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SCIInstitute / SCIRun

SCIRun is a Problem Solving Environment, for modeling, simulation and visualization of scientific problems. This is version 5, the upgraded version of SCIRun v4.
http://scirun.org
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Inconsistent Command Line Execution from OSX Binary #1395

Closed dderiso closed 8 years ago

dderiso commented 8 years ago

Thanks for the great software, I just wanted contribute my findings regarding a small bug.

[WORKS] Executing via:

cd ~ /Applications/SCIRun.app/Contents/MacOS/SCIRun -v

Returns:

Python initialized.
QPixmap::scaled: Pixmap is a null pixmap
QPixmap::scaled: Pixmap is a null pixmap
QPixmap::scaled: Pixmap is a null pixmap
QPixmap::scaled: Pixmap is a null pixmap
[PYTHON] Python 3.4.3 (default, Jan 28 2016, 16:33:17) 
[GCC 4.2.1 Compatible Apple LLVM 4.2 (clang-425.0.28)] on darwin
[PYTHON] 

v5.0-alpha.AA-21-g940e4ec

[FAILS] However, executing via:

cd /Applications/SCIRun.app/Contents/MacOS/ ./SCIRun

Returns

Fatal Python error: Py_Initialize: unable to load the file system codec
ImportError: No module named 'encodings'
Abort trap: 6

With the following crash dump:

Process:               SCIRun [25050]
Path:                  /Applications/SCIRun.app/Contents/MacOS/SCIRun
Identifier:            SCIRun
Version:               ??? (???)
Code Type:             X86-64 (Native)
Parent Process:        bash [24702]
Responsible:           Terminal [20409]
User ID:               501

Date/Time:             2016-04-14 08:40:54.943 -0700
OS Version:            Mac OS X 10.11.3 (15D21)
Report Version:        11
Anonymous UUID:        09533C22-3560-F536-D197-AB9510E6F027

Sleep/Wake UUID:       613CC207-A894-4FB6-942F-B13852AF52F0

Time Awake Since Boot: 100000 seconds
Time Since Wake:       1800 seconds

System Integrity Protection: enabled

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

Exception Type:        EXC_CRASH (SIGABRT)
Exception Codes:       0x0000000000000000, 0x0000000000000000

Application Specific Information:
abort() called

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0   libsystem_kernel.dylib          0x00007fff8c625002 __pthread_kill + 10
1   libsystem_pthread.dylib         0x00007fff86bc95c5 pthread_kill + 90
2   libsystem_c.dylib               0x00007fff967ee6e7 abort + 129
3   org.python.python               0x00000001137ef6ac Py_FatalError + 140
4   org.python.python               0x00000001137ef5b9 _Py_InitializeEx_Private + 1337
5   libCore_Python.dylib            0x000000010d97ce15 SCIRun::Core::PythonInterpreter::initialize_eventhandler(std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&, boost::filesystem::path const&) + 2853
6   libCore_Python.dylib            0x000000010d97dfe9 SCIRun::Core::PythonInterpreter::initialize(bool, std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> > const&, boost::filesystem::path const&) + 681
7                                   0x000000010d4a8de1 mainImpl(int, char const**, char**) + 433
8                                   0x000000010d4a8c24 start + 52

Thread 0 crashed with X86 Thread State (64-bit):
  rax: 0x0000000000000000  rbx: 0x0000000000000006  rcx: 0x00007fff52774c08  rdx: 0x0000000000000000
  rdi: 0x000000000000050f  rsi: 0x0000000000000006  rbp: 0x00007fff52774c30  rsp: 0x00007fff52774c08
   r8: 0x00007fff527746d0   r9: 0x00007fff52774760  r10: 0x0000000008000000  r11: 0x0000000000000206
  r12: 0x0000000113e650e8  r13: 0x0000000113e6b078  r14: 0x00007fff75384000  r15: 0x00007fff78e37bd0
  rip: 0x00007fff8c625002  rfl: 0x0000000000000206  cr2: 0x00007fff78e35008

