[MacPorts] #48557: Pandas crashes with blosc

[MacPorts]

#48557: Pandas crashes with blosc
---------------------+--------------------------------
 Reporter:  dersh@…  |      Owner:  macports-tickets@…
     Type:  defect   |     Status:  new
 Priority:  Normal   |  Milestone:
Component:  ports    |    Version:  2.3.3
 Keywords:           |       Port:  py27-pandas
---------------------+--------------------------------
 I am trying to create an HDF5 file, and if I use blosc compression it
 segmentation faults every time when I try to close the file.
 Here is an example:

 {{{
 $ python
 Python 2.7.10 (default, May 26 2015, 17:31:25)
 [GCC 4.2.1 Compatible Apple LLVM 6.1.0 (clang-602.0.53)] on darwin
 Type "help", "copyright", "credits" or "license" for more information.
 >>> import pandas as pd
 >>> a=pd.DataFrame([1,2])
 >>> store=pd.HDFStore("test.h5",complib='blosc')
 >>> store['test']=a
 >>> store.close()
 Segmentation fault: 11

 }}}

 I listed this as a py27-pandas port problem, because that is where I am
 seeing it.  But, I suppose it could be, pandas, python, hdf5, pytables, or
 blosc related.
 If I use no compression, or zlib, the store closes without an error.

 Here is the thread that crashed:

 {{{
 Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
 0   libsystem_platform.dylib            0x00007fff978a9b50
 _platform_strcmp + 80
 1   libblosc.1.dylib                    0x000000011275dc78
 blosc_compname_to_compcode + 21
 2   libblosc.1.dylib                    0x000000011275e0ca
 blosc_compress_ctx + 75
 3   utilsextension.so                   0x00000001124f0da8 blosc_filter +
 504
 4   libhdf5.10.dylib                    0x00000001126dc084 H5Z_pipeline +
 956
 5   libhdf5.10.dylib                    0x0000000112555413
 H5D__chunk_flush_entry + 355
 6   libhdf5.10.dylib                    0x00000001125536da
 H5D__chunk_flush + 113
 7   libhdf5.10.dylib                    0x0000000112564aed H5D__flush_real
 + 192
 8   libhdf5.10.dylib                    0x000000011256458f H5D_close + 208
 9   libhdf5.10.dylib                    0x00000001125e0478 H5I_dec_ref +
 132
 10  libhdf5.10.dylib                    0x00000001125e0331 H5I_dec_app_ref
 + 35
 11  libhdf5.10.dylib                    0x00000001125e05ed
 H5I_dec_app_ref_always_close + 35
 12  libhdf5.10.dylib                    0x000000011254db28 H5Dclose + 110
 13  hdf5extension.so                    0x00000001128838a9
 __pyx_pw_6tables_13hdf5extension_4Leaf_9_g_close + 57
 14  org.python.python                   0x000000010f58a3a8
 PyEval_EvalFrameEx + 15944
 15  org.python.python                   0x000000010f586102
 PyEval_EvalCodeEx + 1666
 16  org.python.python                   0x000000010f58da86 fast_function +
 118
 17  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 18  org.python.python                   0x000000010f586102
 PyEval_EvalCodeEx + 1666
 19  org.python.python                   0x000000010f58da86 fast_function +
 118
 20  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 21  org.python.python                   0x000000010f586102
 PyEval_EvalCodeEx + 1666
 22  org.python.python                   0x000000010f58da86 fast_function +
 118
 23  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 24  org.python.python                   0x000000010f58db66 fast_function +
 342
 25  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 26  org.python.python                   0x000000010f58db66 fast_function +
 342
 27  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 28  org.python.python                   0x000000010f586102
 PyEval_EvalCodeEx + 1666
 29  org.python.python                   0x000000010f58da86 fast_function +
 118
 30  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 31  org.python.python                   0x000000010f58db66 fast_function +
 342
 32  org.python.python                   0x000000010f589c4f
 PyEval_EvalFrameEx + 14063
 33  org.python.python                   0x000000010f586102
 PyEval_EvalCodeEx + 1666
 34  org.python.python                   0x000000010f585a76 PyEval_EvalCode
 + 54
 35  org.python.python                   0x000000010f5af3d6
 PyRun_InteractiveOneFlags + 406
 36  org.python.python                   0x000000010f5aee8e
 PyRun_InteractiveLoopFlags + 206
 37  org.python.python                   0x000000010f5aed38
 PyRun_AnyFileExFlags + 136
 38  org.python.python                   0x000000010f5c515c Py_Main + 3084
 39  libdyld.dylib                       0x00007fff928b55c9 start + 1

 }}}

-- 
Ticket URL: <https://trac.macports.org/ticket/48557>
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