biolxyUtil 0.0.4

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The is a test version

Installation

biolxyUtil runs on Python 2 and Python 3. Your operating system might already provide Python 2.7, which you can check on the command line:

python --version

If your operating system already includes Python 2.6, I suggest either using conda (see below) or installing Python 2.7 alongside the existing Python 2.6 instead of attempting to upgrade it in-place. Your package manager might provide both versions of Python.

To run the recommended segmentation algorithms CBS and Fused Lasso, you will need to also install the R dependencies (see below).

From a Python package repository

Reasonably up-to-date biolxyUtil packages are available on PyPI and can be installed using pip (usually works on Linux if the system dependencies listed below are installed):

pip install biolxyUtil

From source

The script biolxyUtil.py requires no installation and can be used in-place. Just install the dependencies.

To install the main program, supporting scripts and cnvlib Python library, use setup.py as usual:

python setup.py build
python setup.py install