遺伝研のスパコンでローカルにminiconda3をインストールして使っていたら、condaのbaseとenvのパスが、システムのパス(/opt/)になってしまったときの解決法。理由は、単にconda deactivate baseをしてしまったこと、かもしれない。

スパコンでのminiconda3のインストール　https://sc.ddbj.nig.ac.jp/software/python/

$ conda info

   active environment : base
  active env location : /opt/pkg/intel/oneapi/intelpython/latest
      shell level : 1
    user config file : /home/hoge/.condarc
 populated config files : /opt/pkg/intel/oneapi/intelpython/latest/.condarc
             /home/hoge/.condarc
     conda version : 4.11.0
  conda-build version : not installed
     python version : 3.9.10.final.0
    virtual packages : __linux=3.10.0=0
             __glibc=2.17=0
             __unix=0=0
             __archspec=1=x86_64
    base environment : /opt/pkg/intel/oneapi/intelpython/latest (read only)
   conda av data dir : /opt/pkg/intel/oneapi/intelpython/latest/etc/conda
 conda av metadata url : None
      channel URLs : 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
             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
             file:///opt/pkg/intel/oneapi/conda_channel/linux-64
             file:///opt/pkg/intel/oneapi/conda_channel/noarch
             https://conda.anaconda.org/intel/linux-64
             https://conda.anaconda.org/intel/noarch
     package cache : /opt/pkg/intel/oneapi/intelpython/latest/pkgs
             /home/hoge/.conda/pkgs
    envs directories : /home/hoge/.conda/envs
             /opt/pkg/intel/oneapi/intelpython/latest/envs
        platform : linux-64
       user-agent : conda/4.11.0 requests/2.28.1 CPython/3.9.10 Linux/3.10.0-1160.el7.x86_64 centos/7.9.2009 glibc/2.17
        UID:GID : 3167:10805
       netrc file : None
      offline mode : False

解決法

$ source /home/hoge/miniconda3/etc/profile.d/conda.sh

実はsourceを使う方法は上記のスパコンのページで紹介しているので、それに従えば良かっただけ。
conda initではうまくいかないので注意。