ReagentX
commented
6 years ago Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000008pretty sure this means someone did
*(0x08)Why are we trying to dereference 8?
Closed ReagentX closed 6 years ago
ReagentX
commented
6 years ago Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000008pretty sure this means someone did
*(0x08)Why are we trying to dereference 8?
ReagentX
commented
6 years ago I can reproduce this segmentation fault 100% of the time. All I have to do is quit and relaunch or reload VS Code.
brettcannon
commented
6 years ago If you look at the top of your stack trace it looks like scikit-learn is crashing when we are asking Python to tell us details about the module:
0 _k_means_elkan.cpython-36m-darwin.so 0x000000010b5dbc62 __pyx_pf_7sklearn_7cluster_14_k_means_elkan_12__defaults__ + 50
1 sparsefuncs_fast.cpython-36m-darwin.so 0x000000010add08a0 __Pyx_CyFunction_get_kwdefaults + 48What version of scikit-learn do you have installed and is it the latest version?
ReagentX
commented
6 years ago According to pip freeze I am running scikit-learn==0.19.1 which was the current stable release up until today.
ReagentX
commented
6 years ago I reinstalled scikit-learn to the new release (today's 0.20.0) and the segfault persists. Here is the crashlog under 0.20.0:
Process: Python [4313]
Path: /Library/Frameworks/Python.framework/Versions/3.6/Resources/Python.app/Contents/MacOS/Python
Identifier: Python
Version: 3.6.5 (3.6.5)
Code Type: X86-64 (Native)
Parent Process: Microsoft.Python.LanguageServer [4248]
Responsible: Python [4313]
User ID: 501
Date/Time: 2018-09-26 18:49:00.599 -0700
OS Version: Mac OS X 10.14 (18A391)
Report Version: 12
Anonymous UUID: 93344157-F5CA-8D8C-CB05-CD7AE0EA201E
Sleep/Wake UUID: B51E290A-D593-40F3-B105-9D3C311C5697
Time Awake Since Boot: 18000 seconds
Time Since Wake: 4900 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 0x0000000000000008
Exception Note: EXC_CORPSE_NOTIFY
Termination Signal: Segmentation fault: 11
Termination Reason: Namespace SIGNAL, Code 0xb
Terminating Process: exc handler [4313]
VM Regions Near 0x8:
-->
__TEXT 0000000100000000-0000000100001000 [ 4K] r-x/rwx SM=COW /Library/Frameworks/Python.framework/Versions/3.6/Resources/Python.app/Contents/MacOS/Python
Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0 _k_means_elkan.cpython-36m-darwin.so 0x000000011337567f __pyx_pf_7sklearn_7cluster_14_k_means_elkan_12__defaults__ + 47
1 sparsefuncs_fast.cpython-36m-darwin.so 0x000000010ada33e0 __Pyx_CyFunction_get_kwdefaults + 48
2 org.python.python 0x0000000100766e10 _PyObject_GenericGetAttrWithDict + 144
3 org.python.python 0x00000001007e887c builtin_getattr + 92
4 org.python.python 0x00000001007630c8 _PyCFunction_FastCallDict + 552
5 org.python.python 0x00000001007eca54 call_function + 612
6 org.python.python 0x00000001007ee464 _PyEval_EvalFrameDefault + 5604
7 org.python.python 0x00000001007ec79e fast_function + 606
8 org.python.python 0x00000001007eca3b call_function + 587
9 org.python.python 0x00000001007ee464 _PyEval_EvalFrameDefault + 5604
10 org.python.python 0x00000001007ebdf0 _PyEval_EvalCodeWithName + 2720
11 org.python.python 0x00000001007ec61b fast_function + 219
12 org.python.python 0x00000001007eca3b call_function + 587
13 org.python.python 0x00000001007ee986 _PyEval_EvalFrameDefault + 6918
14 org.python.python 0x00000001007ec79e fast_function + 606
15 org.python.python 0x00000001007eca3b call_function + 587
16 org.python.python 0x00000001007ee464 _PyEval_EvalFrameDefault + 5604
17 org.python.python 0x00000001007ebdf0 _PyEval_EvalCodeWithName + 2720
