mathjson-solver 1.17.0__tar.gz → 1.19.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- mathjson_solver-1.19.0/.github/ISSUE_TEMPLATE/bug_report.md +25 -0
- mathjson_solver-1.19.0/.github/workflows/python-app.yml +33 -0
- mathjson_solver-1.19.0/.github/workflows/test-coverage.yml +51 -0
- mathjson_solver-1.19.0/.gitignore +129 -0
- mathjson_solver-1.19.0/CODE_OF_CONDUCT.md +124 -0
- mathjson_solver-1.19.0/CONTRIBUTING.md +6 -0
- {mathjson_solver-1.17.0/src/mathjson_solver.egg-info → mathjson_solver-1.19.0}/PKG-INFO +6 -16
- mathjson_solver-1.19.0/SECURITY.md +14 -0
- mathjson_solver-1.19.0/docs/README.md +1198 -0
- mathjson_solver-1.19.0/docs/integration-test-cases.md +82 -0
- mathjson_solver-1.19.0/logo.png +0 -0
- mathjson_solver-1.19.0/logo.svg +105 -0
- mathjson_solver-1.19.0/pyproject.toml +20 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/src/mathjson_solver/__main__.py +60 -20
- mathjson_solver-1.19.0/tests/test_datetime.py +219 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_equal.py +18 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_gail_model.py +1 -1
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_state_tuples_reduce.py +67 -39
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_with_pytest.py +10 -72
- mathjson_solver-1.19.0/unsorted_uncommited2/NCI_50_CASES_WORKSHEET.md +156 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/NCI_AGE35-39_ANALYSIS.md +74 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/NCI_AGE35-44_ANALYSIS.md +106 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/NCI_COMPARISON_REPORT.md +34 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/NCI_COMPLETE_VALIDATION_ANALYSIS.md +198 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/NCI_VALIDATION_WORKSHEET.md +53 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/R_CODE_VERIFICATION_ANALYSIS.md +214 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/corrected_comparison.txt +109 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/final_comparison.txt +109 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/full_comparison.md +191 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/gail_continuous_model_visualization.html +257 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/gail_continuous_model_visualization.md +126 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/generate_comprehensive_comparison.py +107 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/test_interval_analysis.py +61 -0
- mathjson_solver-1.19.0/unsorted_uncommited2/updated_comparison.txt +109 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/DESCRIPTION +11 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/NAMESPACE +2 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/absolute.risk.R +190 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/check.summary.R +27 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/error.table.R +50 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/error.table.all.R +34 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/list.constants.R +23 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/recode.check.R +139 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/relative.risk.R +51 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/R/risk.summary.R +18 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/data/BrCa_1_AR.rda +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/data/BrCa_beta.rda +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/data/BrCa_lambda1.rda +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/data/BrCa_lambda2.rda +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/data/exampledata.rda +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/BCRA-package.Rd +65 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/BrCa_1_AR.Rd +22 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/BrCa_beta.Rd +22 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/BrCa_lambda1.Rd +28 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/BrCa_lambda2.Rd +28 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/absolute.risk.Rd +50 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/check.summary.Rd +43 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/error.table.Rd +37 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/error.table.all.Rd +36 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/exampledata.Rd +42 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/list.constants.Rd +35 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/recode.check.Rd +120 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/relative.risk.Rd +45 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/BCRA_2.0/BCRA/man/risk.summary.Rd +38 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/CLEAN_MODEL_USAGE.md +225 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/COSTANTINO1999_RESULTS_TABLE.md +137 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/EXACT_PATIENT_EXAMPLES.md +118 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/FINAL_IMPLEMENTATION_SUMMARY.md +286 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/GAIL_MODEL_IMPLEMENTATION_REPORT.md +107 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/INTEGRATION_MODEL_VALIDATION_COMPARISON.md +112 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/NCI_VALIDATION_STRATEGY.md +112 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/gail_continuous_model_mathjson.json +445 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/publications/costantino_1999.pdf +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/publications/gail_1989.pdf +0 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/generate_exact_patient_examples.py +423 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_bcpt_validation_integration.py +268 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_gail_approximated_model_nci_validated.py +409 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_gail_exact_nci_implementation.py +519 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_gail_exact_with_cumulative.py +387 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_gail_exact_with_reduce.py +332 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_gail_model_costantino_integration.py +553 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_gail_model_nci_validated_fixed.py +558 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_nci_calculator_validation.py +289 -0
- mathjson_solver-1.19.0/unsorted_uncommitted/tests/test_patient_examples_comparison.py +319 -0
- mathjson_solver-1.19.0/untracked/chart.csv +17 -0
- mathjson_solver-1.19.0/untracked/cvd_risk.json +509 -0
- mathjson_solver-1.19.0/untracked/image.png +0 -0
- mathjson_solver-1.19.0/untracked/score2.csv +49 -0
- mathjson_solver-1.19.0/untracked/score2_mid.csv +49 -0
- mathjson_solver-1.19.0/untracked/score2_results2.xlsx +0 -0
- mathjson_solver-1.19.0/untracked/score2_table.py +121 -0
- mathjson_solver-1.17.0/PKG-INFO +0 -178
- mathjson_solver-1.17.0/pyproject.toml +0 -3
- mathjson_solver-1.17.0/setup.cfg +0 -29
- mathjson_solver-1.17.0/setup.py +0 -26
- mathjson_solver-1.17.0/src/mathjson_solver.egg-info/SOURCES.txt +0 -32
- mathjson_solver-1.17.0/src/mathjson_solver.egg-info/dependency_links.txt +0 -1
- mathjson_solver-1.17.0/src/mathjson_solver.egg-info/top_level.txt +0 -1
- mathjson_solver-1.17.0/tests/test_gail_model_nci_validated_with_beta.py +0 -618
- mathjson_solver-1.17.0/tests/test_nci_discrete_implementation_with_beta.py +0 -503
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/LICENSE +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/README.md +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/src/mathjson_solver/__init__.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_TrapezoidalIntegratel.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_atindex.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_cumulative.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_exceptions.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_extract_variables.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_findinterval.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_interpolate.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_range.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_reduce_simple.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_scalars.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_sets.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_simple_cases.py +0 -0
- {mathjson_solver-1.17.0 → mathjson_solver-1.19.0}/tests/test_slice.py +0 -0
- /mathjson_solver-1.17.0/tests/test_gail_model_nci_validated_no_beta.py → /mathjson_solver-1.19.0/unsorted_uncommitted/best_so_far/man_test_gail_model_nci_validated_no_beta.py +0 -0
- /mathjson_solver-1.17.0/tests/test_nci_discrete_implementation_no_beta.py → /mathjson_solver-1.19.0/unsorted_uncommitted/best_so_far/man_test_nci_discrete_implementation_no_beta.py +0 -0
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---
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name: Bug report
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about: Create a report to help us improve
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title: ''
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labels: ''
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assignees: MartinsMednis
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---
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**Describe the bug**
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A clear and concise description of what the bug is. Is it a problem with particular expression or calculation? Is it a problem with installation or setup?
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**To Reproduce**
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Please share:
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2. Expression parameters values
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- Python version
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**Additional context**
