From 93ebf514425f5c8417bf7ec601447c4c88a476f8 Mon Sep 17 00:00:00 2001 From: Stefan Bienert <stefan.bienert@unibas.ch> Date: Wed, 12 Feb 2020 16:41:48 +0100 Subject: [PATCH] Bump extras to (c) 2020 --- extras/code_generation/amino_acid_atoms.py | 2 +- extras/code_generation/amino_acid_atoms_hydrogens.py | 2 +- extras/code_generation/backbone_score_unittest.py | 2 +- extras/code_generation/hydrogen_rules.py | 2 +- extras/code_generation/ideal_bb_param.py | 2 +- extras/code_generation/sidechain_atom_rule_lookup.py | 2 +- .../data_generation/all_atom_scorer/create_default_aa_scorer.py | 2 +- extras/data_generation/backbone_scorer/create_default_scorer.py | 2 +- extras/data_generation/force_field/create_charmm_force_field.py | 2 +- extras/data_generation/frag_db/build_frag_db.py | 2 +- extras/data_generation/portable_binaries/convert_data.cc | 2 +- extras/data_generation/rotamer_library/CreateDunbrackLibrary.py | 2 +- extras/data_generation/rotamer_library/README | 2 +- extras/data_generation/rotamer_library/do_bbdep_lib.py | 2 +- extras/data_generation/rotamer_library/do_lib.py | 2 +- extras/data_generation/rotamer_library/fetch_data.py | 2 +- extras/data_generation/structure_db/README | 2 +- .../data_generation/structure_db/assign_structure_profiles.py | 2 +- extras/data_generation/structure_db/build_structure_db.py | 2 +- .../data_generation/structure_db/create_structure_profiles.py | 2 +- extras/data_generation/structure_db/get_data_from_smtl.py | 2 +- .../structure_db/prepare_slurm_submission_structure_profiles.py | 2 +- extras/data_generation/torsion_sampler/train_torsion_sampler.py | 2 +- extras/pre_commit/pm3_csc/__init__.py | 2 +- extras/pre_commit/pm3_csc/base.py | 2 +- extras/pre_commit/pm3_csc/filecheck/__init__.py | 2 +- extras/pre_commit/pm3_csc/filecheck/base.py | 2 +- extras/pre_commit/pm3_csc/filecheck/ccode.py | 2 +- extras/pre_commit/pm3_csc/filecheck/cmake.py | 2 +- extras/pre_commit/pm3_csc/filecheck/python.py | 2 +- extras/pre_commit/pm3_csc/filecheck/rest.py | 2 +- extras/pre_commit/pm3_csc/filecheck/shellscript.py | 2 +- extras/pre_commit/pm3_csc/filecheck/text.py | 2 +- extras/pre_commit/pm3_csc/git.py | 2 +- extras/pre_commit/pre-commit | 2 +- extras/sanity_checks/Makefile | 2 +- extras/sanity_checks/README | 2 +- extras/sanity_checks/run_pipeline.py | 2 +- extras/sanity_checks/test_all.py | 2 +- extras/sanity_checks/test_cpp.cc | 2 +- extras/sanity_checks/test_module.py | 2 +- extras/scoring_weight_training/README | 2 +- extras/scoring_weight_training/analyze_bft_candidates.py | 2 +- .../scoring_weight_training/analyze_bft_score_correlations.py | 2 +- extras/scoring_weight_training/analyze_bft_scores.py | 2 +- extras/scoring_weight_training/analyze_weights.py | 2 +- extras/scoring_weight_training/collect_optimized_weights.py | 2 +- extras/scoring_weight_training/common.py | 2 +- extras/scoring_weight_training/generate_bft.py | 2 +- extras/scoring_weight_training/generate_bft_chunks.py | 2 +- extras/scoring_weight_training/generate_bft_dbs.py | 2 +- extras/scoring_weight_training/generate_bft_testset.py | 2 +- extras/scoring_weight_training/generate_training_bft.py | 2 +- extras/scoring_weight_training/get_weights_code.py | 2 +- extras/scoring_weight_training/optimize_weights.py | 2 +- extras/scoring_weight_training/optimize_weights_cma.py | 2 +- extras/scoring_weight_training/run_all_optimizations.py | 2 +- extras/test_code/test.cc | 2 +- 58 files changed, 58 insertions(+), 58 deletions(-) diff --git a/extras/code_generation/amino_acid_atoms.py b/extras/code_generation/amino_acid_atoms.py index 5907e7e1..114c2107 100644 --- a/extras/code_generation/amino_acid_atoms.py +++ b/extras/code_generation/amino_acid_atoms.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/code_generation/amino_acid_atoms_hydrogens.py b/extras/code_generation/amino_acid_atoms_hydrogens.py index 8b4375e8..63f326fc 100644 --- a/extras/code_generation/amino_acid_atoms_hydrogens.py +++ b/extras/code_generation/amino_acid_atoms_hydrogens.