Commit ab1a838f authored by Mathieu Giraud's avatar Mathieu Giraud

vidjil: vanity, bump year to 2017, welcome Aurélien in team

parent 81eb736e
#+TITLE: Vidjil -- High-throughput Analysis of V(D)J Immune Repertoire
#+AUTHOR: The Vidjil team (Mathieu, Mikaël and Marc)
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Ryan and Tatiana)
[[https://travis-ci.org/vidjil/vidjil][https://img.shields.io/travis/vidjil/vidjil/master.svg]]
[[http://opensource.org/licenses/GPL-3.0][http://img.shields.io/badge/license-GPLv3+-green.svg]]
......@@ -7,7 +7,7 @@
# https://coveralls.io/r/vidjil/vidjil http://img.shields.io/coveralls/vidjil/vidjil.svg
# Vidjil -- V(D)J recombinations analysis -- [[http://www.vidjil.org]]
# Copyright (C) 2011-2016 by Bonsai bioinformatics at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# Copyright (C) 2011-2017 by Bonsai bioinformatics at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# [[contact@vidjil.org]]
V(D)J recombinations in lymphocytes are essential for immunological
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015, 2016 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015, 2016 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......
/*
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015, 2016 by Bonsai bioinformatics
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
......@@ -283,7 +283,7 @@ double atof_NO_LIMIT(char *optarg)
int main (int argc, char **argv)
{
cout << "# Vidjil -- V(D)J recombinations analysis <http://www.vidjil.org/>" << endl
<< "# Copyright (C) 2011, 2012, 2013, 2014, 2015, 2016 by the Vidjil team" << endl
<< "# Copyright (C) 2011-2017 by the Vidjil team" << endl
<< "# Bonsai bioinformatics at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille" << endl
<< endl
<< "# Vidjil is free software, and you are welcome to redistribute it" << endl
......
<!doctype html>
<!--
This file is part of "Vidjil" <http://bioinfo.lille.inria.fr/vidjil>, V(D)J repertoire browsing and analysis
Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
Bonsai bioinformatics at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
This file is part of Vidjil <http://www.vidjil.org>, High-throughput Analysis of V(D)J Immune Repertoire
Copyright (C) 2011-2017 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonette Carin <antonin.carette@etudiant.univ-lille1.fr>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonette Carin <antonin.carette@etudiant.univ-lille1.fr>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonin Carette <antonin.carette@etudiant.univ-lille1.fr>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
/*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* Copyright (C) 2013-2017 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
......
#+TITLE: Vidjil Algorithm -- Command-line Manual
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Marc, Tatiana and Rayan)
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Tatiana and Rayan)
#+HTML_HEAD: <link rel="stylesheet" type="text/css" href="org-mode.css" />
# This manual can be browsed online:
......@@ -7,7 +7,7 @@
# http://git.vidjil.org/blob/master/doc/algo.org (development version)
# Vidjil -- High-throughput Analysis of V(D)J Immune Repertoire -- [[http://www.vidjil.org]]
# Copyright (C) 2011, 2012, 2013, 2014, 2015, 2016 by Bonsai bioinformatics
# Copyright (C) 2011-2017 by Bonsai bioinformatics
# at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# contact@vidjil.org
......
......@@ -6,11 +6,13 @@ developed by the Bonsai bioinformatics lab, at CRIStAL (UMR CNRS 9189, Universit
Contact: Mathieu Giraud and Mikaël Salson <contact@vidjil.org>
* Vidjil core development
- Mathieu Giraud, 2011-2016
- Mikaël Salson, 2011-2016
- Mathieu Giraud, 2011-2017
- Mikaël Salson, 2011-2017
- Marc Duez, 2012-2016
- Tatiana Rocher, 2014-2016
- Florian Thonier, 2015-2016
- Tatiana Rocher, 2014-2017
- Florian Thonier, 2015-2017
- Ryan Herbert, 2015-2017
- Aurélien Béliard, 2016-2017
* Other contributors
- David Chatel, 2011-2012
......
#+TITLE: Vidjil -- Developer Documentation
#+AUTHOR: The Vidjil team (Florian, Marc, Mathieu, Mikaël, Ryan and Tatiana)
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Ryan and Tatiana)
#+HTML_HEAD: <link rel="stylesheet" type="text/css" href="org-mode.css" />
# This manual can be browsed online:
......@@ -7,7 +7,7 @@
# http://git.vidjil.org/blob/master/doc/dev.org (development version)
# Vidjil -- High-throughput Analysis of V(D)J Immune Repertoire -- [[http://www.vidjil.org]]
# Copyright (C) 2011, 2012, 2013, 2014, 2015, 2016 by Bonsai bioinformatics
# Copyright (C) 2011-2017 by Bonsai bioinformatics
# at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# contact@vidjil.org
......
#+TITLE: Vidjil -- Analyzed locus
#+AUTHOR: The Vidjil team (Florian, Mathieu, Mikaël, Marc and Tatiana)
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Ryan and Tatiana)
#+HTML_HEAD: <link rel="stylesheet" type="text/css" href="org-mode.css" />
#+OPTIONS: toc:nil
......
#+TITLE: Vidjil -- Web Application Manual
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Florian, Marc, Ryan and Tatiana)
#+AUTHOR: The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Ryan and Tatiana)
#+HTML_HEAD: <link rel="stylesheet" type="text/css" href="org-mode.css" />
Vidjil is an open-source platform for the analysis of high-throughput sequencing data from lymphocytes.
......@@ -10,7 +10,7 @@ High-throughput sequencing (NGS/HTS) now enables the deep sequencing of a lympho
This is the help of the [[http://app.vidjil.org/browser/][Vidjil web application]].
Further help can always be asked to [[mailto:contact@vidjil.org][contact@vidjil.org]]. We can also arrange phone or Skype meeting.
The Vidjil team (Mathieu, Mikaël, Florian, Marc, Ryan and Tatiana)
The Vidjil team (Mathieu, Mikaël, Aurélien, Florian, Marc, Ryan and Tatiana)
* Requirements
......
# -*- coding: utf-8 -*-
# This file is part of Vidjil <http://www.vidjil.org>,
# High-throughput Analysis of V(D)J Immune Repertoire.
# Copyright (C) 2014-2017 by Bonsai bioinformatics
# at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
#
# "Vidjil" is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# "Vidjil" is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with "Vidjil". If not, see <http://www.gnu.org/licenses/>
import defs
from gluon import current
from gluon.custom_import import track_changes; track_changes(True)
......
......@@ -5,7 +5,7 @@
# This file is part of Vidjil <http://www.vidjil.org>,
# High-throughput Analysis of V(D)J Immune Repertoire.
# Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
# Copyright (C) 2011-2017 by Bonsai bioinformatics
# at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# Contributors:
# Marc Duez <marc.duez@vidjil.org>
......
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