 3a 01 48 8b-43 30 48 8b 78 18 48 83 ....:.H.C0H.x.H.
Thread 0 last branch register state not available.
Binary Images: 0x10424f000 - 0x1058b6fff +com.freesurfer.freeview (0) <35CC1656-E7FF-32A5-8EC9-9FAF896F9915> /Applications/freesurfer/*/Freeview.app/Contents/MacOS/freeview 0x114d26000 - 0x115164fff +org.qt-project.QtWidgets (5.12 - 5.12.7) <EF671B84-7965-3C74-89DF-09C3FA9096CA> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtWidgets.framework/Versions/5/QtWidgets 0x1152ce000 - 0x11571afff +org.qt-project.QtGui (5.12 - 5.12.7) <9CC34B01-AE4A-3FF2-AC1B-DE08B8FBBBAE> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtGui.framework/Versions/5/QtGui 0x11581f000 - 0x115d54fff +org.qt-project.QtCore (5.12 - 5.12.7) <AE294CA9-B3EC-3F0E-B67A-509A13C0C913> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtCore.framework/Versions/5/QtCore 0x117d87000 - 0x117eedfff +libqcocoa.dylib (0) <14BC2336-68E6-3ACE-B3A9-F21152A64785> /Applications/freesurfer/*/Freeview.app/Contents/PlugIns/platforms/libqcocoa.dylib 0x117f3a000 - 0x117f98fff +org.qt-project.QtDBus (5.12 - 5.12.7) <3D9A10D9-CB4E-3A1B-8664-BD25993D5FF3> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtDBus.framework/Versions/5/QtDBus 0x117fb1000 - 0x117fdafff +org.qt-project.QtPrintSupport (5.12 - 5.12.7) <9AB0608C-8F2E-3FC1-B144-04ECEC6FA634> /Applications/freesurfer/*/Freeview.app/Contents/Frameworks/QtPrintSupport.framework/Versions/5/QtPrintSupport 0x118dc6000 - 0x118dd5fff libobjc-trampolines.dylib (824) <361143B8-E66E-3402-85B5-C20893AAB9C9> /usr/lib/libobjc-trampolines.dylib 0x11b531000 - 0x11b556fff +libqmacstyle.dylib (0) <05CC7ADD-D833-3744-93D6-D859235085A3> /Applications/freesurfer/*/Freeview.app/Contents/PlugIns/styles/libqmacstyle.dylib 0x11b567000 - 0x11b56dfff +libqgif.dylib (0) <B67892CC-B844-3404-B289-B572937D144D> /Applications/freesurfer/*/Freeview.app/Contents/PlugIns/imageformats/libqgif.dylib 0x11b571000 - 0x11b578fff +libqicns.dylib (0) <2904A297-57DA-3089-953A-B4AC2E539486> /Applications/freesurfer/*/Freeview.app/Contents/PlugIns/imageformats/libqicns.dylib 0x11b57d000 - 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0x7fff2e540fff com.apple.Bluetooth (8.0.5 - 8.0.5d7) <7630620F-575C-37A6-ACAA-3B9443127E88> /System/Library/Frameworks/IOBluetooth.framework/Versions/A/IOBluetooth 0x7fff2e55a000 - 0x7fff2e5b3fff com.apple.ProtectedCloudStorage (1.0 - 1) <56DAAA40-66D4-3551-B196-B39604874CAA> /System/Library/PrivateFrameworks/ProtectedCloudStorage.framework/Versions/A/ProtectedCloudStorage 0x7fff2fd13000 - 0x7fff2fd3afff com.apple.RemoteViewServices (2.0 - 163) <2D91746F-1F8B-3D03-BED1-C1BD7FA14453> /System/Library/PrivateFrameworks/RemoteViewServices.framework/Versions/A/RemoteViewServices 0x7fff2fd3b000 - 0x7fff2fd4afff com.apple.SpeechRecognitionCore (6.1.24 - 6.1.24) <4FD3C300-7679-3E30-BC40-5DC933BC287E> /System/Library/PrivateFrameworks/SpeechRecognitionCore.framework/Versions/A/SpeechRecognitionCore 0x7fff2fd4b000 - 0x7fff2fd52fff com.apple.speech.recognition.framework (6.0.3 - 