SequenceServer - BLAST searching made easy!

SequenceServer lets you rapidly set up a BLAST+ server with an intuitive user interface for use locally or over the web.

Please cite: Priyam A, Woodcroft BJ, Rai V, Munagala A, Moghul I, Ter F, Gibbins MA, Moon H, Leonard G, Rumpf W & Wurm Y. 2015. Sequenceserver: A modern graphical user interface for custom BLAST databases. biorxiv doi: 10.1101/033142.

Install and configure

Please see http://sequenceserver.com.

Develop and contribute

You will need Ruby and RubyGems, Node and npm, and CodeClimate. Further, please note that 1.0.x branch contains the stable releases, while the master branch is a work in progress towards next release and may be buggy.

Setup

Get source code and install dependencies.

git clone https://github.com/wurmlab/sequenceserver
gem install bundler
cd sequenceserver
npm install
bundle

If you are deploying SequenceServer from git you can skip npm install step and skip installing gems used for testing (and qt), etc. by running:

bundle install --without=development

Run, test, build

Launch SequenceServer in development mode. In development mode SequenceServer logs verbosely and uses raw front-end files.

bundle exec bin/sequenceserver -D

Run tests:

bundle exec rspec

Run code style checkers (rubocop, csslint, eslint) -

codeclimate analyze

Build minifies JS and CSS bundles:

npm run-script build

Using Docker

# With database fasta files inside a folder named db
docker run --rm -ti -p 4567:4567 -v $(pwd)/db:/db wurmlab/sequenceserver

Contact

• Anurag Priyam (architect) - email | @yeban
• Yannick Wurm (PI) - email | @yannick__
• Mailing list / forum

Big Thanks

Cross-browser Testing Platform and Open Source <3 Provided by Sauce Labs