BUG: Segfault when printing dataframe

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Reproducible Example

import numpy as np
import pandas as pd

df = pd.DataFrame(np.empty((1, 33), dtype = object))

for col in df.columns:
    df[col] = np.empty_like(df[col])
    
print(df)

Issue Description

I first wanted to put out a thank you to all those that work on keeping pandas going! All of your contributions have helped so many, and I appreciate it.

When running the example code, a segfault occurs at the last line: print(df). I’m sure this wouldn’t be the recommended approach to doing this, but I wanted to give a minimal example showing the issues that I had come across. Also, note that replacing df[col] = np.empty_like(df[col]) with df[col] = np.empty(len(df), dtype = df[col].dtype) prevents the issue from arising. But, based on the output of faulthandler (see below), I opted to submit it to the pandas team.

Fatal Python error: Segmentation fault

Current thread 0x00007fabaf0ba180 (most recent call first): File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/array_algos/take.py”, line 163 in _take_nd_ndarray File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/array_algos/take.py”, line 117 in take_nd File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/internals/blocks.py”, line 1137 in take_nd File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/internals/managers.py”, line 844 in _slice_take_blocks_ax0 File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/generic.py”, line 3916 in _slice File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/indexing.py”, line 1533 in _get_slice_axis File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/indexing.py”, line 1497 in _getitem_axis File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/indexing.py”, line 827 in _getitem_tuple_same_dim File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/indexing.py”, line 1462 in _getitem_tuple File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/indexing.py”, line 961 in getitem File “/home/me/sml-env/lib/python3.10/site-packages/pandas/io/formats/format.py”, line 806 in _truncate_horizontally File “/home/me/sml-env/lib/python3.10/site-packages/pandas/io/formats/format.py”, line 790 in truncate File “/home/me/sml-env/lib/python3.10/site-packages/pandas/io/formats/string.py”, line 185 in _fit_strcols_to_terminal_width File “/home/me/sml-env/lib/python3.10/site-packages/pandas/io/formats/string.py”, line 49 in _get_string_representation File “/home/me/sml-env/lib/python3.10/site-packages/pandas/io/formats/string.py”, line 25 in to_string File “/home/me/sml-env/lib/python3.10/site-packages/pandas/io/formats/format.py”, line 1128 in to_string File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/frame.py”, line 1192 in to_string File “/home/me/sml-env/lib/python3.10/site-packages/pandas/core/frame.py”, line 1011 in repr File “/home/me/test.py”, line 13 in <module>

Extension modules: numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, pandas._libs.tslibs.dtypes, pandas._libs.tslibs.base, pandas._libs.tslibs.np_datetime, pandas._libs.tslibs.nattype, pandas._libs.tslibs.timezones, pandas._libs.tslibs.ccalendar, pandas._libs.tslibs.tzconversion, pandas._libs.tslibs.strptime, pandas._libs.tslibs.fields, pandas._libs.tslibs.timedeltas, pandas._libs.tslibs.timestamps, pandas._libs.properties, pandas._libs.tslibs.offsets, pandas._libs.tslibs.parsing, pandas._libs.tslibs.conversion, pandas._libs.tslibs.period, pandas._libs.tslibs.vectorized, pandas._libs.ops_dispatch, pandas._libs.missing, pandas._libs.hashtable, pandas._libs.algos, pandas._libs.interval, pandas._libs.tslib, pandas._libs.lib, pandas._libs.hashing, pandas._libs.ops, pandas._libs.arrays, pandas._libs.index, pandas._libs.join, pandas._libs.sparse, pandas._libs.reduction, pandas._libs.indexing, pandas._libs.internals, pandas._libs.writers, pandas._libs.window.aggregations, pandas._libs.window.indexers, pandas._libs.reshape, pandas._libs.groupby, pandas._libs.testing, pandas._libs.parsers, pandas._libs.json (total: 54)

Expected Behavior

I would expect the dataframe would be able to print after updating the columns.

Installed Versions

INSTALLED VERSIONS

commit : 4bfe3d07b4858144c219b9346329027024102ab6 python : 3.10.4.final.0 python-bits : 64 OS : Linux OS-release : 5.4.72-microsoft-standard-WSL2 Version : #1 SMP Wed Oct 28 23:40:43 UTC 2020 machine : x86_64 processor : x86_64 byteorder : little LC_ALL : None LANG : C.UTF-8 LOCALE : en_US.UTF-8

pandas : 1.4.2 numpy : 1.22.3 pytz : 2022.1 dateutil : 2.8.2 pip : 22.0.4 setuptools : 58.1.0 Cython : None pytest : None hypothesis : None sphinx : None blosc : None feather : None xlsxwriter : None lxml.etree : None html5lib : None pymysql : None psycopg2 : None jinja2 : None IPython : None pandas_datareader: None bs4 : None bottleneck : None brotli : None fastparquet : None fsspec : None gcsfs : None markupsafe : None matplotlib : None numba : None numexpr : None odfpy : None openpyxl : None pandas_gbq : None pyarrow : None pyreadstat : None pyxlsb : None s3fs : None scipy : None snappy : None sqlalchemy : None tables : None tabulate : None xarray : None xlrd : None xlwt : None zstandard : None

[simonjayhawkins]

see https://github.com/pandas-dev/pandas/pull/47979#issuecomment-1207121498, will close once https://github.com/MacPython/pandas-wheels/pull/188 merged.

[simonjayhawkins]

closed by https://github.com/MacPython/pandas-wheels/pull/188