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Segmentation fault during isocontour extraction #752

Closed yt-fido closed 7 years ago

yt-fido commented 10 years ago

Originally reported by: Nathan Goldbaum (Bitbucket: ngoldbaum, GitHub: ngoldbaum)


I just tried running the following test script:

#!python

from yt.mods import *
pf = load('IsolatedGalaxy/galaxy0030/galaxy0030')
dd = pf.h.disk('c', [0,0,1], (20, 'kpc'), (3, 'kpc'))
iso = dd.extract_isocontours('Radiuskpc', 10)

I got the following output:

○ python test.py
yt : [INFO     ] 2013-12-13 11:56:33,925 Parameters: current_time              = 0.00600002000283
yt : [INFO     ] 2013-12-13 11:56:33,925 Parameters: domain_dimensions         = [32 32 32]
yt : [INFO     ] 2013-12-13 11:56:33,926 Parameters: domain_left_edge          = [ 0.  0.  0.]
yt : [INFO     ] 2013-12-13 11:56:33,926 Parameters: domain_right_edge         = [ 1.  1.  1.]
yt : [INFO     ] 2013-12-13 11:56:33,927 Parameters: cosmological_simulation   = 0.0
yt : [INFO     ] 2013-12-13 11:56:33,936 Getting the binary hierarchy
Parsing Hierarchy 100% |||||||||||||||||||||||||||||||||||||||||||| Time: 0:00:00
yt : [INFO     ] 2013-12-13 11:56:33,958 Gathering a field list (this may take a moment.)
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field SFR_Density to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field Forming_Stellar_Mass_Density to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field Galaxy1Colour to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field kphHeI to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field MBHColour to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field Phi_pField to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,047 Adding unknown field Galaxy2Colour to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,048 Adding unknown field Average_creation_time to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,048 Adding unknown field gammaHI to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,048 Adding unknown field kphHI to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,048 Adding unknown field kphHeII to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,048 Adding unknown field Star_Particle_Density to list of fields
yt : [INFO     ] 2013-12-13 11:56:34,048 Adding unknown field PhiField to list of fields
Extracting  10% |/////                                            | ETA:  0:00:01 [1]    23478 segmentation fault  python test.py

I also get the following traceback:

Process:         Python [23478]
Path:            /usr/local/Cellar/python/2.7.6/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python
Identifier:      Python
Version:         2.7.6 (2.7.6)
Code Type:       X86-64 (Native)
Parent Process:  zsh [22823]
Responsible:     iTerm [74627]
User ID:         501

Date/Time:       2013-12-13 11:56:34.540 -0800
OS Version:      Mac OS X 10.9 (13A603)
Report Version:  11
Anonymous UUID:  BACF5D1D-C3A9-F8E9-313C-32418FA98979

Sleep/Wake UUID: 639A2BB5-BAF9-41EF-B693-C9FBEBE37DAD

Crashed Thread:  0  Dispatch queue: com.apple.main-thread

Exception Type:  EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000077

VM Regions Near 0x77:
--> 
    __TEXT                 000000010ff4b000-000000010ff4d000 [    8K] r-x/rwx SM=COW  /usr/local/Cellar/python/2.7.6/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0   marching_cubes.so               0x0000000111255cfd __pyx_pw_2yt_9utilities_3lib_14marching_cubes_1march_cubes_grid + 6301 (marching_cubes.c:1694)
1   org.python.python               0x000000010ffd5656 PyEval_EvalFrameEx + 8364
2   org.python.python               0x000000010ffd3480 PyEval_EvalCodeEx + 1638
3   org.python.python               0x000000010ff7a68b function_call + 336
4   org.python.python               0x000000010ff5cf6d PyObject_Call + 101
5   org.python.python               0x000000010ffd7af4 PyEval_EvalFrameEx + 17738
6   org.python.python               0x000000010ffd3480 PyEval_EvalCodeEx + 1638
7   org.python.python               0x000000010ffd9d0b fast_function + 282
8   org.python.python               0x000000010ffd6c85 PyEval_EvalFrameEx + 14043
9   org.python.python               0x000000010ffd3480 PyEval_EvalCodeEx + 1638
10  org.python.python               0x000000010ffd9d0b fast_function + 282
11  org.python.python               0x000000010ffd6c85 PyEval_EvalFrameEx + 14043
12  org.python.python               0x000000010ffd3480 PyEval_EvalCodeEx + 1638
13  org.python.python               0x000000010ffd2e14 PyEval_EvalCode + 54
14  org.python.python               0x000000010fff23c4 run_mod + 53
15  org.python.python               0x000000010fff246b PyRun_FileExFlags + 137
16  org.python.python               0x000000010fff1fb9 PyRun_SimpleFileExFlags + 718
17  org.python.python               0x0000000110002a67 Py_Main + 2995
18  libdyld.dylib                   0x00007fff9808d5fd start + 1

