snakemake, singularity, and HPC

Posted on Mon 01 August 2022 in posts • Tagged with hpc, python, reproducibility

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

Scripting figure creation with inkscape and python

Posted on Sat 06 November 2021 in posts • Tagged with python, science

I spent some time figuring out how to use inkscape and python to script the creation of figures that contain bitmaps, allowing for the user to specify the DPI when embedded. Normally, the way to handle this involves creating the figures directly in a vector graphics editor like inkscape or …

Continue reading