jr3cermak
commented
2 years ago Reloading an environment that was previously stated as working may yield a result like this:
(gridtest) jrcermakiii@chinook03:~/src/gridtools/examples$ python mkGridsExample01.py
Traceback (most recent call last):
File "mkGridsExample01.py", line 12, in <module>
from gridtools.gridutils import GridUtils
File "/import/AKWATERS/jrcermakiii/src/gridtools/gridtools/gridutils.py", line 5, in <module>
import xarray as xr
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/xarray/__init__.py", line 1, in <module>
from . import testing, tutorial, ufuncs
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/xarray/testing.py", line 8, in <module>
from xarray.core import duck_array_ops, formatting, utils
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/xarray/core/duck_array_ops.py", line 13, in <module>
import pandas as pd
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/__init__.py", line 22, in <module>
from pandas.compat import (
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/compat/__init__.py", line 15, in <module>
from pandas.compat.numpy import (
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/compat/numpy/__init__.py", line 7, in <module>
from pandas.util.version import Version
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/util/__init__.py", line 1, in <module>
from pandas.util._decorators import ( # noqa
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/util/_decorators.py", line 14, in <module>
from pandas._libs.properties import cache_readonly # noqa
File "/import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/_libs/__init__.py", line 13, in <module>
from pandas._libs.interval import Interval
ImportError: /lib64/libc.so.6: version `GLIBC_2.14' not found (required by /import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest/lib/python3.7/site-packages/pandas/_libs/interval.cpython-37m-x86_64-linux-gnu.so)This is an indication that the underlying system (or cluster) you are using is falling out of date. The supported python versions of modules managed by conda are under constant integration (CI) are are rebuilt using newer systems and hence are linked to more recent versions of GLIBC. On my particular system, the underlying GLIBC is version 2.12. One or more of the loaded python modules now requires GLIBC 2.14. Unless you have a backup of the conda environment, there is no way to recover the original operating environment. You will likely have to resort to conventional manual installation of modules to restore the environment.
To see what your conda installation is using for GLIBC, use conda info. The version of glibc should be noted in the virtual packages.
$ conda info
active environment : gridtest
active env location : /import/AKWATERS/jrcermakiii/local/miniconda3/envs/gridtest
shell level : 1
user config file : /home/jrcermakiii/.condarc
populated config files : /home/jrcermakiii/.condarc
conda version : 4.9.2
conda-build version : not installed
python version : 3.9.1.final.0
virtual packages : __glibc=2.12=0
__unix=0=0
__archspec=1=x86_64
base environment : /import/AKWATERS/jrcermakiii/local/miniconda3 (writable)
channel URLs : https://conda.anaconda.org/pyviz/linux-64
https://conda.anaconda.org/pyviz/noarch
https://conda.anaconda.org/conda-forge/linux-64
https://conda.anaconda.org/conda-forge/noarch
https://repo.anaconda.com/pkgs/main/linux-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/linux-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /import/AKWATERS/jrcermakiii/local/miniconda3/pkgs
/home/jrcermakiii/.conda/pkgs
envs directories : /import/AKWATERS/jrcermakiii/local/miniconda3/envs
/home/jrcermakiii/.conda/envs
platform : linux-64
user-agent : conda/4.9.2 requests/2.25.0 CPython/3.9.1 Linux/2.6.32-754.35.1.el6.61015g0000.x86_64 centos/6.10 glibc/2.12
UID:GID : 3739:2161
netrc file : None
offline mode : False
The pinned versions of various pythonic items for gridtools still works. Conda support begins to break down when authors recompile prior versions with newer underlying operating systems. Pinned versions of compiled python modules will begin to fail on compute clusters with very old GLIBC libraries. Documentation to follow.