You first need to obtain a license for cryosparc via https://cryosparc.com/download/
build with your license key from cryosparc:
export CRYOSPARC_LICENSE_ID=<BLAH>
docker build --build-arg CRYOSPARC_LICENSE_ID=${CRYOSPARC_LICENSE_ID} . -t slaclab/cryosparc-docker:2.2.0
run (for testing) via
docker run -e CRYOSPARC_LICENSE_ID=${CRYOSPARC_LICENSE_ID} \
-e JUPYTERHUB_USER=ytl -e EXTERNAL_UID=7017 \
-e EXTERNAL_GROUPS=sf:1051,cryo-data:3591,bd:1124 \
-e HOMEDIRS=/gpfs/slac/cryo/fs1/u/ \
-v /gpfs/slac/cryo/fs1/u/ytl/cryosparc-v2/:/gpfs/slac/cryo/fs1/u/ \
-v /gpfs/slac/cryo/fs1/exp/:/gpfs/slac/cryo/fs1/exp/ \
-v /scratch:/scratch \
-p 39000:39000 -p 39001:39001 -p 39002:39002 -p 39003:39003 -p 39004:39004 \
slaclab/cryosparc-docker:2.2.0
notes
- to enable access to file storage, the container will drop privs to that defined by JUPYTERHUB_USER, EXTERNAL_UID and EXTERNAL_GROUPS.