How to make a custom diamond database

[chasemc]

How do you make a custom diamond database for use with Autometa?

[chasemc]

The author of diamond maintains a docker image of diamond.

Choose a versioned image to pull down from here:

For this example we'll use the v2.0.9 version:

docker pull buchfink/diamond:version2.0.9

The protein fasta file I want to turn into a dmnd database is located in the directory:
home/chase/Documents/large_db
and is named:
my_fasta.faa

Replace that path and filename in the command below with your own to generate a nr.dmnd database. Also change my_dmnd_db to whatever you want the database to be named, .dmnd will be appended to this.

docker run -v /home/chase/Documents/large_db:/temp -it buchfink/diamond makedb --in /temp/my_fasta.faa --db /temp/my_dmnd_db