This is a bit of a sequel to my post last May about using conda environments with snakemake on the HPC. That solution worked for me, but was hacky and limited. This post will describe a different solution, which uses a singularity container containing a conda environment that can be …

Continue reading

NOTE: I have since come up with a solution that I like better / think is less hacky, described in this post.

NYU's new high performance computing (HPC) cluster, Greene, was put into production earlier this year and, on the new system, they want all users to use singularity containers for …

Continue reading