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BUG: read_csv segfault #5664

Closed
dsm054 opened this issue Dec 8, 2013 · 15 comments · Fixed by #9846
Closed

BUG: read_csv segfault #5664

dsm054 opened this issue Dec 8, 2013 · 15 comments · Fixed by #9846
Labels
Bug IO CSV read_csv, to_csv
Milestone
0.16.1

Comments

@dsm054
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dsm054 commented Dec 8, 2013

Came across this when trying to parse a poorly-formatted csv file and got the number of columns wrong. Mostly it segfaults; sometimes it produces a broken last row.

>>> import pandas as pd
>>> from StringIO import StringIO
>>> pd.__version__
'0.13.0rc1-43-g4f9fefc'
>>> 
>>> f = StringIO('1,1,1,1,0\n'*2 + '\n'*2)
>>> df = pd.read_csv(f,names=list("abcd"))
Segmentation fault (core dumped)

When it doesn't segfault it tends to produce

      a   b   c    d
 1    1   1   1    0
 1    1   1   1    0
NaN NaN NaN NaN  NaN
NaN NaN NaN NaN  [unicode box: 0 0 0 1]
@guyrt
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guyrt commented Jan 5, 2014

This is a C parser problem.

Python parser appears to correctly handle names of lengths 1 and up.
C parser chokes on len(names) in [1, 2] and also 3 or 4 if any names are strings.

@jreback
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jreback commented Jan 5, 2014

gr8

care to submit a PR?

@guyrt
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guyrt commented Jan 6, 2014

Yeah, I'm working on it. Isolated problem (#tokens < expected causing read from out of bounds) and working on fix.

@jreback
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jreback commented Feb 14, 2014

@guyrt progress on this?

@jreback
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jreback commented Apr 6, 2014

@dsm054 you want to do a PR for this?

@guyrt ?

@guyrt
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guyrt commented Apr 18, 2014

My fix hit a road block. I'll try to return to this once I free up some time.

@jreback
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jreback commented Apr 28, 2014

@guyrt ? or cc @mcwitt

@jreback jreback modified the milestones: 0.14.1, 0.14.0 May 5, 2014
@jreback
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jreback commented Jun 17, 2014

cc @mcwitt
cc @guyrt

@jreback jreback modified the milestones: 0.15.0, 0.14.1 Jun 19, 2014
@cstenac
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cstenac commented Jul 17, 2014

Hi,

Not totally sure, but I think this one is related too:

import pandas as pd, StringIO

pd.read_csv(StringIO.StringIO("a,b\nc"), skiprows=0, names = ["a"])

Crashes about 50-80% of time, gives some NaN in other cases.

Reproduced on OS X and Ubuntu, Pandas 0.13.1 and 0.14.1

@guyrt
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guyrt commented Jul 17, 2014

Reproduced @cstenac 's example on windows as well. Note first example, where we just loaded in whatever from memory. That's concerning.

 In [3]: pandas.read_csv(StringIO.StringIO("a,b\nc"), skiprows=0, names = ["a"])
Out[3]:
    a
a   b
c  2♫

In [4]: pandas.read_csv(StringIO.StringIO("a,b\nc"), skiprows=0, names = ["a"])
<failed>

That does appear to be same issue: the C engine computes an expected size and reads until it fills that size.

@tommyengstrom
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If there are two implementations of this and one is broken, shouldn't the other one be the default?

@jreback jreback modified the milestones: 0.16.0, Next Major Release Mar 6, 2015
@behzadnouri behzadnouri mentioned this issue Apr 10, 2015
Merged
@jreback jreback modified the milestones: 0.16.1, Next Major Release Apr 11, 2015
@jreback jreback mentioned this issue Sep 8, 2015
Closed
@alessiodore alessiodore mentioned this issue Jan 20, 2016
Closed
@jeromedockes
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Hello, I am not sure this is the same issue but the following snippet causes a segmentation fault on three machines I have tried (all running ubuntu). I have the same problem whenever I try to load a large csv file. However, if I load the file in chunks (using chunksize=...), there is no problem. Also, this problem doesn't occur if I use the python engine.

