Picrust2 not recognized

[gmdouglas (Gavin Douglas)]

It looks like at some point that the qiime2-2020.6 environment was added to the beginning of your $PATH variable (as indicated by /home-1/[email protected]/miniconda3/envs/qiime2-2020.6/bin). This is supposed to happen when you activate the environment, but not when you're in your base conda environment.

Depending on your system you'll have a configuration file that has commands that are run every time you login (one of these most likely: .bashrc, .profile, or .bash_profile). If you check in these files was a line added so that the PATH variable is altered to point to the qiime2-2020.6 bin folder? If so then perhaps commenting out that line will solve these problems you're running into.

Cheers,

Gavin

[cjone228 (Carli Jones)]

It looks like there was a line about the qiime2-2020.6 env in the .bashrc file, which I have now commented out:

#custom permissions -------
umask 007
umask g+w

# >>> conda initialize >>>
# !! Contents within this block are managed by 'conda init' !!
__conda_setup="$('/home-1/[email protected]/miniconda3/bin/conda' 'shell.bash' 'hook' 2> /dev/null)"
if [ $? -eq 0 ]; then
    eval "$__conda_setup"
else
    if [ -f "/home-1/[email protected]/miniconda3/etc/profile.d/conda.sh" ]; then
        . "/home-1/[email protected]/miniconda3/etc/profile.d/conda.sh"
    else
        export PATH="/home-1/[email protected]/miniconda3/bin:$PATH"
    fi
fi
unset __conda_setup
# <<< conda initialize <<<

#export PATH="/home-1/[email protected]/miniconda3/envs/qiime2-2020.6/bin:$PATH"

export TMPDIR=$HOME/scratch

However, if I then say conda activate qiime2-2021.2, I still get the same error message as above:

@cjone228

(base) [[email protected]@bc-login03 ~]$ conda activate qiime2-2021.2
QIIME is caching your current deployment for improved performance. This may take a few moments and should only happen once per deployment.
Traceback (most recent call last):
  File "/home-1/[email protected]/miniconda3/envs/qiime2-2020.6/bin/qiime", line 11, in <module>
    sys.exit(qiime())
  File "/home-1/[email protected]/miniconda3/envs/qiime2-2020.6/lib/python3.6/site-packages/click/core.py", line 829, in __call__
    return self.main(*args, **kwargs)
  File "/home-1/[email protected]/miniconda3/envs/qiime2-2020.6/lib/python3.6/site-packages/click/core.py", line 781, in main
    with self.make_context(prog_name, args, **extra) as ctx:
  File "/home-1/[email protected]/mi

etc.

[gmdouglas (Gavin Douglas)]

Is this after logging out and logging back in again? Otherwise I'm out of ideas, sorry!