Hi all, I'm new to pytables and I'm trying to install it on Mac OS X. I can
successfully build pytables and run the test within tables directory:
$ python
Python 2.6.1 (r261:67515, Jun 24 2010, 21:47:49)
[GCC 4.2.1 (Apple Inc. build 5646)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> import tables
>>> tables.test()
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
PyTables version: 2.2.1
HDF5 version: 1.8.6
NumPy version: 1.5.0
Numexpr version: 1.4.2 (not using Intel's VML/MKL)
Zlib version: 1.2.3 (in Python interpreter)
BZIP2 version: 1.0.5 (10-Dec-2007)
Blosc version: 1.1.2 (2010-11-04)
Cython version: 0.14.1
Python version: 2.6.1 (r261:67515, Jun 24 2010, 21:47:49)
[GCC 4.2.1 (Apple Inc. build 5646)]
Platform: darwin-i386
Byte-ordering: little
Detected cores: 2
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
Performing only a light (yet comprehensive) subset of the test suite.
If you want a more complete test, try passing the --heavy flag to this script
(or set the 'heavy' parameter in case you are using tables.test() call).
The whole suite will take more than 2 minutes to complete on a relatively
modern CPU and around 150 MB of main memory.
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
tables/filters.py:264: FiltersWarning: compression library ``lzo`` is not
available; using ``zlib`` instead
% (complib, default_complib), FiltersWarning )
...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
----------------------------------------------------------------------
Ran 2975 tests in 76.264s
OK
But then I issue
$ python setup.py install
and when I try to import tables from the installed library, python segfaults
(I'm pasting the crash log). Any hint?
Note I've installed hdf5 like
$ ./configure --enable-threadsafe --with-pthread=/usr --prefix=/usr/local/
Thanks
d
Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000000
Crashed Thread: 0 Dispatch queue: com.apple.main-thread
Thread 0 Crashed: Dispatch queue: com.apple.main-thread
0 ??? 000000000000000000 0 + 0
1 org.python.python 0x000000010009bd3b
_PyImport_LoadDynamicModule + 189
2 org.python.python 0x000000010009aaf8
PyImport_ReloadModule + 1347
3 org.python.python 0x000000010009ae09
PyImport_ReloadModule + 2132
4 org.python.python 0x000000010009b698
PyImport_ImportModuleLevel + 1519
5 org.python.python 0x00000001000839cb _PyBuiltin_Init +
14264
6 org.python.python 0x000000010000aff3 PyObject_Call + 112
7 org.python.python 0x00000001000849db
PyEval_CallObjectWithKeywords + 175
8 org.python.python 0x00000001000885ea PyEval_EvalFrameEx +
12344
9 org.python.python 0x000000010008acce PyEval_EvalCodeEx +
1803
10 org.python.python 0x000000010008ad61 PyEval_EvalCode + 54
11 org.python.python 0x00000001000988f2
PyImport_ExecCodeModuleEx + 258
12 org.python.python 0x0000000100099248
PyImport_AppendInittab + 1026
13 org.python.python 0x000000010009aaf8
PyImport_ReloadModule + 1347
14 org.python.python 0x000000010009af78
PyImport_ReloadModule + 2499
15 org.python.python 0x000000010009b59a
PyImport_ImportModuleLevel + 1265
16 org.python.python 0x00000001000839cb _PyBuiltin_Init +
14264
17 org.python.python 0x000000010000aff3 PyObject_Call + 112
18 org.python.python 0x00000001000849db
PyEval_CallObjectWithKeywords + 175
19 org.python.python 0x00000001000885ea PyEval_EvalFrameEx +
12344
20 org.python.python 0x000000010008acce PyEval_EvalCodeEx +
1803