I am using pandas 0.20.1

import os

import pandas as pd
import numpy as np

N_WORDS = 1000
DUMP = '/tmp/hello.csv'

CHUNK_SIZE = None
# CHUNK_SIZE = 1000

ENGINE = 'c'
# ENGINE = 'python'

if not os.path.isfile(DUMP):
    text = pd.DataFrame(columns=np.arange(100), index=np.arange(10000))
    text.iloc[:, :] = 'hello ' * N_WORDS
    print(text.shape)

    text.to_csv(DUMP)
    print('wrote {}'.format(DUMP))

if CHUNK_SIZE is None:
    text = pd.read_csv(DUMP, engine=ENGINE)
else:
    chunks = []
    for chunk in pd.read_csv(DUMP, chunksize=CHUNK_SIZE, engine=ENGINE):
        chunks.append(chunk)
    text = pd.concat(chunks)

print('done reading csv')

output:

(10000, 100)
wrote /tmp/hello.csv
*** Error in `python': free(): invalid pointer: 0x00007f41f563173e ***
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777e5)[0x7f42085957e5]
/lib/x86_64-linux-gnu/libc.so.6(+0x8037a)[0x7f420859e37a]
/lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f42085a253c]
/home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/parsers.cpython-35m-x86_64-linux-gnu.so(parser_cleanup+0x1a)[0x7f41f562815a]
/home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/parsers.cpython-35m-x86_64-linux-gnu.so(+0x1a453)[0x7f41f55ce453]
python(PyEval_EvalFrameEx+0x45c4)[0x51ee74]
python(PyEval_EvalFrameEx+0x49a4)[0x51f254]
python(PyEval_EvalFrameEx+0x49a4)[0x51f254]
python(PyEval_EvalFrameEx+0x49a4)[0x51f254]
python[0x52426f]
python(PyEval_EvalFrameEx+0x508f)[0x51f93f]
python[0x523d29]
python(PyEval_EvalCode+0x1f)[0x5249ef]
python[0x601402]
python(PyRun_FileExFlags+0x9a)[0x60393a]
python(PyRun_SimpleFileExFlags+0x1bc)[0x603b2c]
python(Py_Main+0x456)[0x63dc06]
python(main+0xe1)[0x4cfb91]
/lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f420853e830]
python(_start+0x29)[0x5d53c9]
======= Memory map: ========
00400000-007a7000 r-xp 00000000 08:02 9569867                            /home/jerome/.virtualenvs/py_3/bin/python3
009a7000-009a9000 r--p 003a7000 08:02 9569867                            /home/jerome/.virtualenvs/py_3/bin/python3
009a9000-00a40000 rw-p 003a9000 08:02 9569867                            /home/jerome/.virtualenvs/py_3/bin/python3
00a40000-00a71000 rw-p 00000000 00:00 0
011e9000-02639000 rw-p 00000000 00:00 0                                  [heap]
7f41741b4000-7f41b41b5000 rw-p 00000000 00:00 0
7f41ec000000-7f41ec021000 rw-p 00000000 00:00 0
7f41ec021000-7f41f0000000 ---p 00000000 00:00 0
7f41f37bc000-7f41f3dbd000 rw-p 00000000 00:00 0
7f41f3dbd000-7f41f48a0000 rw-p 00000000 00:00 0
7f41f48a0000-7f41f48b2000 r-xp 00000000 08:02 9585894                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/testing.cpython-35m-x86_64-linux-gnu.so
7f41f48b2000-7f41f4ab1000 ---p 00012000 08:02 9585894                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/testing.cpython-35m-x86_64-linux-gnu.so
7f41f4ab1000-7f41f4ab3000 rw-p 00011000 08:02 9585894                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/testing.cpython-35m-x86_64-linux-gnu.so
7f41f4ab3000-7f41f4c73000 rw-p 00000000 00:00 0
7f41f4c73000-7f41f4c74000 r-xp 00000000 08:02 9585711                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/util/_move.cpython-35m-x86_64-linux-gnu.so
7f41f4c74000-7f41f4e74000 ---p 00001000 08:02 9585711                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/util/_move.cpython-35m-x86_64-linux-gnu.so
7f41f4e74000-7f41f4e75000 rw-p 00001000 08:02 9585711                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/util/_move.cpython-35m-x86_64-linux-gnu.so
7f41f4e75000-7f41f4e8a000 r-xp 00000000 08:02 9585801                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/io/msgpack/_unpacker.cpython-35m-x86_64-linux-gnu.so
7f41f4e8a000-7f41f5089000 ---p 00015000 08:02 9585801                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/io/msgpack/_unpacker.cpython-35m-x86_64-linux-gnu.so
7f41f5089000-7f41f508c000 rw-p 00014000 08:02 9585801                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/io/msgpack/_unpacker.cpython-35m-x86_64-linux-gnu.so
7f41f508c000-7f41f509b000 r-xp 00000000 08:02 9585799                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/io/msgpack/_packer.cpython-35m-x86_64-linux-gnu.so
7f41f509b000-7f41f529b000 ---p 0000f000 08:02 9585799                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/io/msgpack/_packer.cpython-35m-x86_64-linux-gnu.so
7f41f529b000-7f41f529d000 rw-p 0000f000 08:02 9585799                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/io/msgpack/_packer.cpython-35m-x86_64-linux-gnu.so
7f41f529d000-7f41f535d000 rw-p 00000000 00:00 0
7f41f535d000-7f41f5373000 r-xp 00000000 08:02 9585888                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/json.cpython-35m-x86_64-linux-gnu.so
7f41f5373000-7f41f5573000 ---p 00016000 08:02 9585888                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/json.cpython-35m-x86_64-linux-gnu.so
7f41f5573000-7f41f5574000 rw-p 00016000 08:02 9585888                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/json.cpython-35m-x86_64-linux-gnu.so
7f41f5574000-7f41f55b4000 rw-p 00000000 00:00 0
7f41f55b4000-7f41f5637000 r-xp 00000000 08:02 9585895                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/parsers.cpython-35m-x86_64-linux-gnu.so
7f41f5637000-7f41f5837000 ---p 00083000 08:02 9585895                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/parsers.cpython-35m-x86_64-linux-gnu.so
7f41f5837000-7f41f583d000 rw-p 00083000 08:02 9585895                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/parsers.cpython-35m-x86_64-linux-gnu.so
7f41f583d000-7f41f58bf000 rw-p 00000000 00:00 0
7f41f58bf000-7f41f58d8000 r-xp 00000000 08:02 9585900                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/reshape.cpython-35m-x86_64-linux-gnu.so
7f41f58d8000-7f41f5ad8000 ---p 00019000 08:02 9585900                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/reshape.cpython-35m-x86_64-linux-gnu.so
7f41f5ad8000-7f41f5adb000 rw-p 00019000 08:02 9585900                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/reshape.cpython-35m-x86_64-linux-gnu.so
7f41f5adb000-7f41f5b1b000 rw-p 00000000 00:00 0
7f41f5b1b000-7f41f5bb0000 r-xp 00000000 08:02 9585891                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/groupby.cpython-35m-x86_64-linux-gnu.so
7f41f5bb0000-7f41f5daf000 ---p 00095000 08:02 9585891                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/groupby.cpython-35m-x86_64-linux-gnu.so
7f41f5daf000-7f41f5db5000 rw-p 00094000 08:02 9585891                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/groupby.cpython-35m-x86_64-linux-gnu.so
7f41f5db5000-7f41f5eb7000 rw-p 00000000 00:00 0
7f41f5eb7000-7f41f5ee4000 r-xp 00000000 08:02 9830674                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/matplotlib/_path.cpython-35m-x86_64-linux-gnu.so
7f41f5ee4000-7f41f60e4000 ---p 0002d000 08:02 9830674                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/matplotlib/_path.cpython-35m-x86_64-linux-gnu.so
7f41f60e4000-7f41f60e5000 rw-p 0002d000 08:02 9830674                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/matplotlib/_path.cpython-35m-x86_64-linux-gnu.so
7f41f60e5000-7f41f62a6000 rw-p 00000000 00:00 0
