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
the python version is out of date + Python 2.7+ + Scipy + Numpy + BioPython
Matlab Requrements
- dna_utils must be installed
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)
- OpenMP libraries (libgomp, usually comes with gcc)
Linux Requirements
- GCC 4.7 or newer
- 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:
Alternatively you can clone the latest version from Github, or download older versions using github's 'release' view.
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