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/code_generation/backbone_score_unittest.py b/extras/code_generation/backbone_score_unittest.py index f255bd2e..4cd4acb0 100644 --- a/extras/code_generation/backbone_score_unittest.py +++ b/extras/code_generation/backbone_score_unittest.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/code_generation/hydrogen_rules.py b/extras/code_generation/hydrogen_rules.py index a5d95477..c68a675f 100644 --- a/extras/code_generation/hydrogen_rules.py +++ b/extras/code_generation/hydrogen_rules.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/code_generation/ideal_bb_param.py b/extras/code_generation/ideal_bb_param.py index 86edc2f3..8a20f2e2 100644 --- a/extras/code_generation/ideal_bb_param.py +++ b/extras/code_generation/ideal_bb_param.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/code_generation/sidechain_atom_rule_lookup.py b/extras/code_generation/sidechain_atom_rule_lookup.py index 56e77653..249188e6 100644 --- a/extras/code_generation/sidechain_atom_rule_lookup.py +++ b/extras/code_generation/sidechain_atom_rule_lookup.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/all_atom_scorer/create_default_aa_scorer.py b/extras/data_generation/all_atom_scorer/create_default_aa_scorer.py index 33f0f849..a13b848e 100644 --- a/extras/data_generation/all_atom_scorer/create_default_aa_scorer.py +++ b/extras/data_generation/all_atom_scorer/create_default_aa_scorer.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/backbone_scorer/create_default_scorer.py b/extras/data_generation/backbone_scorer/create_default_scorer.py index 585e00c9..c631664e 100644 --- a/extras/data_generation/backbone_scorer/create_default_scorer.py +++ b/extras/data_generation/backbone_scorer/create_default_scorer.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/force_field/create_charmm_force_field.py b/extras/data_generation/force_field/create_charmm_force_field.py index 5c10bb58..70950de3 100644 --- a/extras/data_generation/force_field/create_charmm_force_field.py +++ b/extras/data_generation/force_field/create_charmm_force_field.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/frag_db/build_frag_db.py b/extras/data_generation/frag_db/build_frag_db.py index d1db4a59..3500d707 100644 --- a/extras/data_generation/frag_db/build_frag_db.py +++ b/extras/data_generation/frag_db/build_frag_db.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/portable_binaries/convert_data.cc b/extras/data_generation/portable_binaries/convert_data.cc index 4b0e3483..64f5719a 100644 --- a/extras/data_generation/portable_binaries/convert_data.cc +++ b/extras/data_generation/portable_binaries/convert_data.cc @@ -1,4 +1,4 @@ -// Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +// Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and // Biozentrum - University of Basel // // Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/rotamer_library/CreateDunbrackLibrary.py b/extras/data_generation/rotamer_library/CreateDunbrackLibrary.py index 7b2a53ad..99850ace 100644 --- a/extras/data_generation/rotamer_library/CreateDunbrackLibrary.py +++ b/extras/data_generation/rotamer_library/CreateDunbrackLibrary.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/rotamer_library/README b/extras/data_generation/rotamer_library/README index ca755591..a2c23122 100644 --- a/extras/data_generation/rotamer_library/README +++ b/extras/data_generation/rotamer_library/README @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/rotamer_library/do_bbdep_lib.py b/extras/data_generation/rotamer_library/do_bbdep_lib.py index 3b9b1441..cb849e07 100644 --- a/extras/data_generation/rotamer_library/do_bbdep_lib.py +++ b/extras/data_generation/rotamer_library/do_bbdep_lib.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/rotamer_library/do_lib.py b/extras/data_generation/rotamer_library/do_lib.py index 88385283..f4efeb70 100644 --- a/extras/data_generation/rotamer_library/do_lib.py +++ b/extras/data_generation/rotamer_library/do_lib.