7f41f62a6000-7f41f6342000 r-xp 00000000 08:02 9585886                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/window.cpython-35m-x86_64-linux-gnu.so
7f41f6342000-7f41f6542000 ---p 0009c000 08:02 9585886                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/window.cpython-35m-x86_64-linux-gnu.so
7f41f6542000-7f41f6549000 rw-p 0009c000 08:02 9585886                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/window.cpython-35m-x86_64-linux-gnu.so
7f41f6549000-7f41f660b000 rw-p 00000000 00:00 0
7f41f660b000-7f41f6610000 r-xp 00000000 08:02 1446109                    /usr/lib/python3.5/lib-dynload/mmap.cpython-35m-x86_64-linux-gnu.so
7f41f6610000-7f41f6810000 ---p 00005000 08:02 1446109                    /usr/lib/python3.5/lib-dynload/mmap.cpython-35m-x86_64-linux-gnu.so
7f41f6810000-7f41f6811000 r--p 00005000 08:02 1446109                    /usr/lib/python3.5/lib-dynload/mmap.cpython-35m-x86_64-linux-gnu.so
7f41f6811000-7f41f6812000 rw-p 00006000 08:02 1446109                    /usr/lib/python3.5/lib-dynload/mmap.cpython-35m-x86_64-linux-gnu.so
7f41f6812000-7f41f6819000 r-xp 00000000 08:02 1446128                    /usr/lib/python3.5/lib-dynload/_csv.cpython-35m-x86_64-linux-gnu.so
7f41f6819000-7f41f6a19000 ---p 00007000 08:02 1446128                    /usr/lib/python3.5/lib-dynload/_csv.cpython-35m-x86_64-linux-gnu.so
7f41f6a19000-7f41f6a1a000 r--p 00007000 08:02 1446128                    /usr/lib/python3.5/lib-dynload/_csv.cpython-35m-x86_64-linux-gnu.so
7f41f6a1a000-7f41f6a1c000 rw-p 00008000 08:02 1446128                    /usr/lib/python3.5/lib-dynload/_csv.cpython-35m-x86_64-linux-gnu.so
7f41f6a1c000-7f41f6a5c000 rw-p 00000000 00:00 0
7f41f6a5c000-7f41f6b41000 r-xp 00000000 08:02 9585896                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/sparse.cpython-35m-x86_64-linux-gnu.so
7f41f6b41000-7f41f6d41000 ---p 000e5000 08:02 9585896                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/sparse.cpython-35m-x86_64-linux-gnu.so
7f41f6d41000-7f41f6d46000 rw-p 000e5000 08:02 9585896                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/sparse.cpython-35m-x86_64-linux-gnu.so
7f41f6d46000-7f41f6dc6000 rw-p 00000000 00:00 0
7f41f6dc6000-7f41f6dd7000 r-xp 00000000 08:02 1446142                    /usr/lib/python3.5/lib-dynload/_json.cpython-35m-x86_64-linux-gnu.so
7f41f6dd7000-7f41f6fd6000 ---p 00011000 08:02 1446142                    /usr/lib/python3.5/lib-dynload/_json.cpython-35m-x86_64-linux-gnu.so
7f41f6fd6000-7f41f6fd7000 r--p 00010000 08:02 1446142                    /usr/lib/python3.5/lib-dynload/_json.cpython-35m-x86_64-linux-gnu.so
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7f41f808e000-7f41f828e000 ---p 00172000 08:02 1183466                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f41f828e000-7f41f8298000 r--p 00172000 08:02 1183466                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f41f8298000-7f41f829a000 rw-p 0017c000 08:02 1183466                    /usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.21
7f41f829a000-7f41f829e000 rw-p 00000000 00:00 0
7f41f829e000-7f41f82e1000 r-xp 00000000 08:02 9709725                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/numexpr/interpreter.cpython-35m-x86_64-linux-gnu.so
7f41f82e1000-7f41f84e1000 ---p 00043000 08:02 9709725                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/numexpr/interpreter.cpython-35m-x86_64-linux-gnu.so
7f41f84e1000-7f41f84e2000 rw-p 00043000 08:02 9709725                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/numexpr/interpreter.cpython-35m-x86_64-linux-gnu.so
7f41f84e2000-7f41f8586000 rw-p 00000000 00:00 0
