actually adding the local file now.lol #162
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| name: snake CI | |
| on: | |
| push: | |
| branches: [ '**' ] | |
| pull_request: | |
| branches: [ '**' ] | |
| jobs: | |
| ubuntu_20: | |
| name: ubuntu-20.04 | |
| runs-on: ubuntu-20.04 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: install packages | |
| run: sudo apt-get update && sudo apt-get install -y zlib1g-dev gcc python3 python3-pip && pip3 install setuptools cython numpy | |
| - name: install | |
| run: pip3 install --upgrade pip && pip3 install . && squigualiser --help | |
| - name: test | |
| run: test/test_reform.sh | |
| ubuntu_22: | |
| name: ubuntu-22.04 | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: install packages | |
| run: sudo apt-get update && sudo apt-get install -y zlib1g-dev gcc python3 python3-pip && pip3 install setuptools cython numpy | |
| - name: install | |
| run: python3 setup.py install --user && squigualiser --help | |
| - name: test_reform | |
| run: test/test_reform.sh | |
| - name: test_realign | |
| run: test/test_realign.sh | |
| # arm64: | |
| # name: pyslow5 ubuntu arm | |
| # runs-on: ubuntu-latest | |
| # steps: | |
| # - run: docker run --rm --privileged multiarch/qemu-user-static:register --reset | |
| # - uses: docker://multiarch/ubuntu-core:arm64-focal | |
| # with: | |
| # args: 'uname -a' | |
| # - uses: actions/checkout@v1 | