#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.

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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> MacPorts <https://www.macports.org/> Ports system for OS X