emapper 2.1.13 docker image

This is a custom Dockerfile for building an image of EggNogMapper.

I have no affiliation with EggNogMapper or the development team. I am just a user.

This image builds in ~30min and is 93.1GB large. It contains only the base database required to run emapper with Diamond2. i.e. the Dockerfile runs download_eggnog_data.py -y These are the database versions:

• emapper-2.1.13
• eggNOG DB version: 5.0.2
• diamond version: 2.1.13
• MMseqs2 version: 18.8cc5c
• Compatible novel families DB version: 1.0.1 The databases are placed in /data/eggnog-mapper-data which is available in the environment variable EGGNOG_DATA_DIR. I.e. no need to specify --data_dir

If you want to use hmmr or other advanced features, you may have to build the database yourself and supply it as a bind mount accessible via --data_dir.

Download the pre-built image from Dockerhub. Additional tags may be added sporadically.

Run with docker run --rm marklyng/emapper:2.1.13 emapper.py [ARGS] like stated in https://docs.antismash.secondarymetabolites.org/command_line/

Use --rm to stop and remove the container once it has finished running https://docs.docker.com/reference/cli/docker/container/rm/

#E.g.
docker run --rm marklyng/emapper:2.1.13 emapper.py -h

You can bind mount directories as seen fit. Again, databases are not necessary - they are included in the container. https://docs.docker.com/engine/storage/bind-mounts/

#E.g.
docker run --rm \
	-v /path/to/input:/data \
	-v /path/to/output:/output \
	marklyng/emapper:2.1.13 \
	emapper.py \
	-i /data/input.faa \
	--cpu 8 \
	--sensmode sensitive \
	--excel \
	--output-dir /output

See https://github.com/eggnogdb/eggnog-mapper/ for actual information about the software.