From 1a09bcb0e57fb43e16a2fdd66a464c7489fdbdd9 Mon Sep 17 00:00:00 2001 From: Adrien Berchet Date: Wed, 15 May 2024 13:48:01 +0200 Subject: [PATCH 1/4] Chore: Change license from GPLv3 to Apache-v2 --- .copier-answers.yml | 4 +- .github/workflows/commitlint.yml | 2 +- LICENSE.txt | 875 ++++-------------- examples/extract_synthesis_inputs.py | 23 +- .../synthesize_neuron_external_diameter.py | 23 +- examples/synthesize_neuron_with_diameters.py | 23 +- examples/synthesize_neurons.py | 23 +- examples/synthesize_single_neuron.py | 23 +- neurots/__init__.py | 23 +- neurots/astrocyte/__init__.py | 23 +- neurots/astrocyte/context.py | 23 +- neurots/astrocyte/grower.py | 23 +- neurots/astrocyte/point_cloud.py | 23 +- neurots/astrocyte/section.py | 23 +- neurots/astrocyte/space_colonization.py | 23 +- neurots/astrocyte/tmd_utils.py | 23 +- neurots/astrocyte/tree.py | 23 +- neurots/basic.py | 23 +- neurots/extract_input/__init__.py | 23 +- neurots/extract_input/from_TMD.py | 23 +- neurots/extract_input/from_diameter.py | 23 +- neurots/extract_input/from_neurom.py | 23 +- neurots/extract_input/input_distributions.py | 23 +- neurots/extract_input/input_parameters.py | 23 +- neurots/generate/__init__.py | 23 +- neurots/generate/algorithms/__init__.py | 23 +- neurots/generate/algorithms/abstractgrower.py | 23 +- neurots/generate/algorithms/barcode.py | 23 +- neurots/generate/algorithms/basicgrower.py | 23 +- neurots/generate/algorithms/common.py | 23 +- neurots/generate/algorithms/tmdgrower.py | 23 +- neurots/generate/diametrizer.py | 23 +- neurots/generate/orientations.py | 23 +- neurots/generate/section.py | 23 +- neurots/generate/soma.py | 23 +- neurots/generate/tree.py | 23 +- neurots/morphmath/__init__.py | 23 +- neurots/morphmath/bifurcation.py | 23 +- neurots/morphmath/point_array.py | 23 +- neurots/morphmath/rotation.py | 23 +- neurots/morphmath/sample.py | 23 +- neurots/morphmath/utils.py | 23 +- neurots/preprocess/__init__.py | 23 +- neurots/preprocess/exceptions.py | 23 +- neurots/preprocess/preprocessors.py | 23 +- neurots/preprocess/relevance_checkers.py | 23 +- neurots/preprocess/validity_checkers.py | 23 +- neurots/utils.py | 23 +- neurots/validator.py | 23 +- setup.py | 25 +- tests/__init__.py | 23 +- tests/astrocyte/__init__.py | 23 +- tests/astrocyte/test_context.py | 23 +- tests/astrocyte/test_endfeet_targets.py | 23 +- tests/astrocyte/test_grower.py | 23 +- tests/astrocyte/test_point_cloud.py | 23 +- tests/astrocyte/test_section.py | 23 +- tests/astrocyte/test_space_colonization.py | 23 +- tests/astrocyte/test_tmd_utils.py | 23 +- tests/astrocyte/test_tree.py | 23 +- tests/test_algo.py | 23 +- tests/test_diametrizer.py | 23 +- tests/test_examples.py | 23 +- tests/test_extract_input.py | 23 +- tests/test_generate_section.py | 23 +- tests/test_generate_tree.py | 23 +- tests/test_json_schema.py | 23 +- tests/test_morphmath_bifurcation.py | 23 +- tests/test_morphmath_point_array.py | 23 +- tests/test_morphmath_utils.py | 23 +- tests/test_neuron_functional.py | 23 +- tests/test_orientations.py | 23 +- tests/test_rotation.py | 23 +- tests/test_sample.py | 23 +- tests/test_soma_grower.py | 23 +- tests/test_tmd_synthesis_functionality.py | 23 +- tests/test_utils.py | 23 +- tests/test_validator.py | 23 +- 78 files changed, 1030 insertions(+), 1578 deletions(-) diff --git a/.copier-answers.yml b/.copier-answers.yml index ed3f08ea..3cc7e06f 100644 --- a/.copier-answers.yml +++ b/.copier-answers.yml @@ -1,10 +1,10 @@ # Changes here will be overwritten by Copier -_commit: 0.1.54 +_commit: 0.1.57 _src_path: git@bbpgitlab.epfl.ch:neuromath/python-template.git author_email: '' author_name: Blue Brain Project, EPFL -copyright_license: GNU General Public License v3.0 +copyright_license: Apache License 2.0 copyright_year: '2022' distribution_name: NeuroTS download_url: https://github.com/BlueBrain/NeuroTS diff --git a/.github/workflows/commitlint.yml b/.github/workflows/commitlint.yml index ff4859f0..0adb8fcc 100644 --- a/.github/workflows/commitlint.yml +++ b/.github/workflows/commitlint.yml @@ -12,7 +12,7 @@ jobs: - uses: actions/checkout@v4 - uses: actions/setup-node@v4 with: - node-version: '16' + node-version: '20' - run: npm install -g --force commitlint @commitlint/cli commitlint-plugin-cleanfeet - run: npm install conventional-changelog-conventionalcommits - run: touch .git/COMMIT_EDITMSG diff --git a/LICENSE.txt b/LICENSE.txt index 228f9b3e..43846d50 100644 --- a/LICENSE.txt +++ b/LICENSE.txt @@ -1,674 +1,201 @@ - GNU GENERAL PUBLIC LICENSE - Version 3, 29 June 2007 - - Copyright (C) 2007 Free Software Foundation, Inc. - Everyone is permitted to copy and distribute verbatim copies - of this license document, but changing it is not allowed. - - Preamble - - The GNU General Public License is a free, copyleft license for -software and other kinds of works. - - The licenses for most software and other practical works are designed -to take away your freedom to share and change the works. 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We also recommend that a + file or class name and description of purpose be included on the + same "printed page" as the copyright notice for easier + identification within third-party archives. + + Copyright 2022 Blue Brain Project, EPFL + + Licensed under the Apache License, Version 2.0 (the "License"); + you may not use this file except in compliance with the License. + You may obtain a copy of the License at + + http://www.apache.org/licenses/LICENSE-2.0 + + Unless required by applicable law or agreed to in writing, software + distributed under the License is distributed on an "AS IS" BASIS, + WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. + See the License for the specific language governing permissions and + limitations under the License. diff --git a/examples/extract_synthesis_inputs.py b/examples/extract_synthesis_inputs.py index 3878aebf..c798668a 100644 --- a/examples/extract_synthesis_inputs.py +++ b/examples/extract_synthesis_inputs.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. """ Extract inputs for synthesis diff --git a/examples/synthesize_neuron_external_diameter.py b/examples/synthesize_neuron_external_diameter.py index 4a635aa7..ac29725d 100644 --- a/examples/synthesize_neuron_external_diameter.py +++ b/examples/synthesize_neuron_external_diameter.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. """ Synthesize a cell with external diametrizer diff --git a/examples/synthesize_neuron_with_diameters.py b/examples/synthesize_neuron_with_diameters.py index 618416aa..c97d6b0a 100644 --- a/examples/synthesize_neuron_with_diameters.py +++ b/examples/synthesize_neuron_with_diameters.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. """ Synthesize neuron with a simple diameter model diff --git a/examples/synthesize_neurons.py b/examples/synthesize_neurons.py index d961a19b..f3193bb0 100644 --- a/examples/synthesize_neurons.py +++ b/examples/synthesize_neurons.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. """ Synthesize a population of neurons with the same parameters diff --git a/examples/synthesize_single_neuron.py b/examples/synthesize_single_neuron.py index 901abfe1..5ecda645 100644 --- a/examples/synthesize_single_neuron.py +++ b/examples/synthesize_single_neuron.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. """ Synthesize a single neuron diff --git a/neurots/__init__.py b/neurots/__init__.py index 98616f99..df0841aa 100644 --- a/neurots/__init__.py +++ b/neurots/__init__.py @@ -5,18 +5,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import importlib.metadata diff --git a/neurots/astrocyte/__init__.py b/neurots/astrocyte/__init__.py index 89c1b1e1..e0085704 100644 --- a/neurots/astrocyte/__init__.py +++ b/neurots/astrocyte/__init__.py @@ -2,15 +2,14 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. diff --git a/neurots/astrocyte/context.py b/neurots/astrocyte/context.py index d2f534f4..f13e1301 100644 --- a/neurots/astrocyte/context.py +++ b/neurots/astrocyte/context.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/astrocyte/grower.py b/neurots/astrocyte/grower.py index 9ae3cc90..01c87514 100644 --- a/neurots/astrocyte/grower.py +++ b/neurots/astrocyte/grower.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging from copy import deepcopy diff --git a/neurots/astrocyte/point_cloud.py b/neurots/astrocyte/point_cloud.py index c40527f2..0974cf51 100644 --- a/neurots/astrocyte/point_cloud.py +++ b/neurots/astrocyte/point_cloud.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/astrocyte/section.py b/neurots/astrocyte/section.py index aba296a7..1d2e2668 100644 --- a/neurots/astrocyte/section.py +++ b/neurots/astrocyte/section.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging from collections import namedtuple diff --git a/neurots/astrocyte/space_colonization.py b/neurots/astrocyte/space_colonization.py index c01bbe54..c3668c02 100644 --- a/neurots/astrocyte/space_colonization.py +++ b/neurots/astrocyte/space_colonization.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/astrocyte/tmd_utils.py b/neurots/astrocyte/tmd_utils.py index 824adbe6..ea4a91d2 100644 --- a/neurots/astrocyte/tmd_utils.py +++ b/neurots/astrocyte/tmd_utils.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/astrocyte/tree.py b/neurots/astrocyte/tree.py index 9928c717..0a6abc97 100644 --- a/neurots/astrocyte/tree.py +++ b/neurots/astrocyte/tree.