6.0.3) <F2C2E4FC-0EE0-38CC-AC0F-8F412A2859EE> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/SpeechRecognition.framework/Versions/A/SpeechRecognition 0x7fff2ff80000 - 0x7fff2ff80fff libsystem_product_info_filter.dylib (8.40.1) <D5194AB1-61C4-3C8D-9E3C-C65702BAB859> /usr/lib/system/libsystem_product_info_filter.dylib 0x7fff30058000 - 0x7fff30058fff com.apple.Accelerate.vecLib (3.11 - vecLib 3.11) <E0B5CB04-F282-3BF0-8D14-BE6E3ED7C0A2> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/vecLib 0x7fff3007e000 - 0x7fff3007efff com.apple.CoreServices (1122.38 - 1122.38) <FEC6CD87-0909-3554-B8F5-CE65A5BB032C> /System/Library/Frameworks/CoreServices.framework/Versions/A/CoreServices 0x7fff3023a000 - 0x7fff3023afff com.apple.Accelerate (1.11 - Accelerate 1.11) <2BCB5475-FDEF-379A-BB0E-B1A3AA7F5B83> /System/Library/Frameworks/Accelerate.framework/Versions/A/Accelerate 0x7fff3027b000 - 0x7fff30286fff com.apple.MediaAccessibility (1.0 - 130) <F8E31637-2B5F-3D89-94FA-BD4AF8A46BD6> /System/Library/Frameworks/MediaAccessibility.framework/Versions/A/MediaAccessibility 0x7fff30287000 - 0x7fff302a6fff com.apple.networking.AlgosScoreFramework (1.0 - 1) <C14EC551-82CD-3A04-91F3-C35D48B5B583> /System/Library/PrivateFrameworks/AlgosScoreFramework.framework/Versions/A/AlgosScoreFramework 0x7fff30a7c000 - 0x7fff30ae1fff com.apple.CoreBluetooth (1.0 - 1) <AB95AA98-5CDC-3D4D-8478-C6595447837F> /System/Library/Frameworks/CoreBluetooth.framework/Versions/A/CoreBluetooth 0x7fff30ae2000 - 0x7fff30aebfff com.apple.SymptomDiagnosticReporter (1.0 - 79.120.1) <99674A3B-7319-30F1-922E-D665D01794AF> /System/Library/PrivateFrameworks/SymptomDiagnosticReporter.framework/Versions/A/SymptomDiagnosticReporter 0x7fff30aff000 - 0x7fff30b0bfff com.apple.AppleIDAuthSupport (1.0 - 1) <079E30CC-40B7-3363-9A41-F9A0DE9ED742> /System/Library/PrivateFrameworks/AppleIDAuthSupport.framework/Versions/A/AppleIDAuthSupport 0x7fff30b0c000 - 0x7fff30bb4fff com.apple.DiscRecording (9.0.3 - 9030.4.5) <55DD9802-821D-35F6-B21B-C96371FE46B4> /System/Library/Frameworks/DiscRecording.framework/Versions/A/DiscRecording 0x7fff30bb5000 - 0x7fff30be8fff com.apple.MediaKit (16 - 927.40.2) <72F9BA2E-AF51-3E05-8DE4-00377CC79609> /System/Library/PrivateFrameworks/MediaKit.framework/Versions/A/MediaKit 0x7fff30be9000 - 0x7fff30cd4fff com.apple.DiskManagement (14.0 - 1733.100.4) <6EAC9935-9B5A-3758-92D4-9E13CF570D3A> /System/Library/PrivateFrameworks/DiskManagement.framework/Versions/A/DiskManagement 0x7fff30cd5000 - 0x7fff3108ffff com.apple.CoreAUC (326.2.0 - 326.2.0) <A03BBCB7-69FA-3E37-AD91-734771D91045> /System/Library/PrivateFrameworks/CoreAUC.framework/Versions/A/CoreAUC 0x7fff31090000 - 0x7fff31093fff com.apple.Mangrove (1.0 - 25) <06E20B3A-83F6-36A3-96B8-9185D1B0A42D> /System/Library/PrivateFrameworks/Mangrove.framework/Versions/A/Mangrove 0x7fff31094000 - 0x7fff310c1fff com.apple.CoreAVCHD (6.1.0 - 6100.4.1) <B7888146-5DE1-306C-8C9C-E98E763E3A4E> /System/Library/PrivateFrameworks/CoreAVCHD.framework/Versions/A/CoreAVCHD 0x7fff310c2000 - 0x7fff31211fff com.apple.FileProvider (348.8 - 