Error when importing Geopandas: OSError: Could not find lib c or load any of its variants [].

[CleHou]

Issue: when importing geopandas, as usual, I get the following errors:

  File "/Users/Clement/Documents/Projets spéciaux/Suivi data/suivi_data_v1.py", line 374, in <module>
    import geopandas

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/geopandas/__init__.py", line 1, in <module>
    from geopandas.geoseries import GeoSeries  # noqa

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/geopandas/geoseries.py", line 12, in <module>
    from shapely.geometry.base import BaseGeometry

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/shapely/geometry/__init__.py", line 4, in <module>
    from .base import CAP_STYLE, JOIN_STYLE

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/shapely/geometry/base.py", line 17, in <module>
    from shapely.coords import CoordinateSequence

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/shapely/coords.py", line 8, in <module>
    from shapely.geos import lgeos

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/shapely/geos.py", line 113, in <module>
    free = load_dll('c').free

  File "/Users/Clement/opt/anaconda3/lib/python3.8/site-packages/shapely/geos.py", line 54, in load_dll
    raise OSError(

OSError: Could not find lib c or load any of its variants [].

The only thing that changed is that I updated to macOS 11.0.1.

Environment:

``` # Name Version Build Channel _anaconda_depends 2020.07 py38_0 _ipyw_jlab_nb_ext_conf 0.1.0 py38_0 alabaster 0.7.12 py_0 anaconda custom py38_1 anaconda-client 1.7.2 py38_0 anaconda-navigator 1.10.0 py38_0 anaconda-project 0.8.4 py_0 applaunchservices 0.2.1 py_0 appnope 0.1.0 py38_1001 appscript 1.1.1 py38haf1e3a3_0 argh 0.26.2 py38_0 argon2-cffi 20.1.0 py38haf1e3a3_1 asn1crypto 1.4.0 py_0 astroid 2.4.2 py38_0 astropy 4.0.2 py38haf1e3a3_0 async_generator 1.10 py_0 atomicwrites 1.4.0 py_0 attrs 20.3.0 pyhd3eb1b0_0 autopep8 1.5.4 py_0 babel 2.8.1 pyhd3eb1b0_0 backcall 0.2.0 py_0 backports 1.0 pyhd3eb1b0_2 backports.functools_lru_cache 1.6.1 pyhd3eb1b0_0 backports.shutil_get_terminal_size 1.0.0 py38_2 backports.tempfile 1.0 py_1 backports.weakref 1.0.post1 py_1 beautifulsoup4 4.9.3 pyhb0f4dca_0 bitarray 1.6.1 py38h9ed2024_0 bkcharts 0.2 py38_0 blas 1.0 mkl bleach 3.2.1 py_0 blosc 1.20.1 hab81aa3_0 bokeh 2.2.3 py38_0 boto 2.49.0 py38_0 bottleneck 1.3.2 py38hf1fa96c_1 brotlipy 0.7.0 py38haf1e3a3_1000 bzip2 1.0.8 h1de35cc_0 ca-certificates 2020.11.8 h033912b_0 conda-forge cairo 1.14.12 hc4e6be7_4 certifi 2020.11.8 py38h50d1736_0 conda-forge cffi 1.14.0 py38hb5b8e2f_0 chardet 3.0.4 py38hecd8cb5_1003 click 7.1.2 py_0 click-plugins 1.1.1 py_0 cligj 0.7.0 py38hecd8cb5_0 cloudpickle 1.6.0 py_0 clyent 1.2.2 py38_1 colorama 0.4.4 py_0 conda 4.9.2 py38h50d1736_0 conda-forge conda-build 3.20.5 py38_1 conda-env 2.6.0 1 conda-package-handling 1.7.2 py38h22f3db7_0 conda-verify 3.4.2 py_1 contextlib2 0.6.0.post1 py_0 cryptography 3.1.1 py38hddc9c9b_0 curl 7.67.0 ha441bb4_0 cycler 0.10.0 py38_0 cython 0.29.21 py38hb1e8313_0 cytoolz 0.11.0 py38haf1e3a3_0 dask 2.30.0 py_0 dask-core 2.30.0 py_0 dbus 1.13.18 h18a8e69_0 decorator 4.4.2 py_0 defusedxml 0.6.0 py_0 diff-match-patch 20200713 py_0 distributed 2.30.1 py38hecd8cb5_0 docutils 0.16 py38_1 entrypoints 0.3 py38_0 et_xmlfile 1.0.1 py_1001 expat 2.2.10 hb1e8313_2 fastcache 1.1.0 py38h1de35cc_0 filelock 3.0.12 py_0 fiona 1.8.4 py38h9a122fd_0 flake8 3.8.4 py_0 flask 1.1.2 