Logical CPU:     0
Error Code:      0x02000148
Trap Number:     133

Binary Images:
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    0x7fff9743d000 -     0x7fff9743dff7  libkeymgr.dylib (28) <09397E01-6066-3179-A50C-2CE666FDA929> /usr/lib/system/libkeymgr.dylib
    0x7fff97462000 -     0x7fff97574fef  libvDSP.dylib (563.4) <C069B6A3-D7CD-3B72-918C-15514066A2F3> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libvDSP.dylib
    0x7fff97623000 -     0x7fff9776dfc7  com.apple.coreui (2.1 - 365.2) <727C55D3-503A-3EC4-8A23-C984E320F65F> /System/Library/PrivateFrameworks/CoreUI.framework/Versions/A/CoreUI
    0x7fff9776e000 -     0x7fff97770ff7  com.apple.xpc.ServiceManagement (1.0 - 1) <3777FD15-B6F3-32A2-A8E3-3E8CE3B8D5E7> /System/Library/Frameworks/ServiceManagement.framework/Versions/A/ServiceManagement
    0x7fff977a8000 -     0x7fff977a8fff  libOpenScriptingUtil.dylib (169.1) <03BEF6F0-07CD-3EDC-9D11-32202C1857B6> /usr/lib/libOpenScriptingUtil.dylib
    0x7fff977a9000 -     0x7fff977b8ffb  com.apple.LangAnalysis (1.7.0 - 1.7.0) <0D1BCC13-76B9-3C19-85AA-D8DD8299F007> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/LangAnalysis.framework/Versions/A/LangAnalysis
    0x7fff978ad000 -     0x7fff978b5fff  com.apple.CoreServices.FSEvents (1223.10.1 - 1223.10.1) <7F5B7A23-BC1D-3FA9-A9B8-D534F1E1979A> /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/FSEvents.framework/Versions/A/FSEvents
    0x7fff992bf000 -     0x7fff992e8fff  libc++abi.dylib (125) <DCCC8177-3D09-35BC-9784-2A04FEC4C71B> /usr/lib/libc++abi.dylib
    0x7fff992e9000 -     0x7fff9a554ffb  com.apple.CoreGraphics (1.600.0 - 948) <A5BCCC6D-D931-360D-BF45-02F5ED4E1773> /System/Library/Frameworks/CoreGraphics.framework/Versions/A/CoreGraphics
    0x7fff9a8e0000 -     0x7fff9a921ff7  libGLU.dylib (12.0.40.6) <1C9899B5-4741-340F-A2D7-F9AF03B42A47> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLU.dylib
    0x7fff9a942000 -     0x7fff9a9a3ff7  libsystem_network.dylib (583.20.10) <865FE79A-A22D-3733-A14F-FC7B37F3AECD> /usr/lib/system/libsystem_network.dylib
    0x7fff9a9e1000 -     0x7fff9a9e4fff  libCoreVMClient.dylib (119.5) <CD7DE25C-D7AD-3ECD-BEEC-F57992A4A08E> /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreVMClient.dylib
    0x7fff9b08c000 -     0x7fff9b0faff7  com.apple.ApplicationServices.ATS (377 - 394.3) <0DDD3503-3D74-3CCA-BD25-7F19B03C2579> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/ATS.framework/Versions/A/ATS
    0x7fff9b2fd000 -     0x7fff9b2fdfff  com.apple.ApplicationServices (48 - 48) <DD9C4070-C0FC-3984-BCED-72E6E99838FC> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/ApplicationServices
    0x7fff9b304000 -     0x7fff9b4c4feb  libBLAS.dylib (1159) <943445A4-F6CA-3923-882C-154D7D4AEFE0> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
    0x7fff9b4c5000 -     0x7fff9b50bff7  libauto.dylib (186) <999E610F-41FC-32A3-ADCA-5EC049B65DFB> /usr/lib/libauto.dylib
    0x7fff9b50c000 -     0x7fff9b518ff7  com.apple.speech.synthesis.framework (5.4.12 - 5.4.12) <E507D438-517D-32AE-8609-02ACD2F0D692> /System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/SpeechSynthesis.framework/Versions/A/SpeechSynthesis
    0x7fff9b5ba000 -     0x7fff9b5befff  libcache.dylib (75) <6B245C0A-F3EA-383B-A542-5B0D0456A41B> /usr/lib/system/libcache.dylib
    0x7fff9b8b8000 -     0x7fff9b8b8fff  com.apple.Carbon (154 - 157) <34263101-328D-3FE4-B212-14BD3CFF6965> /System/Library/Frameworks/Carbon.framework/Versions/A/Carbon
    0x7fff9b8b9000 -     0x7fff9b8b9fff  com.apple.audio.units.AudioUnit (1.13 - 1.13) <D2E8EA94-3828-3D7C-87E2-97E4CD00269D> /System/Library/Frameworks/AudioUnit.framework/Versions/A/AudioUnit
    0x7fff9b903000 -     0x7fff9b92cfff  libxpc.dylib (756.20.4) <61AB4610-9304-354C-9E9B-D57198AE9866> /usr/lib/system/libxpc.dylib
    0x7fff9b92d000 -     0x7fff9b935fe7  libsystem_platform.dylib (74.10.3) <D3A27E10-7F08-3603-ACC8-7A92B2C04BAB> /usr/lib/system/libsystem_platform.dylib
    0x7fff9b936000 -     0x7fff9b936fff  libenergytrace.dylib (10) <A4AE7CBD-CF0A-3A74-8098-B642CE496611> /usr/lib/libenergytrace.dylib

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: 61219
    thread_create: 0
    thread_set_state: 0

VM Region Summary:
ReadOnly portion of Libraries: Total=309.7M resident=0K(0%) swapped_out_or_unallocated=309.7M(100%)
Writable regions: Total=47.8M written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=47.8M(100%)

                                VIRTUAL   REGION 
REGION TYPE                        SIZE    COUNT (non-coalesced) 
===========                     =======  ======= 
Activity Tracing                  2048K        2 
Kernel Alloc Once                    4K        2 
MALLOC                            37.1M       14 
MALLOC guard page                   32K        7 
MALLOC_LARGE (reserved)            128K        2         reserved VM address space (unallocated)
STACK GUARD                       56.0M        2 
Stack                             8192K        2 
VM_ALLOCATE                        204K        3 
__DATA                            19.5M      305 
__IMAGE                            528K        2 
__LINKEDIT                       131.7M      110 
__TEXT                           178.0M      292 
__UNICODE                          552K        2 
shared memory                       12K        4 
===========                     =======  ======= 
TOTAL                            433.8M      735 
TOTAL, minus reserved VM space   433.7M      735
dcwhite commented 8 years ago

I'll take a look. I've fixed similar path problems recently.

dcwhite commented 8 years ago

@dderiso You could try pulling and building latest master, that version you have (v5.0-alpha.AA-21-g940e4ec) is a bit old.

dcwhite commented 8 years ago

Still broken in the latest--I'll fix it today.

vnckppl commented 6 years ago

I am experiencing a very similar issue on Debian GNU/Linux 9.1 (stretch) (GNU/Linux 4.9.0-3-amd64 x86_64) with version v5.0-beta.IBBM2018-114-g4346140b2.

I can start SCIRun by entering the full path, but not by adding the SCIRun bin directory to my path and running SCIRun. The latter gives me the following error:

Fatal Python error: Py_Initialize: Unable to get the locale encoding ImportError: No module named 'encodings' Aborted