diff --git a/PanACoTA/utils.py b/PanACoTA/utils.py
index 36957c3fc41865e93d4291befd7c2bc11f73db5d..1a128496405004eb800427e9665ac0a59a6db369 100755
--- a/PanACoTA/utils.py
+++ b/PanACoTA/utils.py
@@ -1,6 +1,38 @@
#!/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/>. #
+# ###############################################################################
+
"""
Util functions and classes.
diff --git a/PanACoTA/utils_argparse.py b/PanACoTA/utils_argparse.py
index 0306498de16e70fd47ca672a1378003949dec376..f5bb49bb4b75dd0228f0b80ae4da7166dafd6cf8 100644
--- a/PanACoTA/utils_argparse.py
+++ b/PanACoTA/utils_argparse.py
@@ -1,6 +1,38 @@
#!/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/>. #
+# ###############################################################################
+
"""
Functions to check argparse aguments given by user
@@ -66,4 +98,4 @@ def thread_num(param):
raise argparse.ArgumentTypeError(msg)
elif param == 0:
return nb_cpu
- return param
\ No newline at end of file
+ return param
diff --git a/PanACoTA/utils_pangenome.py b/PanACoTA/utils_pangenome.py
index 227496585607906ed10569ddd49d9cb3c3e935d0..041be486d265b08286783541e48a8c5c78a0c27c 100755
--- a/PanACoTA/utils_pangenome.py
+++ b/PanACoTA/utils_pangenome.py
@@ -1,6 +1,38 @@
#!/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/>. #
+# ###############################################################################
+
"""
Functions used to deal with pangenome file
@@ -94,7 +126,7 @@ def read_pan_file(filein, logger):
----------
filein : str
path to pangenome file
- logger :
+ logger :
Returns
-------