remove licence files from master branch

LICENCE-files/avis-licence.txt

-#!/usr/bin/env python3
-# coding: utf-8
-
-# ###############################################################################
-# This file is part of PanACOTA.                                                #
-#                                                                               #
-# Authors: Amandine Perrin                                                      #
-# Copyright © 2018-2020 Institut Pasteur (Paris).                               #
-# See the COPYRIGHT file for details.                                           #
-#                                                                               #
-# PanACOTA is a software providing tools for large scale bacterial comparative  #
-# genomics. From a set of complete and/or draft genomes, you can:               # 
-#    -  Do a quality control of your strains, to eliminate poor quality         #
-# genomes, which would not give any information for the comparative study       #
-#    -  Uniformly annotate all genomes                                          #
-#    -  Do a Pan-genome                                                         #
-#    -  Do a Core or Persistent genome                                          #
-#    -  Align all Core/Persistent families                                      #
-#    -  Infer a phylogenetic tree from the Core/Persistent families             #
-#                                                                               #     
-# PanACOTA is free software: you can redistribute it and/or modify it under the #
-# terms of the Affero GNU General Public License as published by the Free       #
-# Software Foundation, either version 3 of the License, or (at your option)     #
-# any later version.                                                            #
-#                                                                               # 
-# PanACOTA 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 Affero GNU General Public License           #
-# for more details.                                                             #
-#                                                                               #
-# You should have received a copy of the Affero GNU General Public License      #
-# along with PanACOTA (COPYING file).                                           #
-# If not, see <https://www.gnu.org/licenses/>.                                  #
-# ############################################################################### 
\ No newline at end of file

LICENCE-files/example-header.txt.md

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-$                                                                                              $
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-$ ye contrasted insensible as. Oh up unsatiable advantages decisively as a interested.         $
-$ Present suppose in esteems in demesne colonel it to. End horrible she landlord               $
-$ screened stanhill. Repeated offended you opinions off dissuade ask packages screened.        $
-$ She alteration everything sympathize impossible his get compliment. Collected                $
-$ few extremity suffering met had sportsman.                                                   $
-$                                                                                              $
-$ Passage its ten led hearted removal cordial. Preference any astonished unreserved            $
-$ mrs. Prosperous understood middletons in conviction an uncommonly do. Supposing              $
-$ so be resolving breakfast am or perfectly. Is drew am hill from mr. Valley by oh twenty      $
-$ direct me so. Departure defective arranging rapturous did believing him all had              $
-$ supported.                                                                                   $
-$ Family months lasted simple se nature vulgar him. Picture fo attempt joy excited             $
-$ ten carried manners talking how. Suspicion neglected he resolving agreement perceived an.    $
-$                                                                                              $
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LICENCE-files/list-source-files.txt

-genomeAPCAT/__init__.py
-genomeAPCAT/utils.py
-genomeAPCAT/utils_pangenome.py
-genomeAPCAT/align_module/__init__.py
-genomeAPCAT/align_module/alignment.py
-genomeAPCAT/align_module/get_seqs.py
-genomeAPCAT/align_module/pan_to_pergenome.py
-genomeAPCAT/align_module/post_align.py
-genomeAPCAT/annote_module/__init__.py
-genomeAPCAT/annote_module/format_functions.py
-genomeAPCAT/annote_module/genome_seq_functions.py
-genomeAPCAT/annote_module/prokka_functions.py
-genomeAPCAT/corepers_module/__init__.py
-genomeAPCAT/corepers_module/persistent_functions.py
-genomeAPCAT/pangenome_module/__init__.py
-genomeAPCAT/pangenome_module/mmseqs_functions.py
-genomeAPCAT/pangenome_module/post_treatment.py
-genomeAPCAT/pangenome_module/protein_seq_functions.py
-genomeAPCAT/subcommands/__init__.py
-genomeAPCAT/subcommands/align.py
-genomeAPCAT/subcommands/annote.py
-genomeAPCAT/subcommands/corepers.py
-genomeAPCAT/subcommands/pangenome.py
-genomeAPCAT/subcommands/tree.py
-genomeAPCAT/tree_module/__init__.py
-genomeAPCAT/tree_module/fastme_func.py
-genomeAPCAT/tree_module/fasttree_func.py
-genomeAPCAT/tree_module/quicktree_func.py