MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.
Python
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README.md

MacSyFinder

pipeline status coverage report Doc

MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.

Citation

Abby SS, Néron B, Ménager H, Touchon M, Rocha EPC (2014). MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems. PLoS ONE 9(10): e110726. doi:10.1371/journal.pone.0110726 http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0110726

Download distribution

Download

Installation from distribution

  1. Uncompress and untar the package:
tar -xzf macsyfinder-x.x.tar.gz
  1. Go to the MacSyFinder directory
cd macsyfinder-x.x
  1. Build
python setup.py build
  1. Test
python setup.py test -vv
  1. Install
sudo python setup.py install
To see all installation options "python setup.py --help"

See the INSTALL file for more details.

Installation from repository

The installation from the repository is dedicated to whom want to develop macsyfinder, If you only want to use it, please consider instalation from de distribution.

Please be careful, MacSyView has its own repository: https://github.com/gem-pasteur/macsyview

Unit tests with Travis-CI

Build Status

Unit tests with gitlab-ci

pipeline status
coverage report

Documentation

You will find complete documentation for setting up your project. for the development version on gitlab pages

Doc

for public version on readthedocs

Doc

Note

The setsid binary in utils directory is used only for functional tests on macosx. The binary has been build using the setsid-macosx project.