Installation

How Can I Install The Quikr Utility?

To use Quikr there are several prerequisites.

Requirements

• Mac OS X 10.6.8 or GNU/Linux
• 4Gb of RAM minimum. Absolutely neccessary.
• gcc that supports OpenMP

Python Requirements

• Python 2.7
• Scipy
• Numpy
• BioPython

Mac Requirements

• Mac OS X 10.6.8 (what we have tested)
• GCC 4.7 or newer. (gcc 4.2 did not work, and is the default installation)
• OCaml compiler mlton
• OpenMP libraries (libgomp, usually comes with gcc)

Linux Requirements

• GCC 4.7 or newer
• OCaml compiler mlton
• OpenMP libraries (libgomp, usually comes with gcc)

We also have a Quikr implementation in Matlab so that you can easily integrate
Quikr into your custom programs and scripts.

Installation

Our Quikr code is available on our sourceforge download page:

http://sourceforge.net/projects/quikr/

Our development GIT repository is available here:

http://rosalind.ece.drexel.edu/git/quikr/

To install quikr, download our project and in the folder run:

make
sudo make install

This will install the quikr, quikr_train and multifasta_to_otu utilities.
To install the python scripts and module systemwide, run

make python
sudo make install_python