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/rotamer_library/fetch_data.py b/extras/data_generation/rotamer_library/fetch_data.py index 5186ba08..44e1e50c 100644 --- a/extras/data_generation/rotamer_library/fetch_data.py +++ b/extras/data_generation/rotamer_library/fetch_data.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/structure_db/README b/extras/data_generation/structure_db/README index 2286f335..7ca28a56 100644 --- a/extras/data_generation/structure_db/README +++ b/extras/data_generation/structure_db/README @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/structure_db/assign_structure_profiles.py b/extras/data_generation/structure_db/assign_structure_profiles.py index 71d892cf..2486f712 100644 --- a/extras/data_generation/structure_db/assign_structure_profiles.py +++ b/extras/data_generation/structure_db/assign_structure_profiles.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/structure_db/build_structure_db.py b/extras/data_generation/structure_db/build_structure_db.py index 43a25287..bb273126 100644 --- a/extras/data_generation/structure_db/build_structure_db.py +++ b/extras/data_generation/structure_db/build_structure_db.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/structure_db/create_structure_profiles.py b/extras/data_generation/structure_db/create_structure_profiles.py index d4a558bd..e81973ae 100644 --- a/extras/data_generation/structure_db/create_structure_profiles.py +++ b/extras/data_generation/structure_db/create_structure_profiles.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/structure_db/get_data_from_smtl.py b/extras/data_generation/structure_db/get_data_from_smtl.py index 986c10a7..59140bbd 100644 --- a/extras/data_generation/structure_db/get_data_from_smtl.py +++ b/extras/data_generation/structure_db/get_data_from_smtl.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/structure_db/prepare_slurm_submission_structure_profiles.py b/extras/data_generation/structure_db/prepare_slurm_submission_structure_profiles.py index d0e195c9..83fce130 100644 --- a/extras/data_generation/structure_db/prepare_slurm_submission_structure_profiles.py +++ b/extras/data_generation/structure_db/prepare_slurm_submission_structure_profiles.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/data_generation/torsion_sampler/train_torsion_sampler.py b/extras/data_generation/torsion_sampler/train_torsion_sampler.py index 9c0ea6fc..eae2cb39 100644 --- a/extras/data_generation/torsion_sampler/train_torsion_sampler.py +++ b/extras/data_generation/torsion_sampler/train_torsion_sampler.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/__init__.py b/extras/pre_commit/pm3_csc/__init__.py index d526e2cc..75a07693 100644 --- a/extras/pre_commit/pm3_csc/__init__.py +++ b/extras/pre_commit/pm3_csc/__init__.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/base.py b/extras/pre_commit/pm3_csc/base.py index d2fbf65b..cb1543a1 100644 --- a/extras/pre_commit/pm3_csc/base.py +++ b/extras/pre_commit/pm3_csc/base.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/__init__.py b/extras/pre_commit/pm3_csc/filecheck/__init__.py index 1d614bb5..17cb6fc2 100644 --- a/extras/pre_commit/pm3_csc/filecheck/__init__.py +++ b/extras/pre_commit/pm3_csc/filecheck/__init__.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/base.py b/extras/pre_commit/pm3_csc/filecheck/base.py index 95ab2274..a70fd759 100644 --- a/extras/pre_commit/pm3_csc/filecheck/base.py +++ b/extras/pre_commit/pm3_csc/filecheck/base.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/ccode.py b/extras/pre_commit/pm3_csc/filecheck/ccode.py index e5bfe8be..63c64c1d 100644 --- a/extras/pre_commit/pm3_csc/filecheck/ccode.py +++ b/extras/pre_commit/pm3_csc/filecheck/ccode.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/cmake.py b/extras/pre_commit/pm3_csc/filecheck/cmake.py index fde92de2..fe78dbf7 100644 --- a/extras/pre_commit/pm3_csc/filecheck/cmake.py +++ b/extras/pre_commit/pm3_csc/filecheck/cmake.