py_0 fontconfig 2.13.0 h5d5b041_1 freetype 2.10.4 ha233b18_0 freexl 1.0.5 h1de35cc_0 fsspec 0.8.3 py_0 future 0.18.2 py38_1 gdal 2.3.3 py38hbe65578_0 geopandas 0.6.1 py_0 geos 3.7.1 h0a44026_1000 conda-forge get_terminal_size 1.0.0 h7520d66_0 gettext 0.19.8.1 h15daf44_3 gevent 20.9.0 py38haf1e3a3_0 giflib 5.1.4 h1de35cc_1 glib 2.63.1 hd977a24_0 glob2 0.7 py_0 gmp 6.1.2 hb37e062_1 gmpy2 2.0.8 py38h6ef4df4_3 greenlet 0.4.17 py38haf1e3a3_0 h5py 2.10.0 py38h3134771_0 hdf4 4.2.13 h39711bb_2 hdf5 1.10.4 hfa1e0ec_0 heapdict 1.0.1 py_0 holoviews 1.13.5 pyhd3eb1b0_0 html5lib 1.1 py_0 icu 58.2 h0a44026_3 idna 2.10 py_0 imageio 2.9.0 py_0 imagesize 1.2.0 py_0 importlib-metadata 2.0.0 py_1 importlib_metadata 2.0.0 1 iniconfig 1.1.1 py_0 intel-openmp 2019.4 233 intervaltree 3.1.0 py_0 ipykernel 5.3.4 py38h5ca1d4c_0 ipython 7.19.0 py38h01d92e1_0 ipython_genutils 0.2.0 py38_0 ipywidgets 7.5.1 py_1 isort 5.6.4 py_0 itsdangerous 1.1.0 py_0 jbig 2.1 h4d881f8_0 jdcal 1.4.1 py_0 jedi 0.17.1 py38_0 jinja2 2.11.2 py_0 joblib 0.17.0 py_0 jpeg 9b he5867d9_2 json-c 0.13.1 h3efe00b_0 json5 0.9.5 py_0 jsonschema 3.2.0 py_2 jupyter 1.0.0 py38_7 jupyter_client 6.1.7 py_0 jupyter_console 6.2.0 py_0 jupyter_core 4.6.3 py38_0 jupyterlab 2.2.6 py_0 jupyterlab_pygments 0.1.2 py_0 jupyterlab_server 1.2.0 py_0 kealib 1.4.7 hf5ed860_6 keyring 21.4.0 py38_1 kiwisolver 1.3.0 py38h23ab428_0 krb5 1.16.4 hddcf347_0 lazy-object-proxy 1.4.3 py38h1de35cc_0 lcms2 2.11 h92f6f08_0 libarchive 3.4.2 haa3ed63_0 libboost 1.67.0 hebc422b_4 libcurl 7.67.0 h051b688_0 libcxx 10.0.0 1 libdap4 3.19.1 h3d3e54a_0 libedit 3.1.20191231 h1de35cc_1 libffi 3.2.1 h0a44026_1007 libgdal 2.3.3 h0950a36_0 libgfortran 3.0.1 h93005f0_2 libiconv 1.16 h1de35cc_0 libkml 1.3.0 hbe12b63_4 liblief 0.10.1 h0a44026_0 libllvm10 10.0.1 h76017ad_5 libllvm9 9.0.1 h21ff451_1 libnetcdf 4.6.1 hd5207e6_2 libpng 1.6.37 ha441bb4_0 libpq 11.2 h051b688_0 libsodium 1.0.18 h1de35cc_0 libspatialindex 1.9.3 h0a44026_0 libspatialite 4.3.0a h644ec7d_19 libssh2 1.9.0 ha12b0ac_1 libtiff 4.1.0 hcb84e12_1 libxml2 2.9.10 h7cdb67c_3 libxslt 1.1.34 h83b36ba_0 llvm-openmp 10.0.0 h28b9765_0 llvmlite 0.34.0 py38h739e7dc_4 locket 0.2.0 py38_1 lxml 4.6.1 py38h63b7cb6_0 lz4-c 1.9.2 h79c402e_3 lzo 2.10 haf1e3a3_2 mako 1.1.3 py_0 markdown 3.3.3 py38hecd8cb5_0 markupsafe 1.1.1 py38h1de35cc_1 matplotlib 3.3.2 0 matplotlib-base 3.3.2 py38h181983e_0 mccabe 0.6.1 py38_1 mistune 0.8.4 py38h1de35cc_1001 mkl 2019.4 233 mkl-service 2.3.0 py38hfbe908c_0 mkl_fft 1.2.0 py38hc64f4ea_0 mkl_random 1.1.1 py38h959d312_0 mock 4.0.2 py_0 more-itertools 8.6.0 pyhd3eb1b0_0 mpc 1.1.0 h6ef4df4_1 mpfr 4.0.2 h9066e36_1 mpmath 1.1.0 py38_0 msgpack-python 1.0.0 py38h04f5b5a_1 multipledispatch 0.6.0 py38_0 munch 2.5.0 py_0 navigator-updater 0.2.1 py38_0 nbclient 0.5.1 py_0 nbconvert 6.0.7 py38_0 nbformat 5.0.8 py_0 ncurses 6.2 h0a44026_1 nest-asyncio 1.4.2 pyhd3eb1b0_0 networkx 2.5 py_0 nltk 3.5 py_0 nose 1.3.7 py38_1004 notebook 6.1.4 py38_0 numba 0.51.2 py38h6440ff4_1 numexpr 2.7.1 py38hce01a72_0 numpy 1.19.2 py38h456fd55_0 numpy-base 1.19.2 py38hcfb5961_0 numpydoc 1.1.0 pyhd3eb1b0_1 olefile 0.46 py_0 openjpeg 2.3.0 hb95cd4c_1 openpyxl 3.0.5 py_0 openssl 1.1.1h haf1e3a3_0 conda-forge packaging 20.4 py_0 pandas 1.1.3 py38hb1e8313_0 pandoc 2.11 h0dc7051_0 pandocfilters 1.4.3 py38hecd8cb5_1 panel 0.9.7 py_0 param 1.10.0 pyhd3eb1b0_0 parso 0.7.0 py_0 partd 1.1.0 py_0 path 15.0.0 py38_0 path.py 12.5.0 0 pathlib2 2.3.5 py38_1 pathtools 0.1.2 