348.8) <34DFD3C5-B489-3A7A-9EC2-3A1E2970F74D> /System/Library/Frameworks/FileProvider.framework/Versions/A/FileProvider 0x7fff31212000 - 0x7fff31234fff com.apple.GenerationalStorage (2.0 - 323) <AF8A2D39-41B5-3229-B780-86622DB977FC> /System/Library/PrivateFrameworks/GenerationalStorage.framework/Versions/A/GenerationalStorage 0x7fff31a7e000 - 0x7fff31abdfff com.apple.AppleVPAFramework (3.26.1 - 3.26.1) <32F14A37-1FAB-3216-B3FD-D1FA9E4790DC> /System/Library/PrivateFrameworks/AppleVPA.framework/Versions/A/AppleVPA 0x7fff31b70000 - 0x7fff31babfff com.apple.DebugSymbols (195.1 - 195.1) <A8313A86-04C7-37DC-A5D7-FF54EE39BC70> /System/Library/PrivateFrameworks/DebugSymbols.framework/Versions/A/DebugSymbols 0x7fff31bac000 - 0x7fff31c61fff com.apple.CoreSymbolication (12.5 - 64544.69.1) <8D4E5AA8-8C09-31A7-AABE-AA9421781821> /System/Library/PrivateFrameworks/CoreSymbolication.framework/Versions/A/CoreSymbolication 0x7fff32b54000 - 0x7fff32bb7fff com.apple.framework.Apple80211 (17.0 - 1728) <6C1C9532-AD79-3E68-BFBB-2279AC8EA776> /System/Library/PrivateFrameworks/Apple80211.framework/Versions/A/Apple80211 0x7fff32bb8000 - 0x7fff32d09fff com.apple.CoreWiFi (3.0 - 341) <E1A3027C-0657-3609-8F5C-D89BF6B4B422> /System/Library/PrivateFrameworks/CoreWiFi.framework/Versions/A/CoreWiFi 0x7fff32fe7000 - 0x7fff32feafff com.apple.help (1.3.8 - 71) <F8B97715-17C5-3789-8B89-5F08EFB70709> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/Help.framework/Versions/A/Help 0x7fff32feb000 - 0x7fff32ff2fff com.apple.EFILogin (2.0 - 2) <32EC4CD5-A6BD-31E9-BE52-BF79845F9EDB> /System/Library/PrivateFrameworks/EFILogin.framework/Versions/A/EFILogin 0x7fff32ff3000 - 0x7fff32ffefff libcsfde.dylib (554) <D4C66851-FDFC-3B94-8B21-DCA76BDFE724> /usr/lib/libcsfde.dylib 0x7fff3323d000 - 0x7fff3323dfff com.apple.ApplicationServices (48 - 50) <374F91E8-9983-363E-B1E1-85CEB46A5D1E> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/ApplicationServices 0x7fff33552000 - 0x7fff33552fff libHeimdalProxy.dylib (79) <68F67BFE-F1E8-341C-A065-08954EF3F684> /System/Library/Frameworks/Kerberos.framework/Versions/A/Libraries/libHeimdalProxy.dylib 0x7fff33605000 - 0x7fff33605fff com.apple.audio.units.AudioUnit (1.14 - 1.14) <CD5DF240-D8F7-3349-88DC-423962E5A289> /System/Library/Frameworks/AudioUnit.framework/Versions/A/AudioUnit 0x7fff33629000 - 0x7fff3366cfff com.apple.StreamingZip (1.0 - 1) <D5CEAC33-8D9C-3D74-9E5D-909F86441F4D> /System/Library/PrivateFrameworks/StreamingZip.framework/Versions/A/StreamingZip 0x7fff345d4000 - 0x7fff34624fff com.apple.ChunkingLibrary (334.1 - 334.1) <27ED7D22-A3D4-3161-A5DF-485711DB2F48> /System/Library/PrivateFrameworks/ChunkingLibrary.framework/Versions/A/ChunkingLibrary 0x7fff35030000 - 0x7fff35033fff com.apple.Cocoa (6.11 - 23) <2686C6E1-1182-34AA-9A3A-F7BC19DED4CB> /System/Library/Frameworks/Cocoa.framework/Versions/A/Cocoa 0x7fff364a1000 - 0x7fff364c4fff com.apple.openscripting (1.7 - 190) <9EAC55CC-0ECC-3B41-BF97-53C32496C689> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/OpenScripting.framework/Versions/A/OpenScripting 0x7fff364c5000 - 0x7fff364c8fff com.apple.securityhi (9.0 - 