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abhik / pebl

Python Environment for Bayesian Learning
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crash in cpd.so #1

Open ayr0 opened 12 years ago

ayr0 commented 12 years ago

Installed pebl as described in the docs. Pebl kept crashing my python interpreter. So I cloned the github repo and compiled it using XCode 4.1 on MacOSX Lion, Python 2.7.1.

Trying to run nose tests, cpd crashes

Below is the crash report from Mac OSX Lion

Process: Python [25689] Path: /System/Library/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python Identifier: Python Version: ??? (???) Code Type: X86-64 (Native) Parent Process: zsh [25672]

PlugIn Path: /Library/Python/2.7/site-packages/pebl-1.01-py2.7-macosx-10.7-intel.egg/pebl/_cpd.so PlugIn Identifier: _cpd.so PlugIn Version: ??? (???)

Date/Time: 2012-01-28 15:25:22.911 -0700 OS Version: Mac OS X 10.7.2 (11C74) Report Version: 9

Interval Since Last Report: 314008 sec Crashes Since Last Report: 38 Per-App Crashes Since Last Report: 3 Anonymous UUID: 4CBCFEFB-2DD8-4B84-A7F9-7B2BF7A711F9

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

Exception Type: EXC_BAD_ACCESS (SIGSEGV) Exception Codes: KERN_INVALID_ADDRESS at 0x00000000711601b4

VM Regions Near 0x711601b4: --> __TEXT 0000000105755000-0000000105756000 [ 4K] r-x/rwx SM=COW /System/Library/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python

