Legionella genome annotation
$ conda install pandas
To start the Jupyter Notebook:
$ make start-nb
To generate the site:
$ make site
To run each of the steps first, second and third:
$ make first
$ make second
$ make third
$ cd Dockerfiles/
$ docker build -t vitorenesduarte/swissprot_blast -f swissprot_blast.
This will build a docker image with blast. This docker image only has one database called swissprot. Check here more details about UniProtKB Swiss-Prot.
$ docker push vitorenesduarte/swissprot_blast
Place in a folder, for example .query_dir, a set of FASTA files and run:
$ docker run -e QUERY_DIR=.query_dir \
-e DB=swissprot -v $PWD/.query_dir:/.query_dir \
-ti vitorenesduarte/swissprot_blast
In the end, for each of the FASTA files, you should have a correspondent XML file.