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import copy diff --git a/neurots/basic.py b/neurots/basic.py index 2a948d28..921b70b1 100644 --- a/neurots/basic.py +++ b/neurots/basic.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import numpy as np diff --git a/neurots/extract_input/__init__.py b/neurots/extract_input/__init__.py index 4ee81b08..eeadd438 100644 --- a/neurots/extract_input/__init__.py +++ b/neurots/extract_input/__init__.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from neurots.extract_input.input_distributions import distributions # noqa from neurots.extract_input.input_parameters import parameters # noqa diff --git a/neurots/extract_input/from_TMD.py b/neurots/extract_input/from_TMD.py index d3286130..f39200c9 100644 --- a/neurots/extract_input/from_TMD.py +++ b/neurots/extract_input/from_TMD.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import tmd diff --git a/neurots/extract_input/from_diameter.py b/neurots/extract_input/from_diameter.py index 58d51b50..6e5020cd 100644 --- a/neurots/extract_input/from_diameter.py +++ b/neurots/extract_input/from_diameter.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from collections import defaultdict from itertools import chain diff --git a/neurots/extract_input/from_neurom.py b/neurots/extract_input/from_neurom.py index 46acc8e1..d15a67a3 100644 --- a/neurots/extract_input/from_neurom.py +++ b/neurots/extract_input/from_neurom.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import neurom as nm import numpy as np diff --git a/neurots/extract_input/input_distributions.py b/neurots/extract_input/input_distributions.py index 127240d5..dde58133 100644 --- a/neurots/extract_input/input_distributions.py +++ b/neurots/extract_input/input_distributions.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/extract_input/input_parameters.py b/neurots/extract_input/input_parameters.py index fce9bd6a..78607c1b 100644 --- a/neurots/extract_input/input_parameters.py +++ b/neurots/extract_input/input_parameters.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from neurots.utils import neurite_type_warning diff --git a/neurots/generate/__init__.py b/neurots/generate/__init__.py index 2e9af24e..8ddea316 100644 --- a/neurots/generate/__init__.py +++ b/neurots/generate/__init__.py @@ -2,15 +2,14 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. diff --git a/neurots/generate/algorithms/__init__.py b/neurots/generate/algorithms/__init__.py index 04749453..8fbfde75 100644 --- a/neurots/generate/algorithms/__init__.py +++ b/neurots/generate/algorithms/__init__.py @@ -2,15 +2,14 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. diff --git a/neurots/generate/algorithms/abstractgrower.py b/neurots/generate/algorithms/abstractgrower.py index e28238fe..f0c5e907 100644 --- a/neurots/generate/algorithms/abstractgrower.py +++ b/neurots/generate/algorithms/abstractgrower.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import abc import copy diff --git a/neurots/generate/algorithms/barcode.py b/neurots/generate/algorithms/barcode.py index 49f9d400..60721a15 100644 --- a/neurots/generate/algorithms/barcode.py +++ b/neurots/generate/algorithms/barcode.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import copy from collections import OrderedDict diff --git a/neurots/generate/algorithms/basicgrower.py b/neurots/generate/algorithms/basicgrower.py index ad5383c9..c0e7763e 100644 --- a/neurots/generate/algorithms/basicgrower.py +++ b/neurots/generate/algorithms/basicgrower.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/generate/algorithms/common.py b/neurots/generate/algorithms/common.py index 39222f28..08991346 100644 --- a/neurots/generate/algorithms/common.py +++ b/neurots/generate/algorithms/common.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import numpy as np diff --git a/neurots/generate/algorithms/tmdgrower.py b/neurots/generate/algorithms/tmdgrower.py index a8461958..2f35a983 100644 --- a/neurots/generate/algorithms/tmdgrower.py +++ b/neurots/generate/algorithms/tmdgrower.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import copy import logging diff --git a/neurots/generate/diametrizer.py b/neurots/generate/diametrizer.py index 6110eb65..a4f65bd8 100644 --- a/neurots/generate/diametrizer.py +++ b/neurots/generate/diametrizer.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import inspect diff --git a/neurots/generate/orientations.py b/neurots/generate/orientations.py index 23ba271b..48053110 100644 --- a/neurots/generate/orientations.py +++ b/neurots/generate/orientations.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import inspect import warnings diff --git a/neurots/generate/section.py b/neurots/generate/section.py index aa7b03a3..189992c7 100644 --- a/neurots/generate/section.py +++ b/neurots/generate/section.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from collections import deque diff --git a/neurots/generate/soma.py b/neurots/generate/soma.py index 6f128b62..bd976dc7 100644 --- a/neurots/generate/soma.py +++ b/neurots/generate/soma.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/generate/tree.py b/neurots/generate/tree.py index d0b88cbf..e7476532 100644 --- a/neurots/generate/tree.py +++ b/neurots/generate/tree.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import copy import json diff --git a/neurots/morphmath/__init__.py b/neurots/morphmath/__init__.py index ac66aa13..b1abca19 100644 --- a/neurots/morphmath/__init__.py +++ b/neurots/morphmath/__init__.py @@ -2,15 +2,14 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. diff --git a/neurots/morphmath/bifurcation.py b/neurots/morphmath/bifurcation.py index 13e245fb..bfaedd8e 100644 --- a/neurots/morphmath/bifurcation.py +++ b/neurots/morphmath/bifurcation.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import numpy as np diff --git a/neurots/morphmath/point_array.py b/neurots/morphmath/point_array.py index 4e9fdcfe..61e9a20f 100644 --- a/neurots/morphmath/point_array.py +++ b/neurots/morphmath/point_array.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import numpy as np diff --git a/neurots/morphmath/rotation.py b/neurots/morphmath/rotation.py index ca406f76..5d198f53 100644 --- a/neurots/morphmath/rotation.py +++ b/neurots/morphmath/rotation.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import math diff --git a/neurots/morphmath/sample.py b/neurots/morphmath/sample.py index e9b6207c..95e725e0 100644 --- a/neurots/morphmath/sample.py +++ b/neurots/morphmath/sample.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import numpy as np diff --git a/neurots/morphmath/utils.py b/neurots/morphmath/utils.py index 0fd69f26..7ed8a080 100644 --- a/neurots/morphmath/utils.py +++ b/neurots/morphmath/utils.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import numpy as np from scipy.spatial import KDTree diff --git a/neurots/preprocess/__init__.py b/neurots/preprocess/__init__.py index b97a5df9..22dda56d 100644 --- a/neurots/preprocess/__init__.py +++ b/neurots/preprocess/__init__.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from neurots.preprocess import preprocessors # noqa from neurots.preprocess import relevance_checkers # noqa diff --git a/neurots/preprocess/exceptions.py b/neurots/preprocess/exceptions.py index d9da5c8b..1132ade6 100644 --- a/neurots/preprocess/exceptions.py +++ b/neurots/preprocess/exceptions.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. class NeuroTSValidationError(Exception): diff --git a/neurots/preprocess/preprocessors.py b/neurots/preprocess/preprocessors.py index ca25bbee..2e1adef7 100644 --- a/neurots/preprocess/preprocessors.py +++ b/neurots/preprocess/preprocessors.py @@ -11,18 +11,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from neurots.generate.orientations import fit_3d_angles from neurots.preprocess.utils import register_global_preprocessor diff --git a/neurots/preprocess/relevance_checkers.py b/neurots/preprocess/relevance_checkers.py index 519a26b5..23afc34d 100644 --- a/neurots/preprocess/relevance_checkers.py +++ b/neurots/preprocess/relevance_checkers.py @@ -10,18 +10,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import logging diff --git a/neurots/preprocess/validity_checkers.py b/neurots/preprocess/validity_checkers.py index 146e1ea3..ca55c8e8 100644 --- a/neurots/preprocess/validity_checkers.py +++ b/neurots/preprocess/validity_checkers.py @@ -11,18 +11,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import warnings diff --git a/neurots/utils.py b/neurots/utils.py index 9042cc18..e8fcabc4 100644 --- a/neurots/utils.py +++ b/neurots/utils.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import warnings from copy import deepcopy diff --git a/neurots/validator.py b/neurots/validator.py index 67af5717..f6ad7ec7 100644 --- a/neurots/validator.py +++ b/neurots/validator.py @@ -5,18 +5,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import json diff --git a/setup.py b/setup.py index 0bb63196..6f370cdf 100644 --- a/setup.py +++ b/setup.