singularity_info.md



Installation of neurodocker -> https://www.repronim.org/neurodocker/user_guide/quickstart.html

miniconda3
conda create -n neurodocker python=3.9
conda activate neurodocker
python -m pip install neurodocker
neurodocker --help
source activate neurodocker
ssh comps08h04
cd /tmp/neurodocker

Generate singularity image
neurodocker generate singularity 

--pkg-manager apt 

--base-image neurodebian:bullseye

--freesurfer version=7.3.0 

--miniconda version=latest conda_install="python==3.10.13 nipype==1.8.6 nibabel==5.2.0 numpy=1.26.3 pandas==2.1.4" 

--user nonroot > becon

building a new image using the Singularity file
export SINGULARITY_TMPDIR=/tmp/TMP
export SINGULARITY_CACHEDIR=/tmp/CACHE
singularity build --fakeroot bullseye.sif becon
Container located here because of huge size: /data/pt_life/bullseye.sif (4.5 GB)