singularity-conda

A Singularity recipe that properly initialize a conda environment.

Singularity recipes are build using the Shell (sh) interpreter, while Conda cannot be activated with that interpreter. This recipe installs Micromamba, a faster Conda alternative, and execute the instructions provided by the user in the post.bash script using bash and a properly initialized Conda installation. The conda executable is available along the faster mamba alternative.

Build the image with

sudo singularity build conda.simg conda.def

And use with

singularity shell conda.simg