4.5 Bind paths (aka volumes)

Paths of host system mounted in the container

• Default ones, no need to mount them explicitly (for 3.7.x): $HOME , /sys:/sys , /proc:/proc, /tmp:/tmp, /var/tmp:/var/tmp, /etc/resolv.conf:/etc/resolv.conf, /etc/passwd:/etc/passwd, and $PWD https://singularity.hpcng.org/user-docs/3.7/bind_paths_and_mounts.html

For others, need to be done explicitly (syntax: host:container)

    mkdir testdir
    touch testdir/testout
    singularity shell -e -B ./testdir:/scratch fastqc-multi-bowtie.sif
    > touch /scratch/testin
    > exit
    ls -l testdir