From 0bbb6e9edd06f9a938b3a8416b6088cb1614ef2e Mon Sep 17 00:00:00 2001 From: Nikolai Romashchenko Date: Mon, 25 Nov 2024 10:38:42 +0100 Subject: [PATCH] Updated license headers --- omamer/HOGParser.py | 1 + omamer/__init__.py | 3 ++- omamer/_clock.py | 24 ++++++++++++++++++++++++ omamer/_runners.py | 1 + omamer/_utils.py | 1 + omamer/database.py | 1 + omamer/hierarchy.py | 1 + omamer/index.py | 1 + omamer/main.py | 1 + omamer/merge_search.py | 1 + omamer/results_reader.py | 1 + omamer/sequence_buffer.py | 1 + omamer/sequence_reader.py | 1 + setup.py | 1 + 14 files changed, 38 insertions(+), 1 deletion(-) diff --git a/omamer/HOGParser.py b/omamer/HOGParser.py index 6c394d4..e938140 100644 --- a/omamer/HOGParser.py +++ b/omamer/HOGParser.py @@ -2,6 +2,7 @@ HOGPROP - Propagation of Gene Ontology (GO) annotations through Hierarchical Orthologous Groups (HOGs) from the OMA project. + (C) 2024 Nikolai Romashchenko (C) 2015-2023 Alex Warwick Vesztrocy This file is part of HOGPROP. It contains a module for parsing an diff --git a/omamer/__init__.py b/omamer/__init__.py index 5df936b..8ccc8eb 100644 --- a/omamer/__init__.py +++ b/omamer/__init__.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy @@ -24,6 +25,6 @@ __packagename__ = "omamer" __version__ = "2.0.5" -__copyright__ = "(C) 2019-{:d} Victor Rossier and Alex Warwick Vesztrocy ".format( +__copyright__ = "(C) 2019-{:d} Victor Rossier and Alex Warwick Vesztrocy and Nikolai Romashchenko ".format( date.today().year ) diff --git a/omamer/_clock.py b/omamer/_clock.py index e02e1bf..68313a6 100644 --- a/omamer/_clock.py +++ b/omamer/_clock.py @@ -1,3 +1,27 @@ +""" + OMAmer - tree-driven and alignment-free protein assignment to sub-families + + (C) 2024 Nikolai Romashchenko + (C) 2022-2023 Alex Warwick Vesztrocy + (C) 2019-2021 Victor Rossier and + Alex Warwick Vesztrocy + + This file is part of OMAmer. + + OMAmer is free software: you can redistribute it and/or modify + it under the terms of the GNU Lesser General Public License as published by + the Free Software Foundation, either version 3 of the License, or + (at your option) any later version. + + OMAmer 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 Lesser General Public License for more details. + + You should have received a copy of the GNU Lesser General Public License + along with OMAmer. If not, see . +""" + import ctypes # Access the _PyTime_AsSecondsDouble and _PyTime_GetSystemClock functions from pythonapi diff --git a/omamer/_runners.py b/omamer/_runners.py index 799ed25..14ba6fd 100644 --- a/omamer/_runners.py +++ b/omamer/_runners.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/_utils.py b/omamer/_utils.py index 32ffbdb..e1f0ae3 100644 --- a/omamer/_utils.py +++ b/omamer/_utils.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/database.py b/omamer/database.py index ce61f97..b861e05 100644 --- a/omamer/database.py +++ b/omamer/database.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/hierarchy.py b/omamer/hierarchy.py index d4f9dc3..eab4bd6 100644 --- a/omamer/hierarchy.py +++ b/omamer/hierarchy.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/index.py b/omamer/index.py index 323bfe8..ba687cc 100644 --- a/omamer/index.py +++ b/omamer/index.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/main.py b/omamer/main.py index f8272e7..db4e41b 100644 --- a/omamer/main.py +++ b/omamer/main.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/merge_search.py b/omamer/merge_search.py index 29b33fd..9266b8d 100644 --- a/omamer/merge_search.py +++ b/omamer/merge_search.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/results_reader.py b/omamer/results_reader.py index b925269..a16bf09 100644 --- a/omamer/results_reader.py +++ b/omamer/results_reader.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/sequence_buffer.py b/omamer/sequence_buffer.py index 8293ac6..c95a79f 100644 --- a/omamer/sequence_buffer.py +++ b/omamer/sequence_buffer.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/omamer/sequence_reader.py b/omamer/sequence_reader.py index 539e470..d5297ad 100644 --- a/omamer/sequence_reader.py +++ b/omamer/sequence_reader.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy diff --git a/setup.py b/setup.py index fa1f599..2d7ee08 100644 --- a/setup.py +++ b/setup.py @@ -1,6 +1,7 @@ """ OMAmer - tree-driven and alignment-free protein assignment to sub-families + (C) 2024 Nikolai Romashchenko (C) 2022-2023 Alex Warwick Vesztrocy (C) 2019-2021 Victor Rossier and Alex Warwick Vesztrocy