Application Specific Information: objc[25689]: garbage collection is OFF

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread 0 _cpd.so 0x00000001064a51e1 _loglikelihood + 16 1 _cpd.so 0x00000001064a54f9 loglikelihood + 64 2 org.python.python 0x00000001057e1d77 PyEval_EvalFrameEx + 13861 3 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 4 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 5 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 6 org.python.python 0x0000000105782abf 0x10575a000 + 166591 7 org.python.python 0x0000000105761d32 PyObject_Call + 97 8 org.python.python 0x00000001057706e9 0x10575a000 + 91881 9 org.python.python 0x0000000105761d32 PyObject_Call + 97 10 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 11 org.python.python 0x0000000105761d32 PyObject_Call + 97 12 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 13 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 14 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 15 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 16 org.python.python 0x00000001057e4e6c 0x10575a000 + 568940 17 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 18 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 19 org.python.python 0x00000001057e4e6c 0x10575a000 + 568940 20 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 21 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 22 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 23 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 24 org.python.python 0x0000000105782abf 0x10575a000 + 166591 25 org.python.python 0x0000000105761d32 PyObject_Call + 97 26 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 27 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 28 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 29 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 30 org.python.python 0x0000000105782abf 0x10575a000 + 166591 31 org.python.python 0x0000000105761d32 PyObject_Call + 97 32 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 33 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 34 org.python.python 0x0000000105782abf 0x10575a000 + 166591 35 org.python.python 0x0000000105761d32 PyObject_Call + 97 36 org.python.python 0x00000001057706e9 0x10575a000 + 91881 37 org.python.python 0x0000000105761d32 PyObject_Call + 97 38 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 39 org.python.python 0x0000000105761d32 PyObject_Call + 97 40 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 41 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 42 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 43 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 44 org.python.python 0x0000000105782abf 0x10575a000 + 166591 45 org.python.python 0x0000000105761d32 PyObject_Call + 97 46 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 47 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 48 org.python.python 0x0000000105782abf 0x10575a000 + 166591 49 org.python.python 0x0000000105761d32 PyObject_Call + 97 50 org.python.python 0x00000001057706e9 0x10575a000 + 91881 51 org.python.python 0x0000000105761d32 PyObject_Call + 97 52 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 53 org.python.python 0x0000000105761d32 PyObject_Call + 97 54 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 55 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 56 org.python.python 0x0000000105782abf 0x10575a000 + 166591 57 org.python.python 0x0000000105761d32 PyObject_Call + 97 58 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 59 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 60 org.python.python 0x0000000105782abf 0x10575a000 + 166591 61 org.python.python 0x0000000105761d32 PyObject_Call + 97 62 org.python.python 0x00000001057706e9 0x10575a000 + 91881 63 org.python.python 0x0000000105761d32 PyObject_Call + 97 64 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 65 org.python.python 0x0000000105761d32 PyObject_Call + 97 66 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 67 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 68 org.python.python 0x0000000105782abf 0x10575a000 + 166591 69 org.python.python 0x0000000105761d32 PyObject_Call + 97 70 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 71 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 72 org.python.python 0x0000000105782abf 0x10575a000 + 166591 73 org.python.python 0x0000000105761d32 PyObject_Call + 97 74 org.python.python 0x00000001057706e9 0x10575a000 + 91881 75 org.python.python 0x0000000105761d32 PyObject_Call + 97 76 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 77 org.python.python 0x0000000105761d32 PyObject_Call + 97 78 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 79 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 80 org.python.python 0x0000000105782abf 0x10575a000 + 166591 81 org.python.python 0x0000000105761d32 PyObject_Call + 97 82 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 83 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 84 org.python.python 0x0000000105782abf 0x10575a000 + 166591 85 org.python.python 0x0000000105761d32 PyObject_Call + 97 86 org.python.python 0x00000001057706e9 0x10575a000 + 91881 87 org.python.python 0x0000000105761d32 PyObject_Call + 97 88 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 89 org.python.python 0x0000000105761d32 PyObject_Call + 97 90 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 91 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 92 org.python.python 0x0000000105782abf 0x10575a000 + 166591 93 org.python.python 0x0000000105761d32 PyObject_Call + 97 94 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 95 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 96 org.python.python 0x0000000105782abf 0x10575a000 + 166591 97 org.python.python 0x0000000105761d32 PyObject_Call + 97 98 org.python.python 0x00000001057706e9 0x10575a000 + 91881 99 org.python.python 0x0000000105761d32 PyObject_Call + 97 100 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 101 org.python.python 0x0000000105761d32 PyObject_Call + 97 102 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 103 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 104 org.python.python 0x0000000105782abf 0x10575a000 + 166591 105 org.python.python 0x0000000105761d32 PyObject_Call + 97 106 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 107 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 108 org.python.python 0x0000000105782abf 0x10575a000 + 166591 109 org.python.python 0x0000000105761d32 PyObject_Call + 97 110 org.python.python 0x00000001057706e9 0x10575a000 + 91881 111 org.python.python 0x0000000105761d32 PyObject_Call + 97 112 org.python.python 0x00000001057abc5d 0x10575a000 + 334941 113 org.python.python 0x0000000105761d32 PyObject_Call + 97 114 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 115 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 116 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 117 org.python.python 0x00000001057e4df7 0x10575a000 + 568823 118 org.python.python 0x00000001057e1e0a PyEval_EvalFrameEx + 14008 119 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 120 org.python.python 0x0000000105782abf 0x10575a000 + 166591 121 org.python.python 0x0000000105761d32 PyObject_Call + 97 122 org.python.python 0x00000001057706e9 0x10575a000 + 91881 123 org.python.python 0x0000000105761d32 PyObject_Call + 97 124 org.python.python 0x00000001057e25ec PyEval_EvalFrameEx + 16026 125 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 126 org.python.python 0x0000000105782abf 0x10575a000 + 166591 127 org.python.python 0x0000000105761d32 PyObject_Call + 97 128 org.python.python 0x00000001057706e9 0x10575a000 + 91881 129 org.python.python 0x0000000105761d32 PyObject_Call + 97 130 org.python.python 0x00000001057ac484 0x10575a000 + 337028 131 org.python.python 0x00000001057a6b7a 0x10575a000 + 314234 132 org.python.python 0x0000000105761d32 PyObject_Call + 97 133 org.python.python 0x00000001057e1f63 PyEval_EvalFrameEx + 14353 134 org.python.python 0x00000001057e4cd8 PyEval_EvalCodeEx + 1996 135 org.python.python 0x00000001057e4d4d PyEval_EvalCode + 54 136 org.python.python 0x00000001057fc08f 0x10575a000 + 663695 137 org.python.python 0x00000001057fc14f PyRun_FileExFlags + 157 138 org.python.python 0x00000001057fd2a2 PyRun_SimpleFileExFlags + 392 139 org.python.python 0x000000010580d2af Py_Main + 2715 140 org.python.python 0x0000000105755e88 0x105755000 + 3720

