Python3.4 and pandas 0.17, core dump on loading a csv

[teto]

Hi,

I get a core dump while only loading a csv with d = pd.read_csv('roudrobin.csv')
Here is the csv:
https://transfer.sh/EYNLT/roudrobin.csv

pd.version
Out[3]: '0.17.0'

gdb python3 core                                                                                     
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warning: bad breakpoint number at or near 'pretty-printers'
Source directories searched: /home/teto/iperf3/src:/home/teto/ns3off/src:/home/teto/iperf2/src:$:$cdir:$cwd
Reading symbols from python3...(no debugging symbols found)...done.

warning: core file may not match specified executable file.
[New LWP 24251]

warning: platform-specific solib_create_inferior_hook did not load initial shared libraries.
Reading symbols from /lib/x86_64-linux-gnu/libpthread.so.0...Reading symbols from /usr/lib/debug//lib/x86_64-linux-gnu/libpthread-2.21.so...done.
done.
[Thread debugging using libthread_db enabled]
Using host libthread_db library "/lib/x86_64-linux-gnu/libthread_db.so.1".
Reading symbols from /lib/x86_64-linux-gnu/libc.so.6...Reading symbols from /usr/lib/debug//lib/x86_64-linux-gnu/libc-2.21.so...done.
done.
Reading symbols from /lib/x86_64-linux-gnu/libdl.so.2...Reading symbols from /usr/lib/debug//lib/x86_64-linux-gnu/libdl-2.21.so...done.
done.
Reading symbols from /lib/x86_64-linux-gnu/libutil.so.1...Reading symbols from /usr/lib/debug//lib/x86_64-linux-gnu/libutil-2.21.so...done.
done.
Reading symbols from /lib/x86_64-linux-gnu/libexpat.so.1...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libz.so.1...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libm.so.6...Reading symbols from /usr/lib/debug//lib/x86_64-linux-gnu/libm-2.21.so...done.
done.
Reading symbols from /lib64/ld-linux-x86-64.so.2...Reading symbols from /usr/lib/debug//lib/x86_64-linux-gnu/ld-2.21.so...done.
done.
Reading symbols from /usr/lib/python3.4/lib-dynload/readline.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libreadline.so.6...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libtinfo.so.5...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/hashtable.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/numpy/core/multiarray.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/numpy/core/umath.cpython-34m.so...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_ctypes.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /usr/lib/x86_64-linux-gnu/libffi.so.6...(no debugging symbols found)...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_bz2.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libbz2.so.1.0...(no debugging symbols found)...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_hashlib.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libcrypto.so.1.0.0...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/numpy/linalg/lapack_lite.cpython-34m.so...(no debugging symbols found)...done.
Reading symbols from /usr/lib/liblapack.so.3...(no debugging symbols found)...done.
Reading symbols from /usr/lib/libblas.so.3...(no debugging symbols found)...done.
Reading symbols from /usr/lib/x86_64-linux-gnu/libgfortran.so.3...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libgcc_s.so.1...(no debugging symbols found)...done.
Reading symbols from /usr/lib/x86_64-linux-gnu/libquadmath.so.0...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/numpy/linalg/_umath_linalg.cpython-34m.so...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/numpy/fft/fftpack_lite.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/numpy/random/mtrand.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/tslib.cpython-34m.so...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_ssl.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libssl.so.1.0.0...(no debugging symbols found)...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_lzma.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/liblzma.so.5...(no debugging symbols found)...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/parser.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/lib.cpython-34m.so...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_csv.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/algos.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/index.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/_period.cpython-34m.so...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_decimal.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /usr/lib/x86_64-linux-gnu/libmpdec.so.2...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/_sparse.cpython-34m.so...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_opcode.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/parser.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/json.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/msgpack/_packer.cpython-34m.so...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/msgpack/_unpacker.cpython-34m.so...done.
