Install stable version through PyPi¶
There are a few dependencies needed to get hichipper to run. All are very common bioinformatics tools / languages and should be readily available in most systems. However, note that the current implementation of hichipper is not supported on Windows platforms.
Depending on your python environment, we generally recommend using a virtual environment
to keep python dependencies tidy. An example of installing hichipper inside a new
python virtual environment called venv
using the following sequence of commands–
virtualenv -p /usr/bin/python2.7 venv
source venv/bin/activate
pip install hichipper
hichipper --version
Install via GitHub¶
Though not recommended, a bleeding-edge (development) version can be installed directly from Git. Again using a virtual environment–
virtualenv -p /usr/bin/python2.7 venv
source venv/bin/active
pip3 install git+ssh://git@github.com/aryeelab/search/tree/master/hichipper
While installing hichipper is obviously a great first step, make sure that all of the
dependencies are met.
Check out the next page for more detail.