Linux Installation Bugs for tcsh

[cbanken]

Solution to issue cannot be found in the documentation.

• I checked the documentation.

Issue

Installation on Linux RHEL 7.9 with tcsh created a .tcshrc file with multiple syntax errors. The .tcshrc file was called with priority over my .cshrc initialization script in all my new shells. So the errors prevented my initialization of new shells from working until I determined the erroneous .tcshrc file that had been created.

The 2nd if-clause in the script uses bash syntax with "." for source, an unnecessary ";" and "fi" instead of "endif" to name a few issues.

# >>> conda initialize >>>
# !! Contents within this block are managed by 'conda init' !!
if ( -f "/home/cbanken/miniforge3/etc/profile.d/conda.csh" ) then
    source "/home/cbanken/miniforge3/etc/profile.d/conda.csh"
else
    setenv PATH "/home/cbanken/miniforge3/bin:$PATH"
endif

if [ -f "/home/cbanken/miniforge3/etc/profile.d/mamba.sh" ]; then
    . "/home/cbanken/miniforge3/etc/profile.d/mamba.sh"
fi
# <<< conda initialize <<<

Installed packages

# packages in environment at /home/cbanken/miniforge3:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       2_gnu    conda-forge
archspec                  0.2.3              pyhd8ed1ab_0    conda-forge
boltons                   24.0.0             pyhd8ed1ab_0    conda-forge
brotli-python             1.1.0           py310hc6cd4ac_1    conda-forge
bzip2                     1.0.8                hd590300_5    conda-forge
c-ares                    1.28.1               hd590300_0    conda-forge
ca-certificates           2024.2.2             hbcca054_0    conda-forge
certifi                   2024.2.2           pyhd8ed1ab_0    conda-forge
cffi                      1.16.0          py310h2fee648_0    conda-forge
charset-normalizer        3.3.2              pyhd8ed1ab_0    conda-forge
colorama                  0.4.6              pyhd8ed1ab_0    conda-forge
conda                     24.3.0          py310hff52083_0    conda-forge
conda-libmamba-solver     24.1.0             pyhd8ed1ab_0    conda-forge
conda-package-handling    2.2.0              pyh38be061_0    conda-forge
conda-package-streaming   0.9.0              pyhd8ed1ab_0    conda-forge
distro                    1.9.0              pyhd8ed1ab_0    conda-forge
fmt                       10.2.1               h00ab1b0_0    conda-forge
icu                       73.2                 h59595ed_0    conda-forge
idna                      3.6                pyhd8ed1ab_0    conda-forge
jsonpatch                 1.33               pyhd8ed1ab_0    conda-forge
jsonpointer               2.4             py310hff52083_3    conda-forge
keyutils                  1.6.1                h166bdaf_0    conda-forge
krb5                      1.21.2               h659d440_0    conda-forge
ld_impl_linux-64          2.40                 h41732ed_0    conda-forge
libarchive                3.7.2                h2aa1ff5_1    conda-forge
libcurl                   8.7.1                hca28451_0    conda-forge
libedit                   3.1.20191231         he28a2e2_2    conda-forge
libev                     4.33                 hd590300_2    conda-forge
libffi                    3.4.2                h7f98852_5    conda-forge
libgcc-ng                 13.2.0               h807b86a_5    conda-forge
libgomp                   13.2.0               h807b86a_5    conda-forge
libiconv                  1.17                 hd590300_2    conda-forge
libmamba                  1.5.8                had39da4_0    conda-forge
libmambapy                1.5.8           py310h39ff949_0    conda-forge
libnghttp2                1.58.0               h47da74e_1    conda-forge
libnsl                    2.0.1                hd590300_0    conda-forge
libsolv                   0.7.28               hfc55251_2    conda-forge
libsqlite                 3.45.2               h2797004_0    conda-forge
libssh2                   1.11.0               h0841786_0    conda-forge
libstdcxx-ng              13.2.0               h7e041cc_5    conda-forge
libuuid                   2.38.1               h0b41bf4_0    conda-forge
libxcrypt                 4.4.36               hd590300_1    conda-forge
libxml2                   2.12.6               h232c23b_1    conda-forge
libzlib                   1.2.13               hd590300_5    conda-forge
lz4-c                     1.9.4                hcb278e6_0    conda-forge
lzo                       2.10              h516909a_1000    conda-forge
mamba                     1.5.8           py310h51d5547_0    conda-forge
menuinst                  2.0.2           py310hff52083_0    conda-forge
ncurses                   6.4.20240210         h59595ed_0    conda-forge
openssl                   3.2.1                hd590300_1    conda-forge
packaging                 24.0               pyhd8ed1ab_0    conda-forge
pip                       24.0               pyhd8ed1ab_0    conda-forge
platformdirs              4.2.0              pyhd8ed1ab_0    conda-forge
pluggy                    1.4.0              pyhd8ed1ab_0    conda-forge
pybind11-abi              4                    hd8ed1ab_3    conda-forge
pycosat                   0.6.6           py310h2372a71_0    conda-forge
pycparser                 2.22               pyhd8ed1ab_0    conda-forge
pysocks                   1.7.1              pyha2e5f31_6    conda-forge
python                    3.10.14         hd12c33a_0_cpython    conda-forge
python_abi                3.10                    4_cp310    conda-forge
readline                  8.2                  h8228510_1    conda-forge
reproc                    14.2.4.post0         hd590300_1    conda-forge
reproc-cpp                14.2.4.post0         h59595ed_1    conda-forge
requests                  2.31.0             pyhd8ed1ab_0    conda-forge
ruamel.yaml               0.18.6          py310h2372a71_0    conda-forge
ruamel.yaml.clib          0.2.8           py310h2372a71_0    conda-forge
setuptools                69.5.1             pyhd8ed1ab_0    conda-forge
tk                        8.6.13          noxft_h4845f30_101    conda-forge
tqdm                      4.66.2             pyhd8ed1ab_0    conda-forge
truststore                0.8.0              pyhd8ed1ab_0    conda-forge
tzdata                    2024a                h0c530f3_0    conda-forge
urllib3                   2.2.1              pyhd8ed1ab_0    conda-forge
wheel                     0.43.0             pyhd8ed1ab_1    conda-forge
xz                        5.2.6                h166bdaf_0    conda-forge
yaml-cpp                  0.8.0                h59595ed_0    conda-forge
zstandard                 0.22.0          py310h1275a96_0    conda-forge
zstd                      1.5.5                hfc55251_0    conda-forge

