SPM/Docker
< SPM
The SPM Wikibooks moved to https://www.fil.ion.ucl.ac.uk/spm/docs/ |
Docker edit
Docker is a container technology, performing operating-system-level virtualisation.
https://www.docker.com/
Singularity edit
Singularity is another container technology that performs operating-system-level virtualization. One of the main uses of Singularity is to bring containers and reproducibility to scientific computing and HPC.
https://sylabs.io/singularity/ https://apptainer.org/
SPM Containers edit
Official SPM12 Dockerfile and singularity.def (using the Standalone SPM):
https://github.com/spm/spm-docker https://github.com/spm/spm-docker/pkgs/container/spm-docker https://hub.docker.com/r/spmcentral/spm/
For example, to start SPM with its graphical user interface:
xhost +local:docker docker run -ti --rm -e DISPLAY=$DISPLAY -v /tmp:/tmp -v /tmp/.X11-unix:/tmp/.X11-unix spmcentral/spm fmri
If the container's root filesystem is mounted as read only (--read-only flag), you need to bind mount an extra volume:
-v /tmp/.matlab:/root/.matlab
See also edit
Neurodesk edit
https://www.neurodesk.org/
Neurodocker edit
https://github.com/ReproNim/neurodocker https://hub.docker.com/r/kaczmarj/neurodocker/
SPM BIDS-App edit
https://github.com/BIDS-Apps/SPM https://hub.docker.com/r/bids/spm/
MATLAB Dockerfile edit
https://github.com/mathworks-ref-arch/matlab-dockerfile
Singularity edit
sudo singularity build spm12.sif spm12-octave.def singularity exec spm12.sif ./spm12.sif --help