py_1 patsy 0.5.1 py38_0 pcre 8.44 hb1e8313_0 pep8 1.7.1 py38_0 pexpect 4.8.0 py38_1 pickleshare 0.7.5 py38_1001 pillow 8.0.1 py38h5270095_0 pip 20.2.4 py38hecd8cb5_0 pixman 0.40.0 haf1e3a3_0 pkginfo 1.6.1 py38hecd8cb5_0 pluggy 0.13.1 py38_0 ply 3.11 py38_0 poppler 0.65.0 ha097c24_1 poppler-data 0.4.10 hecd8cb5_0 proj4 5.2.0 h0a44026_1 prometheus_client 0.8.0 py_0 prompt-toolkit 3.0.8 py_0 prompt_toolkit 3.0.8 0 psutil 5.7.2 py38haf1e3a3_0 ptyprocess 0.6.0 py38_0 py 1.9.0 py_0 py-lief 0.10.1 py38haf313ee_0 pycodestyle 2.6.0 py_0 pycosat 0.6.3 py38h1de35cc_1 pycparser 2.20 py_2 pyct 0.4.8 py38_0 pycurl 7.43.0.5 py38ha12b0ac_0 pydocstyle 5.1.1 py_0 pyflakes 2.2.0 py_0 pygments 2.7.2 pyhd3eb1b0_0 pylint 2.6.0 py38_0 pyodbc 4.0.30 py38h0a44026_0 pyopenssl 19.1.0 py_1 pyparsing 2.4.7 py_0 pyproj 1.9.6 py38h9c430a6_0 pyqt 5.9.2 py38h655552a_2 pyrsistent 0.17.3 py38haf1e3a3_0 pysocks 1.7.1 py38_1 pytables 3.6.1 py38h4727e94_0 pytest 6.1.1 py38_0 python 3.8.2 hfe9666f_0 python-dateutil 2.8.1 py_0 python-jsonrpc-server 0.4.0 py_0 python-language-server 0.35.1 py_0 python-libarchive-c 2.9 py_0 python.app 2 py38_10 python_abi 3.8 1_cp38 conda-forge pytz 2020.1 py_0 pyviz_comms 0.7.6 py_0 pywavelets 1.1.1 py38haf1e3a3_2 pyyaml 5.3.1 py38haf1e3a3_1 pyzmq 19.0.2 py38hb1e8313_1 qdarkstyle 2.8.1 py_0 qt 5.9.7 h468cd18_1 qtawesome 1.0.1 py_0 qtconsole 4.7.7 py_0 qtpy 1.9.0 py_0 readline 7.0 h1de35cc_5 regex 2020.10.15 py38haf1e3a3_0 requests 2.24.0 py_0 ripgrep 12.1.1 0 rope 0.18.0 py_0 rtree 0.9.4 py38_1 ruamel_yaml 0.15.87 py38haf1e3a3_1 scikit-image 0.17.2 py38h81aa140_0 scikit-learn 0.23.2 py38h959d312_0 scipy 1.5.2 py38h2515648_0 seaborn 0.11.0 py_0 send2trash 1.5.0 py38_0 setuptools 50.3.1 py38hecd8cb5_1 shapely 1.6.4 py38he8793f5_0 simplegeneric 0.8.1 py38_2 singledispatch 3.4.0.3 py_1001 sip 4.19.8 py38h0a44026_0 six 1.15.0 py38hecd8cb5_0 snappy 1.1.8 hb1e8313_0 snowballstemmer 2.0.0 py_0 sortedcollections 1.2.1 py_0 sortedcontainers 2.2.2 py_0 soupsieve 2.0.1 py_0 sphinx 3.2.1 py_0 sphinxcontrib 1.0 py38_1 sphinxcontrib-applehelp 1.0.2 py_0 sphinxcontrib-devhelp 1.0.2 py_0 sphinxcontrib-htmlhelp 1.0.3 py_0 sphinxcontrib-jsmath 1.0.1 py_0 sphinxcontrib-qthelp 1.0.3 py_0 sphinxcontrib-serializinghtml 1.1.4 py_0 sphinxcontrib-websupport 1.2.4 py_0 spyder 4.1.5 py38_0 spyder-kernels 1.9.4 py38_0 sqlalchemy 1.3.20 py38h9ed2024_0 sqlite 3.33.0 hffcf06c_0 statsmodels 0.12.0 py38haf1e3a3_0 sympy 1.6.2 py38hecd8cb5_1 tbb 2020.3 h879752b_0 tblib 1.7.0 py_0 terminado 0.9.1 py38_0 testpath 0.4.4 py_0 threadpoolctl 2.1.0 pyh5ca1d4c_0 tifffile 2020.10.1 py38h0cf3a3e_2 tk 8.6.10 hb0a8c7a_0 toml 0.10.1 py_0 toolz 0.11.1 py_0 tornado 6.0.4 py38h1de35cc_1 tqdm 4.51.0 pyhd3eb1b0_0 traitlets 5.0.5 py_0 typing_extensions 3.7.4.3 py_0 ujson 4.0.1 py38hb1e8313_0 unicodecsv 0.14.1 py38_0 unixodbc 2.3.9 haf1e3a3_0 urllib3 1.25.11 py_0 watchdog 0.10.3 py38haf1e3a3_0 wcwidth 0.2.5 py_0 webencodings 0.5.1 py38_1 werkzeug 1.0.1 py_0 wheel 0.35.1 pyhd3eb1b0_0 widgetsnbextension 3.5.1 py38_0 wrapt 1.11.2 py38h1de35cc_0 wurlitzer 2.0.1 py38_0 xerces-c 3.2.3 h48eee30_0 xlrd 1.2.0 py_0 xlsxwriter 1.3.7 py_0 xlwings 0.20.8 py38_0 xlwt 1.3.0 py38_0 xmltodict 0.12.0 py_0 xz 5.2.5 h1de35cc_0 yaml 0.2.5 haf1e3a3_0 yapf 0.30.0 py_0 zeromq 4.3.3 hb1e8313_3 zict 2.0.0 py_0 zipp 3.4.0 pyhd3eb1b0_0 zlib 1.2.11 h1de35cc_3 zope 1.0 py38_1 zope.event 4.5.0 py38_0 zope.interface 5.1.2 py38haf1e3a3_0 zstd 1.4.5 h41d2c2f_0 ```

Details about conda and system:

