jvarkit¶

According to the jvarkit GitHub repository jvarkit is 'Java utilities for Bioinformatics',

jvarkit is unavailable in the UPPMAX module system.

Create a `jvarkit` Singularity container¶

To create a Singularity container one can follow the procedure documented at 'Create a Singularity container from Docker_Hub'.

Spoiler:

sudo singularity build my_container.sif docker:lindenb/jvarkit:1b2aedf24

Note that 1b2aedf24 is the tag of the latest version of this Docker script. In the future, they may be newer tags.

Usage:

./jvarkit.sif java -jar /opt/jvarkit/dist/jvarkit.jar --help