21 org.python.python 0x000000010008ad61 PyEval_EvalCode + 54
22 org.python.python 0x00000001000988f2
PyImport_ExecCodeModuleEx + 258
23 org.python.python 0x0000000100099248
PyImport_AppendInittab + 1026
24 org.python.python 0x000000010009a1d0 _PyImport_FindModule
+ 379
25 org.python.python 0x000000010009aaf8
PyImport_ReloadModule + 1347
26 org.python.python 0x000000010009af78
PyImport_ReloadModule + 2499
27 org.python.python 0x000000010009b56a
PyImport_ImportModuleLevel + 1217
28 org.python.python 0x00000001000839cb _PyBuiltin_Init +
14264
29 org.python.python 0x000000010000aff3 PyObject_Call + 112
30 org.python.python 0x00000001000849db
PyEval_CallObjectWithKeywords + 175
31 org.python.python 0x00000001000885ea PyEval_EvalFrameEx +
12344
32 org.python.python 0x000000010008acce PyEval_EvalCodeEx +
1803
33 org.python.python 0x000000010008ad61 PyEval_EvalCode + 54
34 org.python.python 0x00000001000988f2
PyImport_ExecCodeModuleEx + 258
35 org.python.python 0x0000000100099248
PyImport_AppendInittab + 1026
36 org.python.python 0x000000010009aaf8
PyImport_ReloadModule + 1347
37 org.python.python 0x000000010009af78
PyImport_ReloadModule + 2499
38 org.python.python 0x000000010009b59a
PyImport_ImportModuleLevel + 1265
39 org.python.python 0x00000001000839cb _PyBuiltin_Init +
14264
40 org.python.python 0x000000010000aff3 PyObject_Call + 112
41 org.python.python 0x00000001000849db
PyEval_CallObjectWithKeywords + 175
42 org.python.python 0x00000001000885ea PyEval_EvalFrameEx +
12344
43 org.python.python 0x000000010008acce PyEval_EvalCodeEx +
1803
44 org.python.python 0x000000010008ad61 PyEval_EvalCode + 54
45 org.python.python 0x00000001000988f2
PyImport_ExecCodeModuleEx + 258
46 org.python.python 0x0000000100099248
PyImport_AppendInittab + 1026
47 org.python.python 0x000000010009a1d0 _PyImport_FindModule
+ 379
48 org.python.python 0x000000010009aaf8
PyImport_ReloadModule + 1347
49 org.python.python 0x000000010009af78
PyImport_ReloadModule + 2499
50 org.python.python 0x000000010009b56a
PyImport_ImportModuleLevel + 1217
51 org.python.python 0x00000001000839cb _PyBuiltin_Init +
14264
52 org.python.python 0x000000010000aff3 PyObject_Call + 112
53 org.python.python 0x00000001000849db
PyEval_CallObjectWithKeywords + 175
54 org.python.python 0x00000001000885ea PyEval_EvalFrameEx +
12344
55 org.python.python 0x000000010008acce PyEval_EvalCodeEx +
1803
56 org.python.python 0x000000010008ad61 PyEval_EvalCode + 54
57 org.python.python 0x00000001000a265a Py_CompileString + 78
58 org.python.python 0x00000001000a44dd
PyRun_InteractiveOneFlags + 503
59 org.python.python 0x00000001000a4615
PyRun_InteractiveLoopFlags + 206
60 org.python.python 0x00000001000a4685 PyRun_AnyFileExFlags
+ 76
61 org.python.python 0x00000001000b0286 Py_Main + 2718
62 org.python.python.app 0x0000000100000e6c start + 52
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x00000001005f7ba0 rbx: 0x0000000100426198 rcx: 0x0000000000000b31
rdx: 0x00000001005f7ba0
rdi: 0x0000000100426198 rsi: 0x00000001004ebdc0 rbp: 0x00007fff5fbf9240
rsp: 0x00007fff5fbf9218
r8: 0x0000000000000000 r9: 0x00007fff5fbf8cd0 r10: 0x00000000000225eb
r11: 0x000000010003be7d
r12: 0x00000001004eba98 r13: 0x00000001016d1718 r14: 0x00007fff5fbf97d0
r15: 0x00007fff5fbf92e0
rip: 0x0000000000000000 rfl: 0x0000000000010246 cr2: 0x0000000000000000
Binary Images:
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