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. from pathlib import Path @@ -64,7 +63,7 @@ "Tracker": "https://github.com/BlueBrain/NeuroTS/issues", "Source": "https://github.com/BlueBrain/NeuroTS", }, - license="GNU General Public License v3.0", + license="Apache License 2.0", packages=find_namespace_packages(include=["neurots*"]), python_requires=">=3.8", use_scm_version=True, diff --git a/tests/__init__.py b/tests/__init__.py index 645c82e0..68a72c88 100644 --- a/tests/__init__.py +++ b/tests/__init__.py @@ -2,15 +2,14 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. diff --git a/tests/astrocyte/__init__.py b/tests/astrocyte/__init__.py index c3a8760a..a201abf4 100644 --- a/tests/astrocyte/__init__.py +++ b/tests/astrocyte/__init__.py @@ -2,15 +2,14 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. diff --git a/tests/astrocyte/test_context.py b/tests/astrocyte/test_context.py index 7c3d3a04..acd31ca9 100644 --- a/tests/astrocyte/test_context.py +++ b/tests/astrocyte/test_context.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/astrocyte/test_endfeet_targets.py b/tests/astrocyte/test_endfeet_targets.py index 041ebc92..dcbfcb45 100644 --- a/tests/astrocyte/test_endfeet_targets.py +++ b/tests/astrocyte/test_endfeet_targets.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/astrocyte/test_grower.py b/tests/astrocyte/test_grower.py index 94171217..8b165443 100644 --- a/tests/astrocyte/test_grower.py +++ b/tests/astrocyte/test_grower.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import json from pathlib import Path diff --git a/tests/astrocyte/test_point_cloud.py b/tests/astrocyte/test_point_cloud.py index ef29de3c..54d9ea98 100644 --- a/tests/astrocyte/test_point_cloud.py +++ b/tests/astrocyte/test_point_cloud.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/astrocyte/test_section.py b/tests/astrocyte/test_section.py index 7bf88741..e0990da7 100644 --- a/tests/astrocyte/test_section.py +++ b/tests/astrocyte/test_section.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-class-docstring # pylint: disable=missing-function-docstring diff --git a/tests/astrocyte/test_space_colonization.py b/tests/astrocyte/test_space_colonization.py index 73a39ccd..e4d9c805 100644 --- a/tests/astrocyte/test_space_colonization.py +++ b/tests/astrocyte/test_space_colonization.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/astrocyte/test_tmd_utils.py b/tests/astrocyte/test_tmd_utils.py index b88ea177..2ae3214a 100644 --- a/tests/astrocyte/test_tmd_utils.py +++ b/tests/astrocyte/test_tmd_utils.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/astrocyte/test_tree.py b/tests/astrocyte/test_tree.py index c8562c1c..aaf428f2 100644 --- a/tests/astrocyte/test_tree.py +++ b/tests/astrocyte/test_tree.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_algo.py b/tests/test_algo.py index 48138c01..cfe07e1b 100644 --- a/tests/test_algo.py +++ b/tests/test_algo.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import json diff --git a/tests/test_diametrizer.py b/tests/test_diametrizer.py index dc7bb5dc..56240458 100644 --- a/tests/test_diametrizer.py +++ b/tests/test_diametrizer.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=no-member diff --git a/tests/test_examples.py b/tests/test_examples.py index e194a202..b5000518 100644 --- a/tests/test_examples.py +++ b/tests/test_examples.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import importlib.util as ilu diff --git a/tests/test_extract_input.py b/tests/test_extract_input.py index 5739097a..4f3d4c6a 100644 --- a/tests/test_extract_input.py +++ b/tests/test_extract_input.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name diff --git a/tests/test_generate_section.py b/tests/test_generate_section.py index 6850beda..7e52ccb2 100644 --- a/tests/test_generate_section.py +++ b/tests/test_generate_section.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name diff --git a/tests/test_generate_tree.py b/tests/test_generate_tree.py index 5d4d25a4..b3e46229 100644 --- a/tests/test_generate_tree.py +++ b/tests/test_generate_tree.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_json_schema.py b/tests/test_json_schema.py index a4c375d4..c63e57fa 100644 --- a/tests/test_json_schema.py +++ b/tests/test_json_schema.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import json import os diff --git a/tests/test_morphmath_bifurcation.py b/tests/test_morphmath_bifurcation.py index 05f7aa2b..6ec676b2 100644 --- a/tests/test_morphmath_bifurcation.py +++ b/tests/test_morphmath_bifurcation.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_morphmath_point_array.py b/tests/test_morphmath_point_array.py index e4e6b129..4b6dbbbb 100644 --- a/tests/test_morphmath_point_array.py +++ b/tests/test_morphmath_point_array.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name diff --git a/tests/test_morphmath_utils.py b/tests/test_morphmath_utils.py index c618e224..420e74a0 100644 --- a/tests/test_morphmath_utils.py +++ b/tests/test_morphmath_utils.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_neuron_functional.py b/tests/test_neuron_functional.py index aaa8f302..b89f1514 100644 --- a/tests/test_neuron_functional.py +++ b/tests/test_neuron_functional.py @@ -9,18 +9,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=missing-class-docstring diff --git a/tests/test_orientations.py b/tests/test_orientations.py index 74b121f4..abb25978 100644 --- a/tests/test_orientations.py +++ b/tests/test_orientations.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_rotation.py b/tests/test_rotation.py index 247d5922..7308d2b1 100644 --- a/tests/test_rotation.py +++ b/tests/test_rotation.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_sample.py b/tests/test_sample.py index da4f3387..8f635ae5 100644 --- a/tests/test_sample.py +++ b/tests/test_sample.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_soma_grower.py b/tests/test_soma_grower.py index 8588ac08..b36a9153 100644 --- a/tests/test_soma_grower.py +++ b/tests/test_soma_grower.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_tmd_synthesis_functionality.py b/tests/test_tmd_synthesis_functionality.py index 6503da2c..ed74c02f 100644 --- a/tests/test_tmd_synthesis_functionality.py +++ b/tests/test_tmd_synthesis_functionality.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. import json import os diff --git a/tests/test_utils.py b/tests/test_utils.py index 74173b19..19b1f121 100644 --- a/tests/test_utils.py +++ b/tests/test_utils.py @@ -2,18 +2,17 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring import json diff --git a/tests/test_validator.py b/tests/test_validator.py index a8bdb3ce..ae0c7118 100644 --- a/tests/test_validator.py +++ b/tests/test_validator.py @@ -2,18 +2,17 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# This program 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. -# -# This program 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 this program. If not, see . +# Licensed under the Apache License, Version 2.0 (the "License"); +# you may not use this file except in compliance with the License. +# You may obtain a copy of the License at + +# http://www.apache.org/licenses/LICENSE-2.0 + +# Unless required by applicable law or agreed to in writing, software +# distributed under the License is distributed on an "AS IS" BASIS, +# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. +# See the License for the specific language governing permissions and +# limitations under the License. # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name From 78e284688f324972d14edd779ce87eec23aa5114 Mon Sep 17 00:00:00 2001 From: Adrien Berchet Date: Wed, 15 May 2024 14:03:18 +0200 Subject: [PATCH 2/4] Chore: Use SPDX identifier in file headers --- examples/extract_synthesis_inputs.py | 12 +----------- examples/synthesize_neuron_external_diameter.py | 12 +----------- examples/synthesize_neuron_with_diameters.py | 12 +----------- examples/synthesize_neurons.py | 12 +----------- examples/synthesize_single_neuron.py | 12 +----------- neurots/__init__.py | 12 +----------- neurots/astrocyte/__init__.py | 12 +----------- neurots/astrocyte/context.py | 12 +----------- neurots/astrocyte/grower.py | 12 +----------- neurots/astrocyte/point_cloud.py | 12 +----------- neurots/astrocyte/section.py | 12 +----------- neurots/astrocyte/space_colonization.py | 12 +----------- neurots/astrocyte/tmd_utils.py | 12 +----------- neurots/astrocyte/tree.py | 12 +----------- neurots/basic.py | 12 +----------- neurots/extract_input/__init__.py | 12 +----------- neurots/extract_input/from_TMD.py | 12 +----------- neurots/extract_input/from_diameter.py | 12 +----------- neurots/extract_input/from_neurom.py | 12 +----------- neurots/extract_input/input_distributions.py | 12 +----------- neurots/extract_input/input_parameters.py | 12 +----------- neurots/generate/__init__.py | 12 +----------- neurots/generate/algorithms/__init__.py | 12 +----------- neurots/generate/algorithms/abstractgrower.py | 12 +----------- neurots/generate/algorithms/barcode.py | 12 +----------- neurots/generate/algorithms/basicgrower.py | 12 +----------- neurots/generate/algorithms/common.py | 12 +----------- neurots/generate/algorithms/tmdgrower.py | 12 +----------- neurots/generate/diametrizer.py | 12 +----------- neurots/generate/orientations.py | 12 +----------- neurots/generate/section.py | 12 +----------- neurots/generate/soma.py | 12 +----------- neurots/generate/tree.py | 12 +----------- neurots/morphmath/__init__.py | 12 +----------- neurots/morphmath/bifurcation.py | 12 +----------- neurots/morphmath/point_array.py | 12 +----------- neurots/morphmath/rotation.py | 12 +----------- neurots/morphmath/sample.py | 12 +----------- neurots/morphmath/utils.py | 12 +----------- neurots/preprocess/__init__.py | 12 +----------- neurots/preprocess/exceptions.py | 12 +----------- neurots/preprocess/preprocessors.py | 12 +----------- neurots/preprocess/relevance_checkers.py | 12 +----------- neurots/preprocess/validity_checkers.py | 12 +----------- neurots/utils.py | 12 +----------- neurots/validator.py | 12 +----------- setup.py | 12 +----------- tests/__init__.py | 12 +----------- tests/astrocyte/__init__.py | 12 +----------- tests/astrocyte/test_context.py | 12 +----------- tests/astrocyte/test_endfeet_targets.py | 12 +----------- tests/astrocyte/test_grower.py | 12 +----------- tests/astrocyte/test_point_cloud.py | 12 +----------- tests/astrocyte/test_section.py | 12 +----------- tests/astrocyte/test_space_colonization.py | 12 +----------- tests/astrocyte/test_tmd_utils.py | 12 +----------- tests/astrocyte/test_tree.py | 12 +----------- tests/test_algo.py | 12 +----------- tests/test_diametrizer.py | 12 +----------- tests/test_examples.py | 12 +----------- tests/test_extract_input.py | 12 +----------- tests/test_generate_section.py | 12 +----------- tests/test_generate_tree.py | 12 +----------- tests/test_json_schema.py | 12 +----------- tests/test_morphmath_bifurcation.py | 12 +----------- tests/test_morphmath_point_array.py | 12 +----------- tests/test_morphmath_utils.py | 12 +----------- tests/test_neuron_functional.py | 12 +----------- tests/test_orientations.py | 12 +----------- tests/test_rotation.py | 12 +----------- tests/test_sample.py | 12 +----------- tests/test_soma_grower.py | 12 +----------- tests/test_tmd_synthesis_functionality.py | 12 +----------- tests/test_utils.py | 12 +----------- tests/test_validator.py | 12 +----------- 75 files changed, 75 insertions(+), 825 deletions(-) diff --git a/examples/extract_synthesis_inputs.py b/examples/extract_synthesis_inputs.py index c798668a..b3b25a6b 100644 --- a/examples/extract_synthesis_inputs.py +++ b/examples/extract_synthesis_inputs.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 """ Extract inputs for synthesis diff --git a/examples/synthesize_neuron_external_diameter.py b/examples/synthesize_neuron_external_diameter.py index ac29725d..2a36fbad 100644 --- a/examples/synthesize_neuron_external_diameter.py +++ b/examples/synthesize_neuron_external_diameter.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 """ Synthesize a cell with external diametrizer diff --git a/examples/synthesize_neuron_with_diameters.py b/examples/synthesize_neuron_with_diameters.py index c97d6b0a..06d55410 100644 --- a/examples/synthesize_neuron_with_diameters.py +++ b/examples/synthesize_neuron_with_diameters.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 """ Synthesize neuron with a simple diameter model diff --git a/examples/synthesize_neurons.py b/examples/synthesize_neurons.py index f3193bb0..a8f98e10 100644 --- a/examples/synthesize_neurons.py +++ b/examples/synthesize_neurons.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 """ Synthesize a population of neurons with the same parameters diff --git a/examples/synthesize_single_neuron.py b/examples/synthesize_single_neuron.py index 5ecda645..240b7c85 100644 --- a/examples/synthesize_single_neuron.py +++ b/examples/synthesize_single_neuron.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 """ Synthesize a single neuron diff --git a/neurots/__init__.py b/neurots/__init__.py index df0841aa..ca580245 100644 --- a/neurots/__init__.py +++ b/neurots/__init__.py @@ -5,17 +5,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import importlib.metadata diff --git a/neurots/astrocyte/__init__.py b/neurots/astrocyte/__init__.py index e0085704..414fab5c 100644 --- a/neurots/astrocyte/__init__.py +++ b/neurots/astrocyte/__init__.py @@ -2,14 +2,4 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/context.py b/neurots/astrocyte/context.py index f13e1301..5b405e64 100644 --- a/neurots/astrocyte/context.py +++ b/neurots/astrocyte/context.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/astrocyte/grower.py b/neurots/astrocyte/grower.py index 01c87514..1489d9b1 100644 --- a/neurots/astrocyte/grower.py +++ b/neurots/astrocyte/grower.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging from copy import deepcopy diff --git a/neurots/astrocyte/point_cloud.py b/neurots/astrocyte/point_cloud.py index 0974cf51..37c52a44 100644 --- a/neurots/astrocyte/point_cloud.py +++ b/neurots/astrocyte/point_cloud.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/astrocyte/section.py b/neurots/astrocyte/section.py index 1d2e2668..327ffc4b 100644 --- a/neurots/astrocyte/section.py +++ b/neurots/astrocyte/section.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging from collections import namedtuple diff --git a/neurots/astrocyte/space_colonization.py b/neurots/astrocyte/space_colonization.py index c3668c02..e2d2a8bd 100644 --- a/neurots/astrocyte/space_colonization.py +++ b/neurots/astrocyte/space_colonization.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/astrocyte/tmd_utils.py b/neurots/astrocyte/tmd_utils.py index ea4a91d2..602faecd 100644 --- a/neurots/astrocyte/tmd_utils.py +++ b/neurots/astrocyte/tmd_utils.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/astrocyte/tree.py b/neurots/astrocyte/tree.py index 0a6abc97..5241a435 100644 --- a/neurots/astrocyte/tree.py +++ b/neurots/astrocyte/tree.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import copy diff --git a/neurots/basic.py b/neurots/basic.py index 921b70b1..f908caa7 100644 --- a/neurots/basic.py +++ b/neurots/basic.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import numpy as np diff --git a/neurots/extract_input/__init__.py b/neurots/extract_input/__init__.py index eeadd438..8550ac7c 100644 --- a/neurots/extract_input/__init__.py +++ b/neurots/extract_input/__init__.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from neurots.extract_input.input_distributions import distributions # noqa from neurots.extract_input.input_parameters import parameters # noqa diff --git a/neurots/extract_input/from_TMD.py b/neurots/extract_input/from_TMD.py index f39200c9..2b68e93d 100644 --- a/neurots/extract_input/from_TMD.py +++ b/neurots/extract_input/from_TMD.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import tmd diff --git a/neurots/extract_input/from_diameter.py b/neurots/extract_input/from_diameter.py index 6e5020cd..031940da 100644 --- a/neurots/extract_input/from_diameter.py +++ b/neurots/extract_input/from_diameter.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from collections import defaultdict from itertools import chain diff --git a/neurots/extract_input/from_neurom.py b/neurots/extract_input/from_neurom.py index d15a67a3..6db798f2 100644 --- a/neurots/extract_input/from_neurom.py +++ b/neurots/extract_input/from_neurom.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import neurom as nm import numpy as np diff --git a/neurots/extract_input/input_distributions.py b/neurots/extract_input/input_distributions.py index dde58133..5d503b4c 100644 --- a/neurots/extract_input/input_distributions.py +++ b/neurots/extract_input/input_distributions.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/extract_input/input_parameters.py b/neurots/extract_input/input_parameters.py index 78607c1b..53cfa730 100644 --- a/neurots/extract_input/input_parameters.py +++ b/neurots/extract_input/input_parameters.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from neurots.utils import neurite_type_warning diff --git a/neurots/generate/__init__.py b/neurots/generate/__init__.py index 8ddea316..815d5d0f 100644 --- a/neurots/generate/__init__.py +++ b/neurots/generate/__init__.py @@ -2,14 +2,4 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/__init__.py b/neurots/generate/algorithms/__init__.py index 8fbfde75..7a0420fa 100644 --- a/neurots/generate/algorithms/__init__.py +++ b/neurots/generate/algorithms/__init__.py @@ -2,14 +2,4 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/abstractgrower.py b/neurots/generate/algorithms/abstractgrower.py index f0c5e907..3a483fb2 100644 --- a/neurots/generate/algorithms/abstractgrower.py +++ b/neurots/generate/algorithms/abstractgrower.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import abc import copy diff --git a/neurots/generate/algorithms/barcode.py b/neurots/generate/algorithms/barcode.py index 60721a15..34b79e90 100644 --- a/neurots/generate/algorithms/barcode.py +++ b/neurots/generate/algorithms/barcode.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import copy from collections import OrderedDict diff --git a/neurots/generate/algorithms/basicgrower.py b/neurots/generate/algorithms/basicgrower.py index c0e7763e..34ec8893 100644 --- a/neurots/generate/algorithms/basicgrower.py +++ b/neurots/generate/algorithms/basicgrower.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/generate/algorithms/common.py b/neurots/generate/algorithms/common.py index 08991346..c88d2ad4 100644 --- a/neurots/generate/algorithms/common.py +++ b/neurots/generate/algorithms/common.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import numpy as np diff --git a/neurots/generate/algorithms/tmdgrower.py b/neurots/generate/algorithms/tmdgrower.py index 2f35a983..1f8eeb76 100644 --- a/neurots/generate/algorithms/tmdgrower.py +++ b/neurots/generate/algorithms/tmdgrower.