Reading symbols from /usr/lib/python3.4/lib-dynload/_json.cpython-34m-x86_64-linux-gnu.so...(no debugging symbols found)...done.
Reading symbols from /lib/x86_64-linux-gnu/libuuid.so.1...(no debugging symbols found)...done.
Reading symbols from /home/teto/.local/lib/python3.4/site-packages/pandas/_testing.cpython-34m.so...done.
Reading symbols from system-supplied DSO at 0x7ffec77b7000...(no debugging symbols found)...done.
Core was generated by `python3'.
Program terminated with signal SIGSEGV, Segmentation fault.
Reading in symbols for ../sysdeps/x86_64/strlen.S...done.
#0  strlen () at ../sysdeps/x86_64/strlen.S:106
106 ../sysdeps/x86_64/strlen.S: Aucun fichier ou dossier de ce type.
(gdb) bt
Reading in symbols for pandas/parser.c...done.
#0  strlen () at ../sysdeps/x86_64/strlen.S:106
#1  0x00000000005a8f1c in PyBytes_FromString ()
#2  0x00007f58e4a7a50c in __pyx_f_6pandas_6parser__try_int64 (__pyx_v_parser=0x1979bf0, __pyx_v_col=__pyx_v_col@entry=23, 
    __pyx_v_line_start=__pyx_v_line_start@entry=1, __pyx_v_line_end=__pyx_v_line_end@entry=3522, 
    __pyx_v_na_filter=__pyx_v_na_filter@entry=1, __pyx_v_na_hashset=__pyx_v_na_hashset@entry=0x187a680) at pandas/parser.c:20849
#3  0x00007f58e4a87c47 in __pyx_f_6pandas_6parser_10TextReader__convert_with_dtype (__pyx_v_self=0x7f58e47a39e8, 
    __pyx_v_dtype=0x7f58e4cb5bc8, __pyx_v_i=23, __pyx_v_start=1, __pyx_v_end=3522, __pyx_v_na_filter=1, __pyx_v_user_dtype=0, 
    __pyx_v_na_hashset=0x187a680, __pyx_v_na_flist=0x7f58ece2d9e8) at pandas/parser.c:12372
#4  0x00007f58e4a8beaf in __pyx_f_6pandas_6parser_10TextReader__convert_tokens (__pyx_v_self=__pyx_v_self@entry=0x7f58e47a39e8, 
    __pyx_v_i=__pyx_v_i@entry=23, __pyx_v_start=__pyx_v_start@entry=1, __pyx_v_end=__pyx_v_end@entry=3522, 
    __pyx_v_name=__pyx_v_name@entry=0x7f58e3ee93f0, __pyx_v_na_filter=__pyx_v_na_filter@entry=1, __pyx_v_na_hashset=0x187a680, 
    __pyx_v_na_flist=0x7f58ece2d9e8) at pandas/parser.c:11744
#5  0x00007f58e4a8ee50 in __pyx_pf_6pandas_6parser_10TextReader_16_convert_column_data (__pyx_v_footer=<optimized out>, 
    __pyx_v_upcast_na=<optimized out>, __pyx_v_rows=<optimized out>, __pyx_v_self=0x7f58e47a39e8) at pandas/parser.c:10858
#6  __pyx_pw_6pandas_6parser_10TextReader_17_convert_column_data (__pyx_v_self=0x7f58e47a39e8, __pyx_args=<optimized out>, 
    __pyx_kwds=<optimized out>) at pandas/parser.c:10148
#7  0x00007f58e4a78b80 in __Pyx_PyObject_Call (kw=0x7f58eb91b9c8, arg=<optimized out>, func=0x7f58e4760548) at pandas/parser.c:32928
#8  __pyx_f_6pandas_6parser_10TextReader__read_rows (__pyx_v_self=0x7f58e47a39e8, __pyx_v_rows=<optimized out>, __pyx_v_trim=0)
    at pandas/parser.c:9465
#9  0x00007f58e4a67910 in __pyx_f_6pandas_6parser_10TextReader__read_low_memory (__pyx_v_self=0x7f58e47a39e8, 
    __pyx_v_rows=0x9ef5a0 <_Py_NoneStruct>) at pandas/parser.c:8338
#10 0x00007f58e4a6e3b4 in __pyx_pf_6pandas_6parser_10TextReader_8read (__pyx_v_rows=<optimized out>, __pyx_v_self=0x7f58e47a39e8)
    at pandas/parser.c:8082
#11 __pyx_pw_6pandas_6parser_10TextReader_9read (__pyx_v_self=0x7f58e47a39e8, __pyx_args=<optimized out>, __pyx_kwds=<optimized out>)
    at pandas/parser.c:8042
#12 0x0000000000511a1a in PyEval_EvalFrameEx ()
#13 0x0000000000519757 in PyEval_EvalCodeEx ()
#14 0x0000000000516213 in PyEval_EvalFrameEx ()
#15 0x0000000000519757 in PyEval_EvalCodeEx ()
#16 0x0000000000516213 in PyEval_EvalFrameEx ()
#17 0x0000000000515c2f in PyEval_EvalFrameEx ()

[jreback]

this is the same as #11374 and fixed for 0.17.1

[teto]

I upgraded pandas to HEAD and that indeed fixed it thanks !

2015-11-08 17:25 GMT+01:00 Jeff Reback [email protected]:

Closed #11549 #11549.

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