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@emiddell, as discussed, here's the Dockerfile I use to run cedalion on our HPC.
It is based on continuumio/miniconda3, but uses
debian:12-slimas base image instead ofdebian:bullseye-slim(debian:11-slim). This is because our specific vtk version requirement as specified inenvironment_dev.ymlneeds GLIBC 2.34 (debian:11 has GLIBC 2.31).The Dockerfile is probably not optimal, just used it as a first try to make large photon simulations with pmcx run on the HPC - the other pipelines are not tested yet.