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import copy import logging diff --git a/neurots/generate/diametrizer.py b/neurots/generate/diametrizer.py index a4f65bd8..2e964da9 100644 --- a/neurots/generate/diametrizer.py +++ b/neurots/generate/diametrizer.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import inspect diff --git a/neurots/generate/orientations.py b/neurots/generate/orientations.py index 48053110..2132532a 100644 --- a/neurots/generate/orientations.py +++ b/neurots/generate/orientations.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import inspect import warnings diff --git a/neurots/generate/section.py b/neurots/generate/section.py index 189992c7..07354d09 100644 --- a/neurots/generate/section.py +++ b/neurots/generate/section.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from collections import deque diff --git a/neurots/generate/soma.py b/neurots/generate/soma.py index bd976dc7..922bb6aa 100644 --- a/neurots/generate/soma.py +++ b/neurots/generate/soma.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/generate/tree.py b/neurots/generate/tree.py index e7476532..29c37870 100644 --- a/neurots/generate/tree.py +++ b/neurots/generate/tree.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import copy import json diff --git a/neurots/morphmath/__init__.py b/neurots/morphmath/__init__.py index b1abca19..34a45814 100644 --- a/neurots/morphmath/__init__.py +++ b/neurots/morphmath/__init__.py @@ -2,14 +2,4 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/bifurcation.py b/neurots/morphmath/bifurcation.py index bfaedd8e..d286254e 100644 --- a/neurots/morphmath/bifurcation.py +++ b/neurots/morphmath/bifurcation.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import numpy as np diff --git a/neurots/morphmath/point_array.py b/neurots/morphmath/point_array.py index 61e9a20f..b4b38d27 100644 --- a/neurots/morphmath/point_array.py +++ b/neurots/morphmath/point_array.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import numpy as np diff --git a/neurots/morphmath/rotation.py b/neurots/morphmath/rotation.py index 5d198f53..a268d418 100644 --- a/neurots/morphmath/rotation.py +++ b/neurots/morphmath/rotation.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import math diff --git a/neurots/morphmath/sample.py b/neurots/morphmath/sample.py index 95e725e0..6a574d8a 100644 --- a/neurots/morphmath/sample.py +++ b/neurots/morphmath/sample.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import numpy as np diff --git a/neurots/morphmath/utils.py b/neurots/morphmath/utils.py index 7ed8a080..d9ae60b3 100644 --- a/neurots/morphmath/utils.py +++ b/neurots/morphmath/utils.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import numpy as np from scipy.spatial import KDTree diff --git a/neurots/preprocess/__init__.py b/neurots/preprocess/__init__.py index 22dda56d..305702ac 100644 --- a/neurots/preprocess/__init__.py +++ b/neurots/preprocess/__init__.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from neurots.preprocess import preprocessors # noqa from neurots.preprocess import relevance_checkers # noqa diff --git a/neurots/preprocess/exceptions.py b/neurots/preprocess/exceptions.py index 1132ade6..a316bdb9 100644 --- a/neurots/preprocess/exceptions.py +++ b/neurots/preprocess/exceptions.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 class NeuroTSValidationError(Exception): diff --git a/neurots/preprocess/preprocessors.py b/neurots/preprocess/preprocessors.py index 2e1adef7..d4cb6fca 100644 --- a/neurots/preprocess/preprocessors.py +++ b/neurots/preprocess/preprocessors.py @@ -11,17 +11,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from neurots.generate.orientations import fit_3d_angles from neurots.preprocess.utils import register_global_preprocessor diff --git a/neurots/preprocess/relevance_checkers.py b/neurots/preprocess/relevance_checkers.py index 23afc34d..2d6273de 100644 --- a/neurots/preprocess/relevance_checkers.py +++ b/neurots/preprocess/relevance_checkers.py @@ -10,17 +10,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import logging diff --git a/neurots/preprocess/validity_checkers.py b/neurots/preprocess/validity_checkers.py index ca55c8e8..d6c65578 100644 --- a/neurots/preprocess/validity_checkers.py +++ b/neurots/preprocess/validity_checkers.py @@ -11,17 +11,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import warnings diff --git a/neurots/utils.py b/neurots/utils.py index e8fcabc4..8367c878 100644 --- a/neurots/utils.py +++ b/neurots/utils.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import warnings from copy import deepcopy diff --git a/neurots/validator.py b/neurots/validator.py index f6ad7ec7..46023d12 100644 --- a/neurots/validator.py +++ b/neurots/validator.py @@ -5,17 +5,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import json diff --git a/setup.py b/setup.py index 6f370cdf..66ffc13a 100644 --- a/setup.py +++ b/setup.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 from pathlib import Path diff --git a/tests/__init__.py b/tests/__init__.py index 68a72c88..212acbbc 100644 --- a/tests/__init__.py +++ b/tests/__init__.py @@ -2,14 +2,4 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/__init__.py b/tests/astrocyte/__init__.py index a201abf4..285e1ce2 100644 --- a/tests/astrocyte/__init__.py +++ b/tests/astrocyte/__init__.py @@ -2,14 +2,4 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_context.py b/tests/astrocyte/test_context.py index acd31ca9..fcd8285c 100644 --- a/tests/astrocyte/test_context.py +++ b/tests/astrocyte/test_context.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/astrocyte/test_endfeet_targets.py b/tests/astrocyte/test_endfeet_targets.py index dcbfcb45..3aa28abc 100644 --- a/tests/astrocyte/test_endfeet_targets.py +++ b/tests/astrocyte/test_endfeet_targets.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/astrocyte/test_grower.py b/tests/astrocyte/test_grower.py index 8b165443..3d052db0 100644 --- a/tests/astrocyte/test_grower.py +++ b/tests/astrocyte/test_grower.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import json from pathlib import Path diff --git a/tests/astrocyte/test_point_cloud.py b/tests/astrocyte/test_point_cloud.py index 54d9ea98..bc5713ad 100644 --- a/tests/astrocyte/test_point_cloud.py +++ b/tests/astrocyte/test_point_cloud.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/astrocyte/test_section.py b/tests/astrocyte/test_section.py index e0990da7..79c7cb36 100644 --- a/tests/astrocyte/test_section.py +++ b/tests/astrocyte/test_section.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-class-docstring # pylint: disable=missing-function-docstring diff --git a/tests/astrocyte/test_space_colonization.py b/tests/astrocyte/test_space_colonization.py index e4d9c805..d837b793 100644 --- a/tests/astrocyte/test_space_colonization.py +++ b/tests/astrocyte/test_space_colonization.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/astrocyte/test_tmd_utils.py b/tests/astrocyte/test_tmd_utils.py index 2ae3214a..4e45981c 100644 --- a/tests/astrocyte/test_tmd_utils.py +++ b/tests/astrocyte/test_tmd_utils.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/astrocyte/test_tree.py b/tests/astrocyte/test_tree.py index aaf428f2..f7df27e8 100644 --- a/tests/astrocyte/test_tree.py +++ b/tests/astrocyte/test_tree.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_algo.py b/tests/test_algo.py index cfe07e1b..42b7609f 100644 --- a/tests/test_algo.py +++ b/tests/test_algo.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import json diff --git a/tests/test_diametrizer.py b/tests/test_diametrizer.py index 56240458..5903908d 100644 --- a/tests/test_diametrizer.py +++ b/tests/test_diametrizer.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=no-member diff --git a/tests/test_examples.py b/tests/test_examples.py index b5000518..7b5557c5 100644 --- a/tests/test_examples.py +++ b/tests/test_examples.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import importlib.util as ilu diff --git a/tests/test_extract_input.py b/tests/test_extract_input.py index 4f3d4c6a..4bf2b1b6 100644 --- a/tests/test_extract_input.py +++ b/tests/test_extract_input.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name diff --git a/tests/test_generate_section.py b/tests/test_generate_section.py index 7e52ccb2..45e0472b 100644 --- a/tests/test_generate_section.py +++ b/tests/test_generate_section.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name diff --git a/tests/test_generate_tree.py b/tests/test_generate_tree.py index b3e46229..81f67227 100644 --- a/tests/test_generate_tree.py +++ b/tests/test_generate_tree.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_json_schema.py b/tests/test_json_schema.py index c63e57fa..5301806e 100644 --- a/tests/test_json_schema.py +++ b/tests/test_json_schema.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import json import os diff --git a/tests/test_morphmath_bifurcation.py b/tests/test_morphmath_bifurcation.py index 6ec676b2..50727673 100644 --- a/tests/test_morphmath_bifurcation.py +++ b/tests/test_morphmath_bifurcation.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_morphmath_point_array.py b/tests/test_morphmath_point_array.py index 4b6dbbbb..487eac54 100644 --- a/tests/test_morphmath_point_array.py +++ b/tests/test_morphmath_point_array.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name diff --git a/tests/test_morphmath_utils.py b/tests/test_morphmath_utils.py index 420e74a0..a584ab01 100644 --- a/tests/test_morphmath_utils.py +++ b/tests/test_morphmath_utils.