Merge branch 'trajectory-generation' of https://github.com/pietroepis/PyCTBN into trajectory-generation
Pietro
3 years ago
commit
b648d52671
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*.js linguist-vendored |
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*.html linguist-vendored |
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*.css linguist-vendored |
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on: |
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push: |
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# Sequence of patterns matched against refs/tags |
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tags: |
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- 'v*' # Push events to matching v*, i.e. v1.0, v20.15.10 |
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name: Upload Release Asset |
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jobs: |
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build: |
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runs-on: ubuntu-latest |
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strategy: |
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matrix: |
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python-version: [3.8] |
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name: Upload Release Asset |
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steps: |
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- uses: actions/checkout@v2 |
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- name: Set up Python ${{ matrix.python-version }} |
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uses: actions/setup-python@v2 |
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with: |
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python-version: ${{ matrix.python-version }} |
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- name: Install dependencies |
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run: | |
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python -m pip install --upgrade pip |
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python -m pip install flake8 pytest |
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if [ -f requirements.txt ]; then pip install -r requirements.txt; fi |
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- name: Lint with flake8 |
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run: | |
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# stop the build if there are Python syntax errors or undefined names |
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flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics |
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# exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide |
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flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics |
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- name: Test with pytest |
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run: | |
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pytest PyCTBN/tests/ |
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- name: Install dependencies |
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run: | |
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python -m pip install --upgrade pip |
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python -m pip install flake8 pytest |
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if [ -f requirements.txt ]; then pip install -r requirements.txt; fi |
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- name: Install pypa/build |
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run: | |
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python -m pip install build |
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- name: Build project # This would actually build your project, using zip for an example artifact |
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run: | |
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python -m build --sdist --wheel --outdir dist/. |
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- name: Create Release |
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id: create_release |
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uses: actions/create-release@v1 |
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env: |
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} |
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with: |
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tag_name: ${{ github.ref }} |
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release_name: Release ${{ github.ref }} |
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draft: false |
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prerelease: false |
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- name: Upload Release Asset |
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id: upload-release-asset |
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uses: dwenegar/upload-release-assets@v1 |
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env: |
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GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} |
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with: |
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release_id: ${{ steps.create_release.outputs.id }} |
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assets_path: ./dist |
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MIT License |
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Copyright (c) 2021 MADLabUnimib developers |
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Permission is hereby granted, free of charge, to any person obtaining a copy |
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of this software and associated documentation files (the "Software"), to deal |
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in the Software without restriction, including without limitation the rights |
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to use, copy, modify, merge, publish, distribute, sublicense, and/or sell |
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copies of the Software, and to permit persons to whom the Software is |
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furnished to do so, subject to the following conditions: |
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|
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The above copyright notice and this permission notice shall be included in all |
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copies or substantial portions of the Software. |
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|
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR |
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IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, |
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FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE |
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AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER |
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LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, |
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OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE |
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SOFTWARE. |
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@ -1,3 +1,6 @@ |
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# License: MIT License |
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from .optimizer import Optimizer |
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from .tabu_search import TabuSearch |
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from .hill_climbing_search import HillClimbing |
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# License: MIT License |
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from .abstract_importer import AbstractImporter |
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from .cache import Cache |
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from .json_importer import JsonImporter |
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# License: MIT License |
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import PyCTBN.PyCTBN |
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from PyCTBN.PyCTBN import * |
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import glob |
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import os |
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import sys |
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sys.path.append("./PyCTBN/") |
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import structure_graph.network_graph as ng |
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import structure_graph.sample_path as sp |
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import structure_graph.set_of_cims as sofc |
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import estimators.parameters_estimator as pe |
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import utility.json_importer as ji |
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def main(): |
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read_files = glob.glob(os.path.join('./data', "*.json")) #Take all json files in this dir |
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#import data |
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importer = ji.JsonImporter(read_files[0], 'samples', 'dyn.str', 'variables', 'Time', 'Name') |
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#Create a SamplePath Obj |
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s1 = sp.SamplePath(importer) |
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#Build The trajectries and the structural infos |
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s1.build_trajectories() |
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s1.build_structure() |
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#From The Structure Object build the Graph |
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g = ng.NetworkGraph(s1.structure) |
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#Select a node you want to estimate the parameters |
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node = g.nodes[1] |
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#Init the graph specifically for THIS node |
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g.fast_init(node) |
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#Use SamplePath and Grpah to create a ParametersEstimator Object |
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p1 = pe.ParametersEstimator(s1, g) |
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#Init the peEst specifically for THIS node |
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p1.fast_init(node) |
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#Compute the parameters |
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sofc1 = p1.compute_parameters_for_node(node) |
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#The est CIMS are inside the resultant SetOfCIms Obj |
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print(sofc1.actual_cims) |
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if __name__ == "__main__": |
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main() |
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from setuptools import setup, find_packages |
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setup(name='PyCTBN', |
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version='1.0', |
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url='https://github.com/philipMartini/PyCTBN', |
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license='MIT', |
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author=['Alessandro Bregoli', 'Filippo Martini','Luca Moretti'], |
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author_email=['a.bregoli1@campus.unimib.it', 'f.martini@campus.unimib.it','lucamoretti96@gmail.com'], |
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description='A Continuous Time Bayesian Networks Library', |
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packages=find_packages('.', exclude=['tests']), |
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#packages=['PyCTBN.PyCTBN'], |
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install_requires=[ |
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'numpy', 'pandas', 'networkx', 'scipy', 'matplotlib', 'tqdm'], |
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dependency_links=['https://github.com/numpy/numpy', 'https://github.com/pandas-dev/pandas', |
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'https://github.com/networkx/networkx', 'https://github.com/scipy/scipy', |
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'https://github.com/tqdm/tqdm'], |
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#long_description=open('../README.md').read(), |
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zip_safe=False, |
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python_requires='>=3.6') |
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# License: MIT License |
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# Sphinx build info version 1 |
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# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done. |
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config: b22e9cd1b245962cc8b033cb6fcce1d2 |
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config: 481da5f157a263da657ebbabcd85e902 |
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tags: 645f666f9bcd5a90fca523b33c5a78b7 |
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