Thread 0 crashed with X86 Thread State (64-bit): rax: 0x00007f95710c5f80 rbx: 0x00000001065d6e60 rcx: 0x0000000000000008 rdx: 0x0000000000000000 rdi: 0x00000000711601a0 rsi: 0x00007f957100bd80 rbp: 0x00007fff6534e710 rsp: 0x00007fff6534e708 r8: 0x00007fff6534e500 r9: 0x0000000000000100 r10: 0x0000000000000000 r11: 0x00000000bf111902 r12: 0x0000000105a0a030 r13: 0x00000001065d4c50 r14: 0x0000000000000002 r15: 0x00000001063bf170 rip: 0x00000001064a51e1 rfl: 0x0000000000010202 cr2: 0x00000000711601b4 Logical CPU: 0

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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: 28259 thread_create: 2 thread_set_state: 0

VM Region Summary: ReadOnly portion of Libraries: Total=73.4M resident=22.4M(31%) swapped_out_or_unallocated=51.0M(69%) Writable regions: Total=32.1M written=13.7M(43%) resident=17.8M(55%) swapped_out=0K(0%) unallocated=14.3M(45%)

REGION TYPE VIRTUAL =========== ======= MALLOC 23.5M MALLOC guard page 32K STACK GUARD 56.0M Stack 8192K VM_ALLOCATE 8K DATA 2008K LINKEDIT 48.1M TEXT 25.3M UNICODE 544K shared memory 12K =========== ======= TOTAL 163.5M

Model: MacBook2,1, BootROM MB21.00A5.B07, 2 processors, Intel Core 2 Duo, 2 GHz, 2 GB, SMC 1.13f3 Graphics: Intel GMA 950, GMA 950, Built-In, spdisplays_integrated_vram Memory Module: BANK 0/DIMM0, 1 GB, DDR2 SDRAM, 667 MHz, 0x2CFFFFFFFFFFFFFF, 0x3848544631323836344844592D3636374531 Memory Module: BANK 1/DIMM1, 1 GB, DDR2 SDRAM, 667 MHz, 0x2CFFFFFFFFFFFFFF, 0x3848544631323836344844592D3636374531 AirPort: spairport_wireless_card_type_airport_extreme (0x168C, 0x87), Atheros 5416: 2.1.14.9 Bluetooth: Version 4.0.1f4, 2 service, 11 devices, 1 incoming serial ports Network Service: Wi-Fi, AirPort, en1 Serial ATA Device: SAMSUNG HN-M500MBB, 500.11 GB Parallel ATA Device: HL-DT-ST DVDRW GWA4080MA USB Device: Built-in iSight, apple_vendor_id, 0x8501, 0xfd400000 / 3 USB Device: Apple Internal Keyboard / Trackpad, apple_vendor_id, 0x021a, 0x1d200000 / 2 USB Device: IR Receiver, apple_vendor_id, 0x8240, 0x5d200000 / 2 USB Device: Bluetooth USB Host Controller, apple_vendor_id, 0x8205, 0x7d100000 / 2

ademarcrotti commented 11 years ago

I'm getting the same error. Do you have a solution for this?

goldtooththriller commented 10 years ago

It looks like the creator may have stepped away for awhile, but I may have found a workaround. It looks like it's a problem with the C implementation of some of the MultinomialCPD. If the last line in cpd.py is changed to

MultinomialCPD = MultinomialCPD_Py

so that it always chooses the Python implementation instead of the C implementation, then it appears to work. If you are running the nosetest scripts, also change the code in /test/test_cpd.py to use MultinomialCPD_Py as well.