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/python.py b/extras/pre_commit/pm3_csc/filecheck/python.py index a932330e..d540c153 100644 --- a/extras/pre_commit/pm3_csc/filecheck/python.py +++ b/extras/pre_commit/pm3_csc/filecheck/python.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/rest.py b/extras/pre_commit/pm3_csc/filecheck/rest.py index a3e5a4c6..24911437 100644 --- a/extras/pre_commit/pm3_csc/filecheck/rest.py +++ b/extras/pre_commit/pm3_csc/filecheck/rest.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/shellscript.py b/extras/pre_commit/pm3_csc/filecheck/shellscript.py index 73a95895..744d75f8 100644 --- a/extras/pre_commit/pm3_csc/filecheck/shellscript.py +++ b/extras/pre_commit/pm3_csc/filecheck/shellscript.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/filecheck/text.py b/extras/pre_commit/pm3_csc/filecheck/text.py index d4b59f37..32283a1c 100644 --- a/extras/pre_commit/pm3_csc/filecheck/text.py +++ b/extras/pre_commit/pm3_csc/filecheck/text.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pm3_csc/git.py b/extras/pre_commit/pm3_csc/git.py index ed9011ca..f061b82c 100644 --- a/extras/pre_commit/pm3_csc/git.py +++ b/extras/pre_commit/pm3_csc/git.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/pre_commit/pre-commit b/extras/pre_commit/pre-commit index df8eb506..7105e0b1 100644 --- a/extras/pre_commit/pre-commit +++ b/extras/pre_commit/pre-commit @@ -1,7 +1,7 @@ #!/usr/bin/env python # pylint: disable=invalid-name -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/sanity_checks/Makefile b/extras/sanity_checks/Makefile index 79d2b586..ed240c0f 100644 --- a/extras/sanity_checks/Makefile +++ b/extras/sanity_checks/Makefile @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/sanity_checks/README b/extras/sanity_checks/README index 81bbd702..533ed611 100644 --- a/extras/sanity_checks/README +++ b/extras/sanity_checks/README @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/sanity_checks/run_pipeline.py b/extras/sanity_checks/run_pipeline.py index 4a39ea5c..3ae16ea9 100644 --- a/extras/sanity_checks/run_pipeline.py +++ b/extras/sanity_checks/run_pipeline.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/sanity_checks/test_all.py b/extras/sanity_checks/test_all.py index 0de61ad7..b3544580 100644 --- a/extras/sanity_checks/test_all.py +++ b/extras/sanity_checks/test_all.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/sanity_checks/test_cpp.cc b/extras/sanity_checks/test_cpp.cc index 9c8e3365..f43ae813 100644 --- a/extras/sanity_checks/test_cpp.cc +++ b/extras/sanity_checks/test_cpp.cc @@ -1,4 +1,4 @@ -// Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +// Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and // Biozentrum - University of Basel // // Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/sanity_checks/test_module.py b/extras/sanity_checks/test_module.py index 7c0f3514..72993fc6 100644 --- a/extras/sanity_checks/test_module.py +++ b/extras/sanity_checks/test_module.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/README b/extras/scoring_weight_training/README index 3c6db6b7..93d912e8 100644 --- a/extras/scoring_weight_training/README +++ b/extras/scoring_weight_training/README @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/analyze_bft_candidates.py b/extras/scoring_weight_training/analyze_bft_candidates.py index 1cbc4dbb..54a9ec1d 100644 --- a/extras/scoring_weight_training/analyze_bft_candidates.py +++ b/extras/scoring_weight_training/analyze_bft_candidates.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/analyze_bft_score_correlations.py b/extras/scoring_weight_training/analyze_bft_score_correlations.py index b5956fa8..d7b865c7 100644 --- a/extras/scoring_weight_training/analyze_bft_score_correlations.py +++ b/extras/scoring_weight_training/analyze_bft_score_correlations.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/analyze_bft_scores.py b/extras/scoring_weight_training/analyze_bft_scores.py index 98276d0c..aef180e7 100644 --- a/extras/scoring_weight_training/analyze_bft_scores.py +++ b/extras/scoring_weight_training/analyze_bft_scores.