55008) <56A728F6-162E-31DE-9C29-FB1BE44C6B89> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/SecurityHI.framework/Versions/A/SecurityHI 0x7fff364c9000 - 0x7fff364ccfff com.apple.ink.framework (10.15 - 227) <65FAEF94-F18C-30E0-8129-952DE19A5FAF> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/Ink.framework/Versions/A/Ink 0x7fff364cd000 - 0x7fff364d0fff com.apple.CommonPanels (1.2.6 - 101) <45DFDB05-1408-34B4-A2AD-5416C5176C26> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/CommonPanels.framework/Versions/A/CommonPanels 0x7fff364d1000 - 0x7fff364d8fff com.apple.ImageCapture (1711.5.2 - 1711.5.2) <E3BCD3B4-4792-390D-890B-B7A860088A4C> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/ImageCapture.framework/Versions/A/ImageCapture 0x7fff3ca12000 - 0x7fff3ca15fff com.apple.print.framework.Print (15 - 271) <5A0FE511-37C2-3065-9066-34F8F9EA23E5> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/Print.framework/Versions/A/Print 0x7fff3ca16000 - 0x7fff3ca19fff com.apple.Carbon (160 - 164) <967F26C3-8582-3A33-945F-DDA8F103B2E2> /System/Library/Frameworks/Carbon.framework/Versions/A/Carbon 0x7fff3cccc000 - 0x7fff3ccebfff com.apple.private.SystemPolicy (1.0 - 1) <CAB3E8CD-1F31-343F-ABC1-9448543F211F> /System/Library/PrivateFrameworks/SystemPolicy.framework/Versions/A/SystemPolicy 0x7fff3d626000 - 0x7fff3d638fff libmis.dylib (274.120.2) <1DE29019-5ECB-3BE2-8492-2385ED241950> /usr/lib/libmis.dylib 0x7fff412e8000 - 0x7fff41306fff libCGInterfaces.dylib (544.4) <02C89930-F64D-354E-8C18-F3DDB419DC8D> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vImage.framework/Versions/A/Libraries/libCGInterfaces.dylib 0x7fff43891000 - 0x7fff43b04fff com.apple.RawCamera.bundle (9.10.0 - 1450.3) <408A3DFB-B3D3-3C15-88BB-16076BDFC74B> /System/Library/CoreServices/RawCamera.bundle/Contents/MacOS/RawCamera 0x7fff6bb26000 - 0x7fff6bb2cfff libCoreFSCache.dylib (200.9) <12A2A7E7-39F7-30A5-AC0B-E09947417D3E> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreFSCache.dylib 0x7fff6bb2d000 - 0x7fff6bb31fff libCoreVMClient.dylib (200.9) <F8C4D017-075A-37B2-AE8D-8CEB5FE1BC9B> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreVMClient.dylib 0x7fff6bb32000 - 0x7fff6bb41fff com.apple.opengl (18.5.9 - 18.5.9) <1422D0CA-C3E2-3309-8897-018E651CB74E> /System/Library/Frameworks/OpenGL.framework/Versions/A/OpenGL 0x7fff6bb42000 - 0x7fff6bb44fff libCVMSPluginSupport.dylib (18.5.9) <AC7D4088-7CA8-3A0B-9B55-08427083C382> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCVMSPluginSupport.dylib 0x7fff6bb45000 - 0x7fff6bb4dfff libGFXShared.dylib (18.5.9) <76ABDB4A-3687-39E0-B8FB-125717742431> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGFXShared.dylib 0x7fff6bb4e000 - 0x7fff6bb81fff libGLImage.dylib (18.5.9) <750C938A-9F4F-3BAD-8D3F-03EF619F28AD> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLImage.dylib 0x7fff6bb82000 - 0x7fff6bbbefff libGLU.dylib (18.5.9) <4A77F717-2BBC-3439-AE10-694E82C0A184> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLU.dylib 0x7fff6bd53000 - 0x7fff6bd5dfff libGL.dylib (18.5.9) <95D5C72E-9352-39EC-83B1-6BB295A83462> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib 0x7fff6d19d000 - 0x7fff6d1f5fff com.apple.opencl (4.6 - 4.6) <769BB23D-09E5-3A3A-B2EA-310157AA206D> /System/Library/Frameworks/OpenCL.framework/Versions/A/OpenCL 0x7fff6e29f000 - 0x7fff6e2a6fff com.apple.agl (3.3.4 - AGL-3.3.3) <23E38B10-2F27-3BB2-B78D-C28189C21601> /System/Library/Frameworks/AGL.framework/Versions/A/AGL
