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worfklow and tests
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‎.github/workflows/test.yml

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name: pytest
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on:
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pull_request:
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push:
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branches: [main]
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paths:
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- ".github/workflows/*"
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- "pymc_bart/**"
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- "setup.py"
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- "pyproject.toml"
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- "buildosx"
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- "conda-envs/**"
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- "codecov.yml"
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jobs:
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ubuntu:
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strategy:
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matrix:
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os: [ubuntu-18.04]
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floatx: [float32, float64]
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fail-fast: false
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runs-on: ${{ matrix.os }}
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env:
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TEST_SUBSET: ${{ matrix.test-subset }}
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AESARA_FLAGS: floatX=${{ matrix.floatx }},gcc__cxxflags='-march=native'
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defaults:
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run:
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shell: bash -l {0}
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steps:
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- uses: actions/checkout@v2
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- name: Cache conda
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uses: actions/cache@v1
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env:
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# Increase this value to reset cache if environment-test-py38.yml has not changed
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CACHE_NUMBER: 0
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with:
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path: ~/conda_pkgs_dir
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key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{
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hashFiles('conda-envs/environment-test-py38.yml') }}
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- name: Cache multiple paths
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uses: actions/cache@v2
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env:
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# Increase this value to reset cache if requirements.txt has not changed
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CACHE_NUMBER: 0
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with:
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path: |
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~/.cache/pip
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$RUNNER_TOOL_CACHE/Python/*
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~\AppData\Local\pip\Cache
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key: ${{ runner.os }}-build-${{ matrix.python-version }}-${{
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hashFiles('requirements.txt') }}
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- uses: conda-incubator/setup-miniconda@v2
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with:
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miniforge-variant: Mambaforge
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miniforge-version: latest
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mamba-version: "*"
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activate-environment: pymc-test-py38
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channel-priority: strict
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environment-file: conda-envs/environment-test-py38.yml
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use-mamba: true
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use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly!
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- name: Install-pymc
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run: |
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conda activate pymc-test-py38
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pip install -e .
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python --version
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- name: Run tests
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run: |
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conda activate pymc-test-py38
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python -m pytest -vv --cov=pymc_bart --cov-append --cov-report=xml --cov-report term --durations=50 $TEST_SUBSET
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- name: Upload coverage to Codecov
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uses: codecov/codecov-action@v2
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with:
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env_vars: TEST_SUBSET
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name: ${{ matrix.os }} ${{ matrix.floatx }}
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fail_ci_if_error: false
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windows:
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strategy:
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matrix:
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os: [windows-latest]
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floatx: [float32, float64]
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fail-fast: false
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runs-on: ${{ matrix.os }}
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env:
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TEST_SUBSET: ${{ matrix.test-subset }}
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AESARA_FLAGS: floatX=${{ matrix.floatx }},gcc__cxxflags='-march=core2'
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defaults:
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run:
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shell: cmd
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steps:
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- uses: actions/checkout@v2
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- name: Cache conda
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uses: actions/cache@v1
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env:
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# Increase this value to reset cache if conda-envs/environment-test-py310.yml has not changed
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CACHE_NUMBER: 0
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with:
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path: ~/conda_pkgs_dir
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key: ${{ runner.os }}-conda-${{ env.CACHE_NUMBER }}-${{
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hashFiles('conda-envs/windows-environment-test-py310.yml') }}
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- name: Cache multiple paths
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uses: actions/cache@v2
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env:
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# Increase this value to reset cache if requirements.txt has not changed
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CACHE_NUMBER: 0
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with:
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path: |
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~/.cache/pip
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$RUNNER_TOOL_CACHE/Python/*
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~\AppData\Local\pip\Cache
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key: ${{ runner.os }}-build-${{ matrix.python-version }}-${{
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hashFiles('requirements.txt') }}
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- uses: conda-incubator/setup-miniconda@v2
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with:
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miniforge-variant: Mambaforge
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miniforge-version: latest
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mamba-version: "*"
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activate-environment: pymc-test-py310
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channel-priority: strict
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environment-file: conda-envs/windows-environment-test-py310.yml
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use-mamba: true
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use-only-tar-bz2: true # IMPORTANT: This needs to be set for caching to work properly!
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- name: Install-pymc
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run: |
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conda activate pymc-test-py310
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pip install -e .
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python --version
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- name: Run tests
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# This job uses a cmd shell, therefore the environment variable syntax is different!
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# The ">-" in the next line replaces newlines with spaces (see https://stackoverflow.com/a/66809682).
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run: >-
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conda activate pymc-test-py310 &&
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python -m pytest -vv --cov=pymc_bart --doctest-modules pymc_bart --cov-append --cov-report=xml --cov-report term --durations=50 %TEST_SUBSET%
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- name: Upload coverage to Codecov
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uses: codecov/codecov-action@v2
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with:
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env_vars: TEST_SUBSET
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name: ${{ matrix.os }} ${{ matrix.floatx }}
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fail_ci_if_error: false

‎buildosx

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#!/bin/sh
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export CFLAGS="-arch x86_64"
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export FFLAGS="-static -ff2c -arch x86_64"
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export LDFLAGS="-Wall -undefined dynamic_lookup -bundle -arch x86_64"
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rm -rf build
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python setupegg.py bdist_egg

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