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_neuron_functional.py b/tests/test_neuron_functional.py index b89f1514..346cf439 100644 --- a/tests/test_neuron_functional.py +++ b/tests/test_neuron_functional.py @@ -9,17 +9,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=missing-class-docstring diff --git a/tests/test_orientations.py b/tests/test_orientations.py index abb25978..0da94e4e 100644 --- a/tests/test_orientations.py +++ b/tests/test_orientations.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_rotation.py b/tests/test_rotation.py index 7308d2b1..61e30ef6 100644 --- a/tests/test_rotation.py +++ b/tests/test_rotation.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import numpy as np diff --git a/tests/test_sample.py b/tests/test_sample.py index 8f635ae5..ef7ea9e5 100644 --- a/tests/test_sample.py +++ b/tests/test_sample.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_soma_grower.py b/tests/test_soma_grower.py index b36a9153..607e7019 100644 --- a/tests/test_soma_grower.py +++ b/tests/test_soma_grower.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=protected-access diff --git a/tests/test_tmd_synthesis_functionality.py b/tests/test_tmd_synthesis_functionality.py index ed74c02f..eeb91b29 100644 --- a/tests/test_tmd_synthesis_functionality.py +++ b/tests/test_tmd_synthesis_functionality.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 import json import os diff --git a/tests/test_utils.py b/tests/test_utils.py index 19b1f121..d1c5f3b0 100644 --- a/tests/test_utils.py +++ b/tests/test_utils.py @@ -2,17 +2,7 @@ # Copyright (C) 2022 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring import json diff --git a/tests/test_validator.py b/tests/test_validator.py index ae0c7118..f92c8f44 100644 --- a/tests/test_validator.py +++ b/tests/test_validator.py @@ -2,17 +2,7 @@ # Copyright (C) 2021 Blue Brain Project, EPFL # -# Licensed under the Apache License, Version 2.0 (the "License"); -# you may not use this file except in compliance with the License. -# You may obtain a copy of the License at - -# http://www.apache.org/licenses/LICENSE-2.0 - -# Unless required by applicable law or agreed to in writing, software -# distributed under the License is distributed on an "AS IS" BASIS, -# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. -# See the License for the specific language governing permissions and -# limitations under the License. +# SPDX-License-Identifier: Apache-2.0 # pylint: disable=missing-function-docstring # pylint: disable=redefined-outer-name From 21633abc154a096ab07546bf18c7b3bd8d113ccf Mon Sep 17 00:00:00 2001 From: Adrien Berchet Date: Wed, 15 May 2024 14:05:05 +0200 Subject: [PATCH 3/4] Chore: Lint --- neurots/generate/grower.py | 7 +++++-- 1 file changed, 5 insertions(+), 2 deletions(-) diff --git a/neurots/generate/grower.py b/neurots/generate/grower.py index 7b2e793f..0cd263cb 100644 --- a/neurots/generate/grower.py +++ b/neurots/generate/grower.py @@ -305,14 +305,17 @@ def _simple_grow_trunks(self): legacy_mode = not isinstance(self.input_parameters[tree_types[0]]["orientation"], dict) - if not legacy_mode: - trunk_orientations_manager = self._trunk_orientations_class( + trunk_orientations_manager = ( + self._trunk_orientations_class( soma=self.soma_grower.soma, parameters=self.input_parameters, distributions=self.input_distributions, context=self.context, rng=self._rng, ) + if not legacy_mode + else None + ) for type_of_tree in tree_types: params = self.input_parameters[type_of_tree] From 861305072fbcbf24eab73202dd685ebf1b96291b Mon Sep 17 00:00:00 2001 From: Adrien Berchet Date: Wed, 15 May 2024 15:30:26 +0200 Subject: [PATCH 4/4] Chore: Update copyright dates --- examples/extract_synthesis_inputs.py | 2 +- examples/synthesize_neuron_external_diameter.py | 2 +- examples/synthesize_neuron_with_diameters.py | 2 +- examples/synthesize_neurons.py | 2 +- examples/synthesize_single_neuron.py | 2 +- neurots/__init__.py | 2 +- neurots/astrocyte/__init__.py | 2 +- neurots/astrocyte/context.py | 2 +- neurots/astrocyte/grower.py | 2 +- neurots/astrocyte/point_cloud.py | 2 +- neurots/astrocyte/section.py | 2 +- neurots/astrocyte/space_colonization.py | 2 +- neurots/astrocyte/tmd_utils.py | 2 +- neurots/astrocyte/tree.py | 2 +- neurots/basic.py | 2 +- neurots/extract_input/__init__.py | 2 +- neurots/extract_input/from_TMD.py | 2 +- neurots/extract_input/from_diameter.py | 2 +- neurots/extract_input/from_neurom.py | 2 +- neurots/extract_input/input_distributions.py | 2 +- neurots/extract_input/input_parameters.py | 2 +- neurots/generate/__init__.py | 2 +- neurots/generate/algorithms/__init__.py | 2 +- neurots/generate/algorithms/abstractgrower.py | 2 +- neurots/generate/algorithms/barcode.py | 2 +- neurots/generate/algorithms/basicgrower.py | 2 +- neurots/generate/algorithms/common.py | 2 +- neurots/generate/algorithms/tmdgrower.py | 2 +- neurots/generate/diametrizer.py | 2 +- neurots/generate/grower.py | 2 +- neurots/generate/orientations.py | 2 +- neurots/generate/section.py | 2 +- neurots/generate/soma.py | 2 +- neurots/generate/tree.py | 2 +- neurots/morphmath/__init__.py | 2 +- neurots/morphmath/bifurcation.py | 2 +- neurots/morphmath/point_array.py | 2 +- neurots/morphmath/rotation.py | 2 +- neurots/morphmath/sample.py | 2 +- neurots/morphmath/utils.py | 2 +- neurots/preprocess/__init__.py | 2 +- neurots/preprocess/exceptions.py | 2 +- neurots/preprocess/preprocessors.py | 2 +- neurots/preprocess/relevance_checkers.py | 2 +- neurots/preprocess/utils.py | 2 +- neurots/preprocess/validity_checkers.py | 2 +- neurots/utils.py | 2 +- neurots/validator.py | 2 +- setup.py | 2 +- tests/__init__.py | 2 +- tests/astrocyte/__init__.py | 2 +- tests/astrocyte/test_context.py | 2 +- tests/astrocyte/test_endfeet_targets.py | 2 +- tests/astrocyte/test_grower.py | 2 +- tests/astrocyte/test_point_cloud.py | 2 +- tests/astrocyte/test_section.py | 2 +- tests/astrocyte/test_space_colonization.py | 2 +- tests/astrocyte/test_tmd_utils.py | 2 +- tests/astrocyte/test_tree.py | 2 +- tests/test_algo.py | 2 +- tests/test_diametrizer.py | 2 +- tests/test_examples.py | 2 +- tests/test_extract_input.py | 2 +- tests/test_generate_section.py | 2 +- tests/test_generate_tree.py | 2 +- tests/test_json_schema.py | 2 +- tests/test_morphmath_bifurcation.py | 2 +- tests/test_morphmath_point_array.py | 2 +- tests/test_morphmath_utils.py | 2 +- tests/test_neuron_functional.py | 2 +- tests/test_orientations.py | 2 +- tests/test_rotation.py | 2 +- tests/test_sample.py | 2 +- tests/test_soma_grower.py | 2 +- tests/test_tmd_synthesis_functionality.py | 2 +- tests/test_utils.py | 2 +- tests/test_validator.py | 2 +- 77 files changed, 77 insertions(+), 77 deletions(-) diff --git a/examples/extract_synthesis_inputs.py b/examples/extract_synthesis_inputs.py index b3b25a6b..8c2f4587 100644 --- a/examples/extract_synthesis_inputs.py +++ b/examples/extract_synthesis_inputs.py @@ -1,6 +1,6 @@ # noqa -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/examples/synthesize_neuron_external_diameter.py b/examples/synthesize_neuron_external_diameter.py index 2a36fbad..e087b681 100644 --- a/examples/synthesize_neuron_external_diameter.py +++ b/examples/synthesize_neuron_external_diameter.py @@ -1,6 +1,6 @@ # noqa -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/examples/synthesize_neuron_with_diameters.py b/examples/synthesize_neuron_with_diameters.py index 06d55410..7eab86db 100644 --- a/examples/synthesize_neuron_with_diameters.py +++ b/examples/synthesize_neuron_with_diameters.py @@ -1,6 +1,6 @@ # noqa -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/examples/synthesize_neurons.py b/examples/synthesize_neurons.py index a8f98e10..add7254c 100644 --- a/examples/synthesize_neurons.py +++ b/examples/synthesize_neurons.py @@ -1,6 +1,6 @@ # noqa -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/examples/synthesize_single_neuron.py b/examples/synthesize_single_neuron.py index 240b7c85..28da5381 100644 --- a/examples/synthesize_single_neuron.py +++ b/examples/synthesize_single_neuron.py @@ -1,6 +1,6 @@ # noqa -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/__init__.py b/neurots/__init__.py index ca580245..18da466f 100644 --- a/neurots/__init__.py +++ b/neurots/__init__.py @@ -3,7 +3,7 @@ Synthesis of artificial neurons using their topological profiles package. """ -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/__init__.py b/neurots/astrocyte/__init__.py index 414fab5c..cfb58171 100644 --- a/neurots/astrocyte/__init__.py +++ b/neurots/astrocyte/__init__.py @@ -1,5 +1,5 @@ """Module to generate astrocyte morphologies.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/context.py b/neurots/astrocyte/context.py index 5b405e64..b2b5e774 100644 --- a/neurots/astrocyte/context.py +++ b/neurots/astrocyte/context.py @@ -1,6 +1,6 @@ """Space colonization context data structures.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/grower.py b/neurots/astrocyte/grower.py index 1489d9b1..1b453879 100644 --- a/neurots/astrocyte/grower.py +++ b/neurots/astrocyte/grower.py @@ -1,6 +1,6 @@ """NeuroTS class: Grower object that contains the grower functionality.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/point_cloud.py b/neurots/astrocyte/point_cloud.py index 37c52a44..afa9aec1 100644 --- a/neurots/astrocyte/point_cloud.py +++ b/neurots/astrocyte/point_cloud.py @@ -1,6 +1,6 @@ """Point cloud class for synapses.