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Add any other context about the problem here.
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# This workflow will install Python dependencies, run tests and lint with a single version of Python
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# For more information see: https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python
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name: Python application
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on:
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push:
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branches: [ "main" ]
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pull_request:
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branches: [ "main" ]
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permissions:
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contents: read
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build:
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runs-on: ubuntu-latest
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steps:
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uses: actions/setup-python@v3
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with:
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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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flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
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downloads/
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eggs/
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lib/
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.cache
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nosetests.xml
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coverage.xml
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*.mo
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*.pot
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*.log
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local_settings.py
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db.sqlite3
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db.sqlite3-journal
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instance/
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.scrapy
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docs/_build/
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# PyBuilder
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target/
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# Jupyter Notebook
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.ipynb_checkpoints
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# IPython
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profile_default/
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ipython_config.py
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# pyenv
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.python-version
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# pipenv
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# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
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# having no cross-platform support, pipenv may install dependencies that don't work, or not
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# install all needed dependencies.
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#Pipfile.lock
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__pypackages__/
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# Celery stuff
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celerybeat-schedule
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celerybeat.pid
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*.sage.py
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# Environments
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.env
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env/
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venv/
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ENV/
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env.bak/
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venv.bak/
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.ropeproject
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/site
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.dmypy.json
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dmypy.json
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# Pyre type checker
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.pyre/
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# Contributor Covenant Code of Conduct
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## Our Pledge
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We as members, contributors, and leaders pledge to make participation in our
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community a harassment-free experience.
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We pledge to act and interact in ways that contribute to an open, welcoming
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and healthy community.
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## Our Standards
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Examples of behavior that contributes to a positive environment for our
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community include:
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* Demonstrating empathy and kindness toward other people
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* Being respectful of differing opinions, viewpoints, and experiences
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* Giving and gracefully accepting constructive feedback
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* Accepting responsibility and apologizing to those affected by our mistakes,
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and learning from the experience
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* Focusing on what is best not just for us as individuals, but for the
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overall community
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Examples of unacceptable behavior include:
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* The use of sexualized language or imagery, and sexual attention or
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advances of any kind
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* Trolling, insulting or derogatory comments, and personal or political attacks
|
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* Public or private harassment
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* Publishing others' private information, such as a physical or email
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address, without their explicit permission
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* Other conduct which could reasonably be considered inappropriate in a
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professional setting
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## Enforcement Responsibilities
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|
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|
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Community leaders are responsible for clarifying and enforcing our standards of
|
|
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acceptable behavior and will take appropriate and fair corrective action in
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response to any behavior that they deem inappropriate, threatening, offensive,
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|
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|
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or harmful.
|
|
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+
|
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Community leaders have the right and responsibility to remove, edit, or reject
|
|
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|
+
comments, commits, code, wiki edits, issues, and other contributions that are
|
|
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|
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not aligned to this Code of Conduct, and will communicate reasons for moderation
|
|
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|
+
decisions when appropriate.
|
|
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|
+
|
|
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|
+
## Scope
|
|
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|
+
|
|
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This Code of Conduct applies within all community spaces, and also applies when
|
|
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an individual is officially representing the community in public spaces.
|
|
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|
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Examples of representing our community include using an official e-mail address,
|
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posting via an official social media account, or acting as an appointed
|
|
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representative at an online or offline event.
|
|
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|
+
|
|
55
|
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## Enforcement
|
|
56
|
+
|
|
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|
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Instances of abusive, harassing, or otherwise unacceptable behavior may be
|
|
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|
+
reported to the community leaders responsible for enforcement at
|
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.
|
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All complaints will be reviewed and investigated promptly and fairly.