18 org.python.python 0x00000001007ec61b fast_function + 219
19 org.python.python 0x00000001007eca3b call_function + 587
20 org.python.python 0x00000001007ee464 _PyEval_EvalFrameDefault + 5604
21 org.python.python 0x00000001007ebdf0 _PyEval_EvalCodeWithName + 2720
22 org.python.python 0x00000001007eccb7 _PyFunction_FastCallDict + 439
23 org.python.python 0x0000000100707234 _PyObject_FastCallDict + 356
24 org.python.python 0x0000000100707900 _PyObject_Call_Prepend + 208
25 org.python.python 0x0000000100706c23 PyObject_Call + 99
26 org.python.python 0x00000001007823f1 slot_tp_init + 81
27 org.python.python 0x0000000100778bb4 type_call + 212
28 org.python.python 0x0000000100707184 _PyObject_FastCallDict + 180
29 org.python.python 0x00000001007074b0 _PyObject_FastCallKeywords + 288
30 org.python.python 0x00000001007ec895 call_function + 165
31 org.python.python 0x00000001007ee986 _PyEval_EvalFrameDefault + 6918
32 org.python.python 0x00000001007ebdf0 _PyEval_EvalCodeWithName + 2720
33 org.python.python 0x00000001007eccb7 _PyFunction_FastCallDict + 439
34 org.python.python 0x0000000100707234 _PyObject_FastCallDict + 356
35 org.python.python 0x0000000100707900 _PyObject_Call_Prepend + 208
36 org.python.python 0x0000000100706c23 PyObject_Call + 99
37 org.python.python 0x00000001007823f1 slot_tp_init + 81
38 org.python.python 0x0000000100778bb4 type_call + 212
39 org.python.python 0x0000000100707184 _PyObject_FastCallDict + 180
40 org.python.python 0x00000001007074b0 _PyObject_FastCallKeywords + 288
41 org.python.python 0x00000001007ec895 call_function + 165
42 org.python.python 0x00000001007ee986 _PyEval_EvalFrameDefault + 6918
43 org.python.python 0x00000001007ec79e fast_function + 606
44 org.python.python 0x00000001007eca3b call_function + 587
45 org.python.python 0x00000001007ee464 _PyEval_EvalFrameDefault + 5604
46 org.python.python 0x00000001007ec79e fast_function + 606
47 org.python.python 0x00000001007eca3b call_function + 587
48 org.python.python 0x00000001007ee464 _PyEval_EvalFrameDefault + 5604
49 org.python.python 0x00000001007ebdf0 _PyEval_EvalCodeWithName + 2720
50 org.python.python 0x00000001007ebf94 PyEval_EvalCode + 100
51 org.python.python 0x00000001008295be PyRun_FileExFlags + 206
52 org.python.python 0x000000010082985f PyRun_SimpleFileExFlags + 447
53 org.python.python 0x000000010084352a Py_Main + 3898
54 org.python.python 0x0000000100000dfe 0x100000000 + 3582
55 org.python.python 0x0000000100000c34 0x100000000 + 3124
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x000000011328ca08 rcx: 0x00000000000003a2 rdx: 0x000000010ada33b0
rdi: 0x000000011328ca08 rsi: 0x0000000000000000 rbp: 0x00007fff5bffc8e0 rsp: 0x00007fff5bffc8b0
r8: 0x0000000000000003 r9: 0x00007fff5bffc978 r10: 0x0000000000000002 r11: 0x000000010ada33b0
r12: 0x0000000000000000 r13: 0x0000000101d3b070 r14: 0x0000000000000000 r15: 0x000000011328ca08
rip: 0x000000011337567f rfl: 0x0000000000010246 cr2: 0x0000000000000008
Logical CPU: 4
Error Code: 0x00000004
Trap Number: 14
Binary Images:
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0x113372000 - 0x1133a8fff +_k_means_elkan.cpython-36m-darwin.so (0) <BE080F47-9832-3BBA-B199-82BC86BB3B59> /Users/USER/Documents/*/_k_means_elkan.cpython-36m-darwin.so
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0x7fff67c95000 - 0x7fff67d136a7 dyld (625.13) <D6387150-2FB8-3066-868D-72E1B1C43982> /usr/lib/dyld
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: 11852
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=184.9M resident=0K(0%) swapped_out_or_unallocated=184.9M(100%)
