mamba env create stalls

[nick-youngblut]

Bug report

If using:

conda {
        conda.enabled          = true
        conda.useMamba         = true
        docker.enabled         = false
        singularity.enabled    = false
        podman.enabled         = false
        shifter.enabled        = false
        charliecloud.enabled   = false
    }

...the pipeline stalls at creating the conda env Creating env using mamba forever (at least >=30 minutes).

If I set useMamba = false, the conda env is created within ~1 minute.

So, the issue is caused by mamba.

Expected behavior and actual behavior

mamba should be creating the conda env rapidly (faster than conda, in most situations).

Steps to reproduce the problem

See above. I'm using a GCP VM with 8 CPUs, 16 Gb of mem, and Ubuntu 22.04.5.

Environment

• Nextflow version: 24.10.2
• Java version: 21.0.0
• Operating system: Ubuntu 22.04.5
• Bash version: 5.1.16

Additional context

# >>> conda initialize >>>
# !! Contents within this block are managed by 'conda init' !!
__conda_setup="$('/home/nickyoungblut/miniforge3/bin/conda' 'shell.bash' 'hook' 2> /dev/null)"
if [ $? -eq 0 ]; then
    eval "$__conda_setup"
else
    if [ -f "/home/nickyoungblut/miniforge3/etc/profile.d/conda.sh" ]; then
        . "/home/nickyoungblut/miniforge3/etc/profile.d/conda.sh"
    else
        export PATH="/home/nickyoungblut/miniforge3/bin:$PATH"
    fi
fi
unset __conda_setup

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