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/analyze_weights.py b/extras/scoring_weight_training/analyze_weights.py index da4f9675..e94a36a4 100644 --- a/extras/scoring_weight_training/analyze_weights.py +++ b/extras/scoring_weight_training/analyze_weights.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/collect_optimized_weights.py b/extras/scoring_weight_training/collect_optimized_weights.py index c3d52b91..e7ca3a27 100644 --- a/extras/scoring_weight_training/collect_optimized_weights.py +++ b/extras/scoring_weight_training/collect_optimized_weights.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/common.py b/extras/scoring_weight_training/common.py index f0bcf55b..dc197819 100644 --- a/extras/scoring_weight_training/common.py +++ b/extras/scoring_weight_training/common.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/generate_bft.py b/extras/scoring_weight_training/generate_bft.py index 70b80750..1f16b72c 100644 --- a/extras/scoring_weight_training/generate_bft.py +++ b/extras/scoring_weight_training/generate_bft.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/generate_bft_chunks.py b/extras/scoring_weight_training/generate_bft_chunks.py index 4587bda8..60ca8619 100644 --- a/extras/scoring_weight_training/generate_bft_chunks.py +++ b/extras/scoring_weight_training/generate_bft_chunks.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/generate_bft_dbs.py b/extras/scoring_weight_training/generate_bft_dbs.py index 1eaa2105..dab8cf72 100644 --- a/extras/scoring_weight_training/generate_bft_dbs.py +++ b/extras/scoring_weight_training/generate_bft_dbs.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/generate_bft_testset.py b/extras/scoring_weight_training/generate_bft_testset.py index 0f03a89a..4033eec6 100644 --- a/extras/scoring_weight_training/generate_bft_testset.py +++ b/extras/scoring_weight_training/generate_bft_testset.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/generate_training_bft.py b/extras/scoring_weight_training/generate_training_bft.py index da3c499b..f6cedab0 100644 --- a/extras/scoring_weight_training/generate_training_bft.py +++ b/extras/scoring_weight_training/generate_training_bft.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/get_weights_code.py b/extras/scoring_weight_training/get_weights_code.py index b48b2067..2367d6a1 100644 --- a/extras/scoring_weight_training/get_weights_code.py +++ b/extras/scoring_weight_training/get_weights_code.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/optimize_weights.py b/extras/scoring_weight_training/optimize_weights.py index 257f9291..27a65164 100644 --- a/extras/scoring_weight_training/optimize_weights.py +++ b/extras/scoring_weight_training/optimize_weights.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/optimize_weights_cma.py b/extras/scoring_weight_training/optimize_weights_cma.py index 590a6202..11b31375 100644 --- a/extras/scoring_weight_training/optimize_weights_cma.py +++ b/extras/scoring_weight_training/optimize_weights_cma.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/scoring_weight_training/run_all_optimizations.py b/extras/scoring_weight_training/run_all_optimizations.py index 9753c0ac..de7157b3 100644 --- a/extras/scoring_weight_training/run_all_optimizations.py +++ b/extras/scoring_weight_training/run_all_optimizations.py @@ -1,4 +1,4 @@ -# Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +# Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and # Biozentrum - University of Basel # # Licensed under the Apache License, Version 2.0 (the "License"); diff --git a/extras/test_code/test.cc b/extras/test_code/test.cc index 7920788f..df5077b8 100644 --- a/extras/test_code/test.cc +++ b/extras/test_code/test.cc @@ -1,4 +1,4 @@ -// Copyright (c) 2013-2018, SIB - Swiss Institute of Bioinformatics and +// Copyright (c) 2013-2020, SIB - Swiss Institute of Bioinformatics and // Biozentrum - University of Basel // // Licensed under the Apache License, Version 2.0 (the "License"); -- GitLab