Writable regions: Total=123.0M written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=123.0M(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Kernel Alloc Once 8K 2
MALLOC 104.1M 68
MALLOC guard page 16K 5
MALLOC_LARGE (reserved) 128K 2 reserved VM address space (unallocated)
VM_ALLOCATE 4K 2
__DATA 19.7M 406
__FONT_DATA 4K 2
__LINKEDIT 39.1M 328
__TEXT 145.8M 325
__UNICODE 560K 2
__UNIXSTACK 16.0M 2
shared memory 12K 4
=========== ======= =======
TOTAL 325.4M 1136
TOTAL, minus reserved VM space 325.3M 1136
Model: MacBookPro11,5, BootROM MBP114.0184.B00, 4 processors, Intel Core i7, 2.8 GHz, 16 GB, SMC 2.30f2
Graphics: AMD Radeon R9 M370X, AMD Radeon R9 M370X, PCIe
Graphics: Intel Iris Pro, Intel Iris Pro, Built-In
Memory Module: BANK 0/DIMM0, 8 GB, DDR3, 1600 MHz, 0x802C, 0x31364B544631473634485A2D314736453120
Memory Module: BANK 1/DIMM0, 8 GB, DDR3, 1600 MHz, 0x802C, 0x31364B544631473634485A2D314736453120
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x152), Broadcom BCM43xx 1.0 (7.77.61.1 AirPortDriverBrcmNIC-1305.2)
Bluetooth: Version 6.0.8f6, 3 services, 27 devices, 1 incoming serial ports
Network Service: Display Ethernet, Ethernet, en4
Network Service: Wi-Fi, AirPort, en0
PCI Card: pci11c1,5901, IEEE 1394 Open HCI, Thunderbolt@191,0,0
PCI Card: Apple 57761-B0, Ethernet Controller, Thunderbolt@192,0,0
PCI Card: pci12d8,400e, USB Open Host Controller, Thunderbolt@195,0,0
PCI Card: pci12d8,400e, USB Open Host Controller, Thunderbolt@195,0,1
PCI Card: pci12d8,400f, USB Enhanced Host Controller, Thunderbolt@195,0,2
Serial ATA Device: APPLE SSD SM0512G, 500.28 GB
USB Device: USB 2.0 Bus
USB Device: Hub
USB Device: MiC 96k
USB Device: KBD660
USB Device: FaceTime HD Camera (Display)
USB Device: Apple Thunderbolt Display
USB Device: USB Receiver
USB Device: Display Audio
USB Device: USB 3.0 Bus
USB Device: Backup+ Desk
USB Device: Apple Internal Keyboard / Trackpad
USB Device: Bluetooth USB Host Controller
Thunderbolt Bus: MacBook Pro, Apple Inc., 27.1
Thunderbolt Device: Thunderbolt Display, Apple Inc., 1, 26.2I'll see if I can verify on my personal Mac.
ReagentX
commented
6 years ago If you need me to install/enable something to get some deeper logging I can–for me this is 100% reproducible with a launch/reload of VS Code.
brettcannon
commented
6 years ago To be perfectly honest, @ReagentX , every other time we have seen this kind of crash it's because of a corrupt Python install or some C extension module behaving badly. I'll still give it a try to reproduce, though.
brettcannon
commented
6 years ago I just tried importing scikit-learn 0.20.0 on my Mac using a brew-installed version of Python 3.7 and it works for me, so I don't think this is being caused by the extension itself, it's just causing Python to run and that happens to trigger a failure. As I have said I have seen this happen when an install of Python is corrupted, so I would try uninstalling Python entirely and doing a clean re-install. Otherwise the crash is in scikit-learn and so perhaps it is in there? But I would try re-installing Python first.
But unfortunately I'm going to need to close this as it's not reproducible and everything points to it not being the extensions fault.
Environment data
Actual behavior
Python has a segmentation fault, but everything runs normally
Expected behavior
There is no segmentation fault
Steps to reproduce:
Logs
Output for
Pythonin theOutputpanel (View→Output, change the drop-down the upper-right of theOutputpanel toPython)Output from
Consoleunder theDeveloper Toolspanel (toggle Developer Tools on underHelp)MacOS Crash Log