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=745.8M resident=0K(0%) swapped_out_or_unallocated=745.8M(100%) Writable regions: Total=1.7G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.7G(100%)
VIRTUAL REGION REGION TYPE SIZE COUNT (non-coalesced) =========== ======= ======= Activity Tracing 256K 1 CG backing stores 11.2M 12 CoreUI image data 152K 1 Dispatch continuations 256.0M 2 Dispatch continuations (reserved) 32.0M 1 reserved VM address space (unallocated) Foundation 16K 1 Kernel Alloc Once 8K 1 MALLOC 178.6M 51 MALLOC guard page 48K 9 MALLOC_MEDIUM (reserved) 960.0M 8 reserved VM address space (unallocated) STACK GUARD 56.0M 7 Stack 11.0M 7 VM_ALLOCATE 56K 14 __DATA 257.4M 323 __DATA_CONST 11.9M 169 __DATA_DIRTY 549K 99 __FONT_DATA 4K 1 __LINKEDIT 503.9M 23 __OBJC_RO 70.2M 1 __OBJC_RW 2480K 3 __TEXT 241.9M 321 __UNICODE 588K 1 mapped file 71.8M 17 shared memory 808K 21 =========== ======= ======= TOTAL 2.6G 1094 TOTAL, minus reserved VM space 1.6G 1094
Model: iMacPro1,1, BootROM 1554.120.19.0.0 (iBridge: 18.16.14663.0.0,0), 18 processors, 18-Core Intel Xeon W, 2.3 GHz, 256 GB, SMC Graphics: kHW_AMDRadeonProVega56Item, Radeon Pro Vega 56, spdisplays_pcie_device, 8 GB Memory Module: NODE 1/CPU1_DIMM_A0, 64 GB, DDR4, 2666 MHz, Micron, 72ASS8G72LZ-2G9D3 Memory Module: NODE 1/CPU1_DIMM_B0, 64 GB, DDR4, 2666 MHz, Micron, 72ASS8G72LZ-2G9D3 Memory Module: NODE 1/CPU1_DIMM_C0, 64 GB, DDR4, 2666 MHz, Micron, 72ASS8G72LZ-2G9D3 Memory Module: NODE 1/CPU1_DIMM_D0, 64 GB, DDR4, 2666 MHz, Micron, 72ASS8G72LZ-2G9D3 AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x7BF), wl0: Feb 16 2021 02:10:42 version 9.30.444.10.32.5.67 FWID 01-a00c1314 Bluetooth: Version 8.0.5d7, 3 services, 27 devices, 1 incoming serial ports Network Service: Wi-Fi, AirPort, en1 PCI Card: pci8086,15f0, sppci_usbxhci, Thunderbolt@185,0,0 USB Device: USB 3.0 Bus USB Device: USB 3.1 Bus USB Device: USB3.1 Hub USB Device: Hub USB Device: LG UltraFine Display Camera USB Device: USB2.1 Hub USB Device: Hub USB Device: LG UltraFine Display Controls USB Device: LG UltraFine Display Audio USB Device: Apple T2 Bus USB Device: Headset USB Device: Ambient Light Sensor USB Device: FaceTime HD Camera (Built-in) USB Device: Apple T2 Controller Thunderbolt Bus: iMac Pro, Apple Inc., 41.5 Thunderbolt Bus: iMac Pro, Apple Inc., 41.5 Thunderbolt Device: UltraFine 5K, LG Electronics, 1, 43.1
On Wed, Jul 21, 2021 at 2:52 PM Wang, Ruopeng RWANG4@mgh.harvard.edu wrote:
Can you try resetting freeview’s preferences. You can do it in a terminal with the following command:
rm ~/Library/Preferences/edu.harvard.mgh.nmr.FreeView.plist
Wait for a few seconds and try starting freeview again.