``` active environment : base active env location : /Users/Clement/opt/anaconda3 shell level : 1 user config file : /Users/Clement/.condarc populated config files : /Users/Clement/.condarc conda version : 4.9.2 conda-build version : 3.20.5 python version : 3.8.2.final.0 virtual packages : __osx=10.16=0 __unix=0=0 __archspec=1=x86_64 base environment : /Users/Clement/opt/anaconda3 (writable) channel URLs : https://repo.anaconda.com/pkgs/main/osx-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/osx-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /Users/Clement/opt/anaconda3/pkgs /Users/Clement/.conda/pkgs envs directories : /Users/Clement/opt/anaconda3/envs /Users/Clement/.conda/envs platform : osx-64 user-agent : conda/4.9.2 requests/2.24.0 CPython/3.8.2 Darwin/20.1.0 OSX/10.16 UID:GID : 501:20 netrc file : None offline mode : False ```

[ocefpaf]

This is a classic channel mix issue. Just a few of your packages are from conda-forge. Please take a look at https://conda-forge.org/docs/user/tipsandtricks.html#tips-tricks

[CleHou]

Thank you for the answer but I have already tried that and it didn't change anything.

[ocefpaf]

Thank you for the answer but I have already tried that and it didn't change anything.

Please open a new issue with the updated conda list and conda info. The one you posted above does not look like you used conda-forge packages correctly as we recommend in those docs.