Environment info

base) [cbanken@velmktg-vsyn114 ~]$ conda info

     active environment : base
    active env location : /home/cbanken/miniforge3
            shell level : 1
       user config file : /home/cbanken/.condarc
 populated config files : /home/cbanken/miniforge3/.condarc
                          /home/cbanken/.condarc
          conda version : 24.3.0
    conda-build version : not installed
         python version : 3.10.14.final.0
                 solver : libmamba (default)
       virtual packages : __archspec=1=cascadelake
                          __conda=24.3.0=0
                          __glibc=2.28=0
                          __linux=4.18.0=0
                          __unix=0=0
       base environment : /home/cbanken/miniforge3  (writable)
      conda av data dir : /home/cbanken/miniforge3/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
          package cache : /home/cbanken/miniforge3/pkgs
                          /home/cbanken/.conda/pkgs
       envs directories : /home/cbanken/miniforge3/envs
                          /home/cbanken/.conda/envs
               platform : linux-64
             user-agent : conda/24.3.0 requests/2.31.0 CPython/3.10.14 Linux/4.18.0-240.el8.x86_64 rhel/8.3 glibc/2.28 solver/libmamba conda-libmamba-solver/24.1.0 libmambapy/1.5.8
                UID:GID : 53703:40778
             netrc file : None
           offline mode : False

[jaimergp]

This is coming from mamba 1.x initialization routines. If you typed mamba init then, that's what the code does, since they don't seem to support (t)csh. I think micromamba and mamba 2.x will do, though.

If the meantime, you can remove the conda initialize block and run /home/cbanken/miniforge3/bin/conda init instead. This will allow you to do conda activate.