conda-forge / conda-forge/python-feedstock

python 3.11 not using conda lib path when load modules

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描述

### Solution to issue cannot be found in the documentation.

- [X] I checked the documentation.

### Issue

`python3 -c 'import pandas;'` failed as "ImportError: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.29' not found (required by /share/home/uuu/micromamba/envs/n311/lib/python3.11/site-packages/pandas/_libs/window/aggregations.cpython-311-x86_64-linux-gnu.so)"

`LD_LIBRARY_PATH=/share/home/uuu/micromamba/envs/n311/lib python3 -c 'import pandas;'` works.

```
(n311) [uuu@c001 test]$ echo $LD_LIBRARY_PATH

(n311) [uuu@c001 test]$ ldd /share/home/uuu/micromamba/envs/n311/lib/python3.11/site-packages/pandas/_libs/window/aggregations.cpython-311-x86_64-linux-gnu.so
linux-vdso.so.1 (0x00007fff65a6d000)
libstdc++.so.6 => /share/home/uuu/micromamba/envs/n311/lib/python3.11/site-packages/pandas/_libs/window/../../../../../libstdc++.so.6 (0x00007f77ec0d8000)
libm.so.6 => /lib64/libm.so.6 (0x00007f77ebd56000)
libgcc_s.so.1 => /share/home/uuu/micromamba/envs/n311/lib/python3.11/site-packages/pandas/_libs/window/../../../../../libgcc_s.so.1 (0x00007f77ec469000)
libc.so.6 => /lib64/libc.so.6 (0x00007f77eb991000)
librt.so.1 => /lib64/librt.so.1 (0x00007f77eb789000)
/lib64/ld-linux-x86-64.so.2 (0x00007f77ec2bb000)
libpthread.so.0 => /lib64/libpthread.so.0 (0x00007f77eb569000)

$ readelf -d /share/home/uuu/micromamba/envs/n311/lib/python3.11/site-packages/pandas/_libs/window/aggregations.cpython-311-x86_64-linux-gnu.so

Dynamic section at offset 0x50778 contains 28 entries:
Tag Type Name/Value
0x0000000000000001 (NEEDED) Shared library: [libstdc++.so.6]
0x0000000000000001 (NEEDED) Shared library: [libm.so.6]
0x0000000000000001 (NEEDED) Shared library: [libgcc_s.so.1]
0x0000000000000001 (NEEDED) Shared library: [libc.so.6]
0x000000000000000f (RPATH) Library rpath: [$ORIGIN/../../../../..]

$ readelf -d /share/home/uuu/micromamba/envs/n311/bin/python3

Dynamic section at offset 0x44a230 contains 34 entries:
Tag Type Name/Value
0x0000000000000001 (NEEDED) Shared library: [libpthread.so.0]
0x0000000000000001 (NEEDED) Shared library: [libdl.so.2]
0x0000000000000001 (NEEDED) Shared library: [libutil.so.1]
0x0000000000000001 (NEEDED) Shared library: [libm.so.6]
0x0000000000000001 (NEEDED) Shared library: [libc.so.6]
0x0000000000000001 (NEEDED) Shared library: [librt.so.1]
0x000000000000000f (RPATH) Library rpath: [$ORIGIN/../lib]
```

It seems rpath with `$ORIGIN` not working properly.

### Installed packages

```shell
python 3.11.7 hab00c5b_1_cpython conda-forge
python_abi 3.11 4_cp311 conda-forge
pandas 2.0.3 py311h320fe9a_1 conda-forge
libstdcxx-devel_linux-64 13.2.0 ha9c7c90_103 conda-forge
libstdcxx-ng 13.2.0 h7e041cc_3 conda-forge
libsystemd0 255 h3516f8a_0 conda-forge
gcc 13.2.0 h574f8da_2 conda-forge
gcc_impl_linux-64 13.2.0 h338b0a0_3 conda-forge

... ...
```

### Environment info

```shell
libmamba version : 1.5.5
micromamba version : 1.5.5
curl version : libcurl/8.5.0 OpenSSL/3.2.0 zlib/1.2.13 zstd/1.5.5 libssh2/1.11.0 nghttp2/1.58.0
libarchive version : libarchive 3.7.2 zlib/1.2.13 bz2lib/1.0.8 libzstd/1.5.5
envs directories : /share/home/uuu/micromamba/envs
package cache : /share/home/uuu/micromamba/pkgs
/share/home/uuu/.mamba/pkgs
environment : n311 (active)
env location : /share/home/uuu/micromamba/envs/n311
user config files : /share/home/uuu/.mambarc
populated config files : /share/home/uuu/.condarc
virtual packages : __unix=0=0
__linux=4.18.0=0
__glibc=2.28=0
__archspec=1=x86_64-v4
channels : https://conda.anaconda.org/conda-forge/linux-64
https://conda.anaconda.org/conda-forge/noarch
https://conda.anaconda.org/bioconda/linux-64
https://conda.anaconda.org/bioconda/noarch
https://conda.anaconda.org/nodefaults/linux-64
https://conda.anaconda.org/nodefaults/noarch
https://conda.anaconda.org/pytorch/linux-64
https://conda.anaconda.org/pytorch/noarch
https://conda.anaconda.org/nvidia/linux-64
https://conda.anaconda.org/nvidia/noarch
https://conda.anaconda.org/intel/linux-64
https://conda.anaconda.org/intel/noarch
base environment : /share/home/uuu/micromamba
platform : linux-64
```

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