7f41f8586000-7f41f87b7000 r-xp 00000000 08:02 9585884                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/join.cpython-35m-x86_64-linux-gnu.so
7f41f87b7000-7f41f89b6000 ---p 00231000 08:02 9585884                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/join.cpython-35m-x86_64-linux-gnu.so
7f41f89b6000-7f41f89bf000 rw-p 00230000 08:02 9585884                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/join.cpython-35m-x86_64-linux-gnu.so
7f41f89bf000-7f41f89c1000 rw-p 00000000 00:00 0
7f41f89c1000-7f41f8a19000 r-xp 00000000 08:02 9585898                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/index.cpython-35m-x86_64-linux-gnu.so
7f41f8a19000-7f41f8c18000 ---p 00058000 08:02 9585898                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/index.cpython-35m-x86_64-linux-gnu.so
7f41f8c18000-7f41f8c1d000 rw-p 00057000 08:02 9585898                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/index.cpython-35m-x86_64-linux-gnu.so
7f41f8c1d000-7f41f8cdf000 rw-p 00000000 00:00 0
7f41f8cdf000-7f41f8cec000 r-xp 00000000 08:02 9585899                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/hashing.cpython-35m-x86_64-linux-gnu.so
7f41f8cec000-7f41f8eeb000 ---p 0000d000 08:02 9585899                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/hashing.cpython-35m-x86_64-linux-gnu.so
7f41f8eeb000-7f41f8eed000 rw-p 0000c000 08:02 9585899                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/hashing.cpython-35m-x86_64-linux-gnu.so
7f41f8eed000-7f41f8f6d000 rw-p 00000000 00:00 0
7f41f8f6d000-7f41f90c9000 r-xp 00000000 08:02 9585885                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/algos.cpython-35m-x86_64-linux-gnu.so
7f41f90c9000-7f41f92c8000 ---p 0015c000 08:02 9585885                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/algos.cpython-35m-x86_64-linux-gnu.so
7f41f92c8000-7f41f92d4000 rw-p 0015b000 08:02 9585885                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/algos.cpython-35m-x86_64-linux-gnu.so
7f41f92d4000-7f41f9458000 rw-p 00000000 00:00 0
7f41f9458000-7f41f948f000 r-xp 00000000 08:02 1188394                    /usr/lib/x86_64-linux-gnu/libmpdec.so.2.4.2
7f41f948f000-7f41f968e000 ---p 00037000 08:02 1188394                    /usr/lib/x86_64-linux-gnu/libmpdec.so.2.4.2
7f41f968e000-7f41f968f000 r--p 00036000 08:02 1188394                    /usr/lib/x86_64-linux-gnu/libmpdec.so.2.4.2
7f41f968f000-7f41f9690000 rw-p 00037000 08:02 1188394                    /usr/lib/x86_64-linux-gnu/libmpdec.so.2.4.2
7f41f9690000-7f41f96b4000 r-xp 00000000 08:02 1446116                    /usr/lib/python3.5/lib-dynload/_decimal.cpython-35m-x86_64-linux-gnu.so
7f41f96b4000-7f41f98b3000 ---p 00024000 08:02 1446116                    /usr/lib/python3.5/lib-dynload/_decimal.cpython-35m-x86_64-linux-gnu.so
7f41f98b3000-7f41f98b4000 r--p 00023000 08:02 1446116                    /usr/lib/python3.5/lib-dynload/_decimal.cpython-35m-x86_64-linux-gnu.so
7f41f98b4000-7f41f98bd000 rw-p 00024000 08:02 1446116                    /usr/lib/python3.5/lib-dynload/_decimal.cpython-35m-x86_64-linux-gnu.so
7f41f98bd000-7f41f9a19000 r-xp 00000000 08:02 9585897                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/interval.cpython-35m-x86_64-linux-gnu.so
7f41f9a19000-7f41f9c18000 ---p 0015c000 08:02 9585897                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/interval.cpython-35m-x86_64-linux-gnu.so
7f41f9c18000-7f41f9c24000 rw-p 0015b000 08:02 9585897                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/interval.cpython-35m-x86_64-linux-gnu.so