Ruopeng
On Jul 21, 2021, at 1:49 PM, Sahil Bajaj sahil.brain@gmail.com wrote:
External Email - Use CautionHi,
I reinstalled FreeSurfer and now the latest version i.e., 7.2.0, but somehow I am still getting the same error message, please see below. I am still unsure how can I fix this issue?
Last login: Wed Jul 21 12:43:52 on ttys003 -------- freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /Applications/freesurfer/7.2.0 FSFAST_HOME /Applications/freesurfer/7.2.0/fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /Applications/freesurfer/7.2.0/subjects MNI_DIR /Applications/freesurfer/7.2.0/mni FSL_DIR /usr/local/fsl
The default interactive shell is now zsh. To update your account to use zsh, please run `chsh -s /bin/zsh`. For more details, please visit *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1YOfRbfYm5FLiSemcTiUpokgePMEz80MVsME9W2Q_2Wi_SU... https://secure-web.cisco.com/1NayViq948wI2yc5kOEBSjlYK5Yuaj55DlGmUeAwVLjh0SOnYolzcsDDzFjElrcTSCPI-IaIAPpsbwB0s-bYXnq99HUpLfsLvOZE6U7BQs-Kh4MH81jn_4rG_u3nhhMS2CRiNDob1u5QrNOelD1g9JnANo-5sDH57hqOLAR2pWxqfUVVraFB9qJblNa8-8owff42fyWher7Cx8Q8B2GKv3yOqtM2RMI2MGOCzbzRhfrmiTSUBbTmYX4tx33ZuLbR-q1URO--snaUaYixEXh-1zQ/https%3A%2F%2Fsupport.apple.com%2Fkb%2FHT208050 . BT136080:~ bajsah$ export FS_LICENSE=/Applications/freesurfer/7.2.0/license.txt BT136080:~ bajsah$ ls -l $FS_LICENSE -rw-r--r--@ 1 bajsah FFBHNTS\Domain Users 58 Jul 21 12:34 /Applications/freesurfer/7.2.0/license.txt BT136080:~ bajsah$ which freeview /Applications/freesurfer/7.2.0/bin/freeview BT136080:~ bajsah$ freeview /Applications/freesurfer/7.2.0/bin/freeview: line 2: 19977 Segmentation fault: 11 $FREESURFER_HOME/Freeview.app/Contents/MacOS/freeview "$@" BT136080:~ bajsah$
On Tue, Jul 20, 2021 at 6:01 AM fsbuild fsbuild@contbay.com wrote:
Your crash report listed an Intel Mac running BigSur 11.4. The screenshot below shows running the freesurfer 7.2.0 release installed on an Intel Mac running BigSur 11.4 (after installing the pkg file from *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1L6XGXPq4FMrCE4ljWj35G5hQg90AVAuWmw8Qa8zeZUYPSx... https://secure-web.cisco.com/1uAAvCdKWzVjf3-skvFQVJnuofl7-ctvviv3iwprsfxL19YZU1CH-LLyuYt-xiKotqw9g5WovPaqeuijYbf46QJLJC0zP6RkHk0Ee06ddctL90CjCxv7ZhO48WfcSaQiFPbFZbG0_6aqUlE3qRwo8K55JIcUDnB4IP3q4suMmKXjdE-vHHxNl7c0Z5aVg4O0krQ2ZWp5RirTOEFV86EFHKXMhSxVfXK2pe2393vbg2NrSSO9jIOOUS0lTianON_UYQtogdCsHFuRQ7Rd_y4-fGg/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Fpub%2Fdist%2Ffreesurfer%2F7.2.0%2Ffreesurfer-darwin-macOS-7.2.0.pkg).
In the terminal window you will see FS_LICENSE was manually set in the environment to point to the license.txt file. But the environment variable QT_MAC_WANTS_LAYER is not in the environment at all. After opening an empty freeview window, the volume /Applications/freesurfer/7.2.0/subjects/bert/mri/brain.mgz was loaded. Please give that a try on your machine.
- R.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1zVuhm3ODqP50-QvCtmIzn4sqjjAjpFEkaYTHCkNhnDLYcq...
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1zVuhm3ODqP50-QvCtmIzn4sqjjAjpFEkaYTHCkNhnDLYcq... The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at http://secure-web.cisco.com/1LNh5YI6KP_oTS_P4UhymqBSgZLDguaSVDMxlrjJEslmkdAJ... . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
freesurfer@nmr.mgh.harvard.edu
-
fsbuild -
Sahil Bajaj -
Wang, Ruopeng