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/section.py b/neurots/astrocyte/section.py index 327ffc4b..02acd9ef 100644 --- a/neurots/astrocyte/section.py +++ b/neurots/astrocyte/section.py @@ -1,6 +1,6 @@ """Astrocyte section growers.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/space_colonization.py b/neurots/astrocyte/space_colonization.py index e2d2a8bd..69f2abc6 100644 --- a/neurots/astrocyte/space_colonization.py +++ b/neurots/astrocyte/space_colonization.py @@ -1,6 +1,6 @@ """Basic class for TreeGrower Algorithms for space colonization.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/tmd_utils.py b/neurots/astrocyte/tmd_utils.py index 602faecd..e34b7821 100644 --- a/neurots/astrocyte/tmd_utils.py +++ b/neurots/astrocyte/tmd_utils.py @@ -1,6 +1,6 @@ """Barcode utils.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/astrocyte/tree.py b/neurots/astrocyte/tree.py index 5241a435..1b0610fe 100644 --- a/neurots/astrocyte/tree.py +++ b/neurots/astrocyte/tree.py @@ -1,6 +1,6 @@ """NeuroTS class: Tree.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/basic.py b/neurots/basic.py index f908caa7..6987a18d 100644 --- a/neurots/basic.py +++ b/neurots/basic.py @@ -1,6 +1,6 @@ """A file to store general basic functionality needed in different modules.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/extract_input/__init__.py b/neurots/extract_input/__init__.py index 8550ac7c..f05a01e8 100644 --- a/neurots/extract_input/__init__.py +++ b/neurots/extract_input/__init__.py @@ -1,6 +1,6 @@ """Module to extract morphometrics and TMD-input from a set of tree-shaped cells.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/extract_input/from_TMD.py b/neurots/extract_input/from_TMD.py index 2b68e93d..c7145889 100644 --- a/neurots/extract_input/from_TMD.py +++ b/neurots/extract_input/from_TMD.py @@ -1,6 +1,6 @@ """Extracts the distributions associated with TMD module.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/extract_input/from_diameter.py b/neurots/extract_input/from_diameter.py index 031940da..a1483b24 100644 --- a/neurots/extract_input/from_diameter.py +++ b/neurots/extract_input/from_diameter.py @@ -1,6 +1,6 @@ """Module to extract morphometrics about diameters of cells.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/extract_input/from_neurom.py b/neurots/extract_input/from_neurom.py index 6db798f2..40a29ac8 100644 --- a/neurots/extract_input/from_neurom.py +++ b/neurots/extract_input/from_neurom.py @@ -1,6 +1,6 @@ """Extracts the distributions associated with NeuroM module.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/extract_input/input_distributions.py b/neurots/extract_input/input_distributions.py index 5d503b4c..9c0c4d77 100644 --- a/neurots/extract_input/input_distributions.py +++ b/neurots/extract_input/input_distributions.py @@ -1,6 +1,6 @@ """Input distributions.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/extract_input/input_parameters.py b/neurots/extract_input/input_parameters.py index 53cfa730..3a353045 100644 --- a/neurots/extract_input/input_parameters.py +++ b/neurots/extract_input/input_parameters.py @@ -1,6 +1,6 @@ """Input parameters functions.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/__init__.py b/neurots/generate/__init__.py index 815d5d0f..bd989583 100644 --- a/neurots/generate/__init__.py +++ b/neurots/generate/__init__.py @@ -1,5 +1,5 @@ """The module used to generate the morphologies.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/__init__.py b/neurots/generate/algorithms/__init__.py index 7a0420fa..abc90511 100644 --- a/neurots/generate/algorithms/__init__.py +++ b/neurots/generate/algorithms/__init__.py @@ -1,5 +1,5 @@ """Tools used in morphology generation.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/abstractgrower.py b/neurots/generate/algorithms/abstractgrower.py index 3a483fb2..2b13cd3b 100644 --- a/neurots/generate/algorithms/abstractgrower.py +++ b/neurots/generate/algorithms/abstractgrower.py @@ -1,6 +1,6 @@ """Abstract class for TreeGrower Algorithms.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/barcode.py b/neurots/generate/algorithms/barcode.py index 34b79e90..85e64a5c 100644 --- a/neurots/generate/algorithms/barcode.py +++ b/neurots/generate/algorithms/barcode.py @@ -1,6 +1,6 @@ """Class to collect all TMD related info used in NeuroTS.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/basicgrower.py b/neurots/generate/algorithms/basicgrower.py index 34ec8893..82339faa 100644 --- a/neurots/generate/algorithms/basicgrower.py +++ b/neurots/generate/algorithms/basicgrower.py @@ -1,6 +1,6 @@ """Basic class for TreeGrower Algorithms.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/common.py b/neurots/generate/algorithms/common.py index c88d2ad4..da92f3ca 100644 --- a/neurots/generate/algorithms/common.py +++ b/neurots/generate/algorithms/common.py @@ -1,6 +1,6 @@ """Functionality used by multiple algorithms.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/algorithms/tmdgrower.py b/neurots/generate/algorithms/tmdgrower.py index 1f8eeb76..9488d0fe 100644 --- a/neurots/generate/algorithms/tmdgrower.py +++ b/neurots/generate/algorithms/tmdgrower.py @@ -1,6 +1,6 @@ """Basic class for TreeGrower Algorithms.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/diametrizer.py b/neurots/generate/diametrizer.py index 2e964da9..885aab4d 100644 --- a/neurots/generate/diametrizer.py +++ b/neurots/generate/diametrizer.py @@ -1,6 +1,6 @@ """Models to create diameters of synthesized cells.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/grower.py b/neurots/generate/grower.py index 0cd263cb..7543b38b 100644 --- a/neurots/generate/grower.py +++ b/neurots/generate/grower.py @@ -1,6 +1,6 @@ """NeuroTS class: Grower object that contains the grower functionality.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # This program is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by diff --git a/neurots/generate/orientations.py b/neurots/generate/orientations.py index 2132532a..e2ef7fc3 100644 --- a/neurots/generate/orientations.py +++ b/neurots/generate/orientations.py @@ -1,6 +1,6 @@ """Module for handling the calculation of neurite orientations.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/section.py b/neurots/generate/section.py index 07354d09..1280435b 100644 --- a/neurots/generate/section.py +++ b/neurots/generate/section.py @@ -1,6 +1,6 @@ """NeuroTS class: Section grower.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/soma.py b/neurots/generate/soma.py index 922bb6aa..54371305 100644 --- a/neurots/generate/soma.py +++ b/neurots/generate/soma.py @@ -1,6 +1,6 @@ """NeuroTS class: Soma.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/generate/tree.py b/neurots/generate/tree.py index 29c37870..3f531967 100644 --- a/neurots/generate/tree.py +++ b/neurots/generate/tree.py @@ -1,6 +1,6 @@ """NeuroTS class: Tree.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/__init__.py b/neurots/morphmath/__init__.py index 34a45814..a016758d 100644 --- a/neurots/morphmath/__init__.py +++ b/neurots/morphmath/__init__.py @@ -1,5 +1,5 @@ """Mathematical tools for morphologies.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/bifurcation.py b/neurots/morphmath/bifurcation.py index d286254e..75000d81 100644 --- a/neurots/morphmath/bifurcation.py +++ b/neurots/morphmath/bifurcation.py @@ -1,6 +1,6 @@ """Definition of bifurcation functionality.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/point_array.py b/neurots/morphmath/point_array.py index b4b38d27..90b503f2 100644 --- a/neurots/morphmath/point_array.py +++ b/neurots/morphmath/point_array.py @@ -1,6 +1,6 @@ """Point array class.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/rotation.py b/neurots/morphmath/rotation.py index a268d418..95d39a29 100644 --- a/neurots/morphmath/rotation.py +++ b/neurots/morphmath/rotation.py @@ -1,6 +1,6 @@ """Definition of basic rotation functionality.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/sample.py b/neurots/morphmath/sample.py index 6a574d8a..bd68c3e3 100644 --- a/neurots/morphmath/sample.py +++ b/neurots/morphmath/sample.py @@ -1,6 +1,6 @@ """Definition of distributions to sample from.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/morphmath/utils.py b/neurots/morphmath/utils.py index d9ae60b3..6f86398e 100644 --- a/neurots/morphmath/utils.py +++ b/neurots/morphmath/utils.py @@ -1,6 +1,6 @@ """Util functions useful for general purposes.