7f41f9c24000-7f41f9c26000 rw-p 00000000 00:00 0
7f41f9c26000-7f41f9d24000 r-xp 00000000 08:02 9585893                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/lib.cpython-35m-x86_64-linux-gnu.so
7f41f9d24000-7f41f9f23000 ---p 000fe000 08:02 9585893                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/lib.cpython-35m-x86_64-linux-gnu.so
7f41f9f23000-7f41f9f31000 rw-p 000fd000 08:02 9585893                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/lib.cpython-35m-x86_64-linux-gnu.so
7f41f9f31000-7f41f9f35000 rw-p 00000000 00:00 0
7f41f9f35000-7f41f9fb3000 r-xp 00000000 08:02 9585892                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/hashtable.cpython-35m-x86_64-linux-gnu.so
7f41f9fb3000-7f41fa1b2000 ---p 0007e000 08:02 9585892                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/hashtable.cpython-35m-x86_64-linux-gnu.so
7f41fa1b2000-7f41fa1b9000 rw-p 0007d000 08:02 9585892                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/hashtable.cpython-35m-x86_64-linux-gnu.so
7f41fa1b9000-7f41fa1fa000 rw-p 00000000 00:00 0
7f41fa1fa000-7f41fa381000 r-xp 00000000 08:02 9585890                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/tslib.cpython-35m-x86_64-linux-gnu.so
7f41fa381000-7f41fa580000 ---p 00187000 08:02 9585890                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/tslib.cpython-35m-x86_64-linux-gnu.so
7f41fa580000-7f41fa594000 rw-p 00186000 08:02 9585890                    /home/jerome/.virtualenvs/py_3/lib/python3.5/site-packages/pandas/_libs/tslib.cpython-35m-x86_64-linux-gnu.so
7f41fa594000-7f41fa61a000 rw-p 00000000 00:00 0
7f41fa61a000-7f41fa678000 r-xp 00000000 08:02 14420929                   /lib/x86_64-linux-gnu/libssl.so.1.0.0
7f41fa678000-7f41fa878000 ---p 0005e000 08:02 14420929                   /lib/x86_64-linux-gnu/libssl.so.1.0.0
7f41fa878000-7f41fa87c000 r--p 0005e000 08:02 14420929                   /lib/x86_64-linux-gnu/libssl.so.1.0.0
7f41fa87c000-7f41fa883000 rw-p 00062000 08:02 14420929                   /lib/x86_64-linux-gnu/libssl.so.1.0.0
7f41fa883000-7f41fa89a000 r-xp 00000000 08:02 1442967                    /usr/lib/python3.5/lib-dynload/_ssl.cpython-35m-x86_64-linux-gnu.so
7f41fa89a000-7f41faa9a000 ---p 00017000 08:02 1442967                    /usr/lib/python3.5/lib-dynload/_ssl.cpython-35m-x86_64-linux-gnu.so
7f41faa9a000-7f41faa9b000 r--p 00017000 08:02 1442967                    /usr/lib/python3.5/lib-dynload/_ssl.cpython-35m-x86_64-linux-gnu.so
7f41faa9b000-7f41faaa0000 rw-p 00018000 08:02 1442967                    /usr/lib/python3.5/lib-dynload/_ssl.cpython-35m-x86_64-linux-gnu.so
7f41faaa0000-7f41fac20000 rw-p 00000000 00:00 0
7f41fac20000-7f41fac21000 r-xp 00000000 08:02 1442966                    /usr/lib/python3.5/lib-dynload/_opcode.cpython-35m-x86_64-linux-gnu.so
7f41fac21000-7f41fae20000 ---p 00001000 08:02 1442966                    /usr/lib/python3.5/lib-dynload/_opcode.cpython-35m-x86_64-linux-gnu.so[1]    4490
 abort (core dumped)  python pd_segfault.py

@jreback
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jreback commented Sep 22, 2017

try a newer version 0.20.3 and master

@jeromedockes
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same issue with 0.20.3 but not on master. Sorry, I should have checked that first

@jreback
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jreback commented Sep 22, 2017

np @jeromedockes great!

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BUG: memory access bug in read_csv causing segfault behzadnouri/pandas
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@cstenac @jreback @dsm054 @guyrt @tommyengstrom @jeromedockes