Introduction

Least-Squares Dating (LSD) estimates rates and dates from phylogenies using least-squares method.

lsd-web provides a web interface to LSD.

Install

From sources (with conda)

Get sources

git clone https://github.com/evolbioinfo/lsd-web.git
cd lsd-web/

Get lsd sources

git clone https://github.com/tothuhien/lsd-0.3beta.git
cd lsd-0.3beta
make
export LSDPATH=$PWD/src/lsd

Create conda environment

conda create --name lsd-web python=2.7
source activate lsd-web

Configure the application (with sqlite)

cd lsd_web
pip install -r requirements.txt
apt-get install redis-server # Ubuntu / Debian
python manage.py makemigrations

Run lsd-web

celery --app=lsd_web.celeryapp:app worker --loglevel=INFO
python manage.py runserver

Docker

You should first install docker.

Build the image

To build the docker image, then:

docker build -t lsd-web .

And finally run the container:

docker run -p 8080:80 lsd-web 

You can then open your browser to (http://localhost:8080).

From Docker Hub

An image is already built on docker hub:

docker run -p 8080:80 evolbioinfo/lsd-web 

You can then open your browser to (http://localhost:8080).