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|
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All community leaders are obligated to respect the privacy and security of the
|
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reporter of any incident.
|
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|
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## Enforcement Guidelines
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|
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Community leaders will follow these Community Impact Guidelines in determining
|
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the consequences for any action they deem in violation of this Code of Conduct:
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|
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### 1. Correction
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**Community Impact**: Use of inappropriate language or other behavior deemed
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unprofessional or unwelcome in the community.
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|
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**Consequence**: A private, written warning from community leaders, providing
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clarity around the nature of the violation and an explanation of why the
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behavior was inappropriate. A public apology may be requested.
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### 2. Warning
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**Community Impact**: A violation through a single incident or series
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of actions.
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**Consequence**: A warning with consequences for continued behavior. No
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interaction with the people involved, including unsolicited interaction with
|
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those enforcing the Code of Conduct, for a specified period of time. This
|
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includes avoiding interactions in community spaces as well as external channels
|
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like social media. Violating these terms may lead to a temporary or
|
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permanent ban.
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### 3. Temporary Ban
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**Community Impact**: A serious violation of community standards, including
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sustained inappropriate behavior.
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**Consequence**: A temporary ban from any sort of interaction or public
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communication with the community for a specified period of time. No public or
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private interaction with the people involved, including unsolicited interaction
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with those enforcing the Code of Conduct, is allowed during this period.
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Violating these terms may lead to a permanent ban.
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### 4. Permanent Ban
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**Community Impact**: Demonstrating a pattern of violation of community
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standards, including sustained inappropriate behavior, harassment of an
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individual, or aggression toward or disparagement of classes of individuals.
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**Consequence**: A permanent ban from any sort of public interaction within
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the community.
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|
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## Attribution
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This Code of Conduct is adapted from the [Contributor Covenant][homepage],
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version 2.0, available at
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https://www.contributor-covenant.org/version/2/0/code_of_conduct.html.
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Community Impact Guidelines were inspired by [Mozilla's code of conduct
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enforcement ladder](https://github.com/mozilla/diversity).
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[homepage]: https://www.contributor-covenant.org
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For answers to common questions about this code of conduct, see the FAQ at
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https://www.contributor-covenant.org/faq. Translations are available at
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https://www.contributor-covenant.org/translations.
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|
@@ -1,26 +1,16 @@
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1
1
|
Metadata-Version: 2.4
|
|
2
2
|
Name: mathjson-solver
|
|
3
|
-
Version: 1.
|
|
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|
+
Version: 1.19.0
|
|
4
4
|
Summary: Utilities for MathJSON evaluation
|
|
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|
-
|
|
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|
-
Author: Martins Mednis
|
|
7
|
-
Author-email: mrt@mednis.info
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|
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Project-URL: Homepage, https://github.com/LongenesisLtd/mathjson-solver
|
|
8
6
|
Project-URL: Bug Tracker, https://github.com/LongenesisLtd/mathjson-solver/issues
|
|
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|
-
|
|
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|
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Author-email: Martins Mednis <mrt@mednis.info>
|
|
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|
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License-Expression: MIT
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|
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|
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License-File: LICENSE
|
|
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|
Classifier: Operating System :: OS Independent
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Classifier: Programming Language :: Python :: 3
|
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Requires-Python: >=3.6
|
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Description-Content-Type: text/markdown
|
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License-File: LICENSE
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Dynamic: author
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Dynamic: author-email
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Dynamic: classifier
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Dynamic: description
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Dynamic: description-content-type
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Dynamic: home-page
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Dynamic: license-file
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Dynamic: project-url
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|
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Dynamic: requires-python
|
|
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|
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Dynamic: summary
|
|
24
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|
|
|
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15
|
# MathJSON Solver
|
|
26
16
|
|
|
@@ -0,0 +1,14 @@
|
|
|
1
|
+
# Security Policy
|
|
2
|
+
|
|
3
|
+
## Supported Versions
|
|
4
|
+
|
|
5
|
+
|
|
6
|
+
| Version | Supported |
|
|
7
|
+
| ------- | ------------------ |
|
|
8
|
+
| 1.13.x | :white_check_mark: |
|
|
9
|
+
| < 1.13.x | :x: |
|
|
10
|
+
|
|
11
|
+
|
|
12
|
+
## Reporting a Vulnerability
|
|
13
|
+
|
|
14
|
+
To report a vulnerability, please open an issue. The issue will be reviewed within two working days, however if the fix is simple, a patch is usually provided in few hours.
|