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/preprocess/__init__.py b/neurots/preprocess/__init__.py index 305702ac..ea9a347d 100644 --- a/neurots/preprocess/__init__.py +++ b/neurots/preprocess/__init__.py @@ -1,6 +1,6 @@ """Functions used for preprocessing.""" -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/preprocess/exceptions.py b/neurots/preprocess/exceptions.py index a316bdb9..a2f8693a 100644 --- a/neurots/preprocess/exceptions.py +++ b/neurots/preprocess/exceptions.py @@ -1,6 +1,6 @@ """Exceptions raised during validation process.""" -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/preprocess/preprocessors.py b/neurots/preprocess/preprocessors.py index d4cb6fca..95b283c7 100644 --- a/neurots/preprocess/preprocessors.py +++ b/neurots/preprocess/preprocessors.py @@ -9,7 +9,7 @@ `@register_global_processor` if they need the entire data. """ -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/preprocess/relevance_checkers.py b/neurots/preprocess/relevance_checkers.py index 2d6273de..31da7da7 100644 --- a/neurots/preprocess/relevance_checkers.py +++ b/neurots/preprocess/relevance_checkers.py @@ -8,7 +8,7 @@ These functions can be called either in validity checkers or inside the grower codes. """ -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/preprocess/utils.py b/neurots/preprocess/utils.py index dde62a56..d27fe104 100644 --- a/neurots/preprocess/utils.py +++ b/neurots/preprocess/utils.py @@ -1,6 +1,6 @@ """Some utils for preprocessing.""" -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # This program is free software: you can redistribute it and/or modify # it under the terms of the GNU General Public License as published by diff --git a/neurots/preprocess/validity_checkers.py b/neurots/preprocess/validity_checkers.py index d6c65578..758a6adb 100644 --- a/neurots/preprocess/validity_checkers.py +++ b/neurots/preprocess/validity_checkers.py @@ -9,7 +9,7 @@ `@register_global_validator` if they need the entire data. """ -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/utils.py b/neurots/utils.py index 8367c878..97adbf6d 100644 --- a/neurots/utils.py +++ b/neurots/utils.py @@ -1,6 +1,6 @@ """NeuroTS utils used by multiple tools.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/neurots/validator.py b/neurots/validator.py index 46023d12..1ab16547 100644 --- a/neurots/validator.py +++ b/neurots/validator.py @@ -3,7 +3,7 @@ Visit https://json-schema.org/understanding-json-schema/ for more information about JSON schemas. """ -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/setup.py b/setup.py index 66ffc13a..60f28c68 100644 --- a/setup.py +++ b/setup.py @@ -1,6 +1,6 @@ """Setup for the NeuroTS package.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/__init__.py b/tests/__init__.py index 212acbbc..c1f17852 100644 --- a/tests/__init__.py +++ b/tests/__init__.py @@ -1,5 +1,5 @@ """Tests suite for the NeuroTS package.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/__init__.py b/tests/astrocyte/__init__.py index 285e1ce2..8a17217e 100644 --- a/tests/astrocyte/__init__.py +++ b/tests/astrocyte/__init__.py @@ -1,5 +1,5 @@ """Tests for the astrocyte sub-package of NeuroTS.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_context.py b/tests/astrocyte/test_context.py index fcd8285c..a2809f13 100644 --- a/tests/astrocyte/test_context.py +++ b/tests/astrocyte/test_context.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.context code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_endfeet_targets.py b/tests/astrocyte/test_endfeet_targets.py index 3aa28abc..5bfcf31b 100644 --- a/tests/astrocyte/test_endfeet_targets.py +++ b/tests/astrocyte/test_endfeet_targets.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.context.EndfeetTargets code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_grower.py b/tests/astrocyte/test_grower.py index 3d052db0..204c0fc8 100644 --- a/tests/astrocyte/test_grower.py +++ b/tests/astrocyte/test_grower.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.grower code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_point_cloud.py b/tests/astrocyte/test_point_cloud.py index bc5713ad..6ea826dc 100644 --- a/tests/astrocyte/test_point_cloud.py +++ b/tests/astrocyte/test_point_cloud.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.point_cloud code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_section.py b/tests/astrocyte/test_section.py index 79c7cb36..35b08d89 100644 --- a/tests/astrocyte/test_section.py +++ b/tests/astrocyte/test_section.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.section code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_space_colonization.py b/tests/astrocyte/test_space_colonization.py index d837b793..53f91e5d 100644 --- a/tests/astrocyte/test_space_colonization.py +++ b/tests/astrocyte/test_space_colonization.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.space_colonization code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_tmd_utils.py b/tests/astrocyte/test_tmd_utils.py index 4e45981c..dbafebeb 100644 --- a/tests/astrocyte/test_tmd_utils.py +++ b/tests/astrocyte/test_tmd_utils.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.tmd_utils code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/astrocyte/test_tree.py b/tests/astrocyte/test_tree.py index f7df27e8..c58febeb 100644 --- a/tests/astrocyte/test_tree.py +++ b/tests/astrocyte/test_tree.py @@ -1,6 +1,6 @@ """Test neurots.astrocyte.tree code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_algo.py b/tests/test_algo.py index 42b7609f..c0553f58 100644 --- a/tests/test_algo.py +++ b/tests/test_algo.py @@ -1,6 +1,6 @@ """Test neurots.generate.section code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_diametrizer.py b/tests/test_diametrizer.py index 5903908d..cda7787c 100644 --- a/tests/test_diametrizer.py +++ b/tests/test_diametrizer.py @@ -1,6 +1,6 @@ """Test neurots.generate.diametrizer code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_examples.py b/tests/test_examples.py index 7b5557c5..f9af7897 100644 --- a/tests/test_examples.py +++ b/tests/test_examples.py @@ -1,6 +1,6 @@ """Test the examples.""" -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_extract_input.py b/tests/test_extract_input.py index 4bf2b1b6..c95592ad 100644 --- a/tests/test_extract_input.py +++ b/tests/test_extract_input.py @@ -1,6 +1,6 @@ """Test neurots.extract_input code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_generate_section.py b/tests/test_generate_section.py index 45e0472b..607f4ab5 100644 --- a/tests/test_generate_section.py +++ b/tests/test_generate_section.py @@ -1,6 +1,6 @@ """Test neurots.generate.section code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_generate_tree.py b/tests/test_generate_tree.py index 81f67227..4810ccbe 100644 --- a/tests/test_generate_tree.py +++ b/tests/test_generate_tree.py @@ -1,6 +1,6 @@ """Test tree generation.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_json_schema.py b/tests/test_json_schema.py index 5301806e..a3f008d8 100644 --- a/tests/test_json_schema.py +++ b/tests/test_json_schema.py @@ -1,6 +1,6 @@ """Test JSON schema validation.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_morphmath_bifurcation.py b/tests/test_morphmath_bifurcation.py index 50727673..2b74e603 100644 --- a/tests/test_morphmath_bifurcation.py +++ b/tests/test_morphmath_bifurcation.py @@ -1,6 +1,6 @@ """Test neurots.morphmath.bifurcation code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_morphmath_point_array.py b/tests/test_morphmath_point_array.py index 487eac54..9843934d 100644 --- a/tests/test_morphmath_point_array.py +++ b/tests/test_morphmath_point_array.py @@ -1,6 +1,6 @@ """Test neurots.morphmath.point_array code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_morphmath_utils.py b/tests/test_morphmath_utils.py index a584ab01..41715795 100644 --- a/tests/test_morphmath_utils.py +++ b/tests/test_morphmath_utils.py @@ -1,6 +1,6 @@ """Test neurots.morphmath.utils code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_neuron_functional.py b/tests/test_neuron_functional.py index 346cf439..2eb539b5 100644 --- a/tests/test_neuron_functional.py +++ b/tests/test_neuron_functional.py @@ -7,7 +7,7 @@ Finally, we need to check the TMD of the produced cells. """ -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_orientations.py b/tests/test_orientations.py index 0da94e4e..43d8ac2c 100644 --- a/tests/test_orientations.py +++ b/tests/test_orientations.py @@ -1,6 +1,6 @@ """Test neurots.generate.orientations code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_rotation.py b/tests/test_rotation.py index 61e30ef6..22bf7f43 100644 --- a/tests/test_rotation.py +++ b/tests/test_rotation.py @@ -1,6 +1,6 @@ """Test neurots.morphmath.rotation code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_sample.py b/tests/test_sample.py index ef7ea9e5..25d83108 100644 --- a/tests/test_sample.py +++ b/tests/test_sample.py @@ -1,6 +1,6 @@ """Test neurots.morphmath.sample code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_soma_grower.py b/tests/test_soma_grower.py index 607e7019..b9aff7d9 100644 --- a/tests/test_soma_grower.py +++ b/tests/test_soma_grower.py @@ -1,6 +1,6 @@ """Test neurots.generate.soma code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_tmd_synthesis_functionality.py b/tests/test_tmd_synthesis_functionality.py index eeb91b29..0b249b9e 100644 --- a/tests/test_tmd_synthesis_functionality.py +++ b/tests/test_tmd_synthesis_functionality.py @@ -1,6 +1,6 @@ """Test neurots.generate.section code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_utils.py b/tests/test_utils.py index d1c5f3b0..6d12a241 100644 --- a/tests/test_utils.py +++ b/tests/test_utils.py @@ -1,6 +1,6 @@ """Test NeuroTS.utils code.""" -# Copyright (C) 2022 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0 diff --git a/tests/test_validator.py b/tests/test_validator.py index f92c8f44..b10bf484 100644 --- a/tests/test_validator.py +++ b/tests/test_validator.py @@ -1,6 +1,6 @@ """Test neurots.validator code.""" -# Copyright (C) 2021 Blue Brain Project, EPFL +# Copyright (C) 2021-2024 Blue Brain Project, EPFL # # SPDX-License-Identifier: Apache-2.0