Thread 1:
0   libsystem_kernel.dylib          0x00007fff9380ce6a __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff98b99f08 _pthread_wqthread + 330
2   libsystem_pthread.dylib         0x00007fff98b9cfb9 start_wqthread + 13

Thread 2:: Dispatch queue: com.apple.libdispatch-manager
0   libsystem_kernel.dylib          0x00007fff9380d662 kevent64 + 10
1   libdispatch.dylib               0x00007fff98b7f43d _dispatch_mgr_invoke + 239
2   libdispatch.dylib               0x00007fff98b7f152 _dispatch_mgr_thread + 52

Thread 3:
0   libsystem_kernel.dylib          0x00007fff9380ce6a __workq_kernreturn + 10
1   libsystem_pthread.dylib         0x00007fff98b99f08 _pthread_wqthread + 330
2   libsystem_pthread.dylib         0x00007fff98b9cfb9 start_wqthread + 13

Thread 0 crashed with X86 Thread State (64-bit):
  rax: 0x0000000000000027  rbx: 0x00007fff4fcb39d8  rcx: 0x0000000000000001  rdx: 0x00000000ffffffff
  rdi: 0x0000000000000001  rsi: 0x0000000000000000  rbp: 0x00007fff4fcb3d30  rsp: 0x00007fff4fcb3710
   r8: 0x0000000080000000   r9: 0x0000000000000001  r10: 0x0000000000000008  r11: 0x00000000ffffffff
  r12: 0x0000000000000027  r13: 0x0000000000000001  r14: 0x00007fff4fcb3c98  r15: 0x00007fcac63b54b0
  rip: 0x0000000111255cfd  rfl: 0x0000000000010293  cr2: 0x0000000000000077

Logical CPU:     2
Error Code:      0x00000004
Trap Number:     14

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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: 197883
    thread_create: 0
    thread_set_state: 414

VM Region Summary:
ReadOnly portion of Libraries: Total=100.6M resident=30.9M(31%) swapped_out_or_unallocated=69.7M(69%)
Writable regions: Total=118.7M written=69.5M(59%) resident=80.4M(68%) swapped_out=0K(0%) unallocated=38.3M(32%)

REGION TYPE                      VIRTUAL
===========                      =======
Dispatch continuations             8192K
Kernel Alloc Once                     4K
MALLOC                            100.3M
MALLOC (admin)                       16K
STACK GUARD                        56.0M
Stack                              9304K
VM_ALLOCATE                          36K
__DATA                             3028K
__LINKEDIT                         69.8M
__TEXT                             30.7M
__UNICODE                           544K
shared memory                         4K
===========                      =======
TOTAL                             277.5M

Model: MacBookPro10,2, BootROM MBP102.0106.B03, 2 processors, Intel Core i5, 2.6 GHz, 8 GB, SMC 2.6f59
Graphics: Intel HD Graphics 4000, Intel HD Graphics 4000, Built-In, 1024 MB
Memory Module: BANK 0/DIMM0, 4 GB, DDR3, 1600 MHz, 0x02FE, 0x45424A3831554738454255302D474E2D4620
Memory Module: BANK 1/DIMM0, 4 GB, DDR3, 1600 MHz, 0x02FE, 0x45424A3831554738454255302D474E2D4620
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x10F), Broadcom BCM43xx 1.0 (5.106.98.100.22)
Bluetooth: Version 4.2.0f6 12982, 3 services, 23 devices, 1 incoming serial ports
Network Service: Thunderbolt Ethernet, Ethernet, en3
Network Service: Wi-Fi, AirPort, en0
PCI Card: Apple 57762-A0, Ethernet Controller, Thunderbolt@9,0,0
Serial ATA Device: APPLE SSD SM256E, 251 GB
USB Device: Hub
USB Device: FaceTime HD Camera (Built-in)
USB Device: Hub
USB Device: Hub
USB Device: Keyboard Hub
USB Device: Apple Keyboard
USB Device: Hub
USB Device: Display iSight
USB Device: Apple LED Cinema Display
USB Device: Display Audio
USB Device: Hub
USB Device: Apple Internal Keyboard / Trackpad
USB Device: BRCM20702 Hub
USB Device: Bluetooth USB Host Controller
Thunderbolt Bus: MacBook Pro, Apple Inc., 23.4
Thunderbolt Device: Thunderbolt to Gigabit Ethernet Adapter, Apple Inc., 1, 5.5

I can upload the data somewhere if that would be helpful. This is on the tip of the stable branch.


yt-fido commented 9 years ago

Original comment by chummels (Bitbucket: chummels, GitHub: chummels):


Removing milestone: 2.7 (automated comment)

yt-fido commented 10 years ago

Original comment by Nathan Goldbaum (Bitbucket: ngoldbaum, GitHub: ngoldbaum):


Fixed by Matt in 7d974fd