proteofav 0.2.3

Dependencies

ProteoFAV was developed to support Python 3.5+ and Pandas 0.20+.

Check requirements for specific requirements.

Installation

To install the stable release, run this command in your terminal:

$ pip install proteofav

If you don’t have pip installed, this Python installation guide can guide you through the process.

Installing from source in a virtual environment

Getting ProteoFAV:

$ wget https://github.com/bartongroup/ProteoFAV/archive/master.zip -O ProteoFAV.zip
$ unzip ProteoFAV.zip

# alternatively, cloning the git repository
$ git clone https://github.com/bartongroup/ProteoFAV.git

Installing With Conda:

$ conda-env create -n proteofav -f path/to/ProteoFAV/requirements.txt
$ source activate proteofav
$ cd path/to/ProteoFAV
$ pip install .

Installing with Virtualenv:

$ virtualenv --python `which python` env
$ source env/bin/activate
$ pip install -r requirements.txt
$ python path/to/ProteoFAV/setup.py install

Testing the installation

Test dependencies should be resolved with:

$ python path/to/ProteoFAV/setup.py develop --user

Run the Tests with:

$ python path/to/ProteoFAV/setup.py test
# or
$ cd path/to/ProteoFAV/tests
$ python -m unittest discover

ProteoFAV Configuration

ProteoFAV uses a configuration file config.ini where the user can specify the directory paths, as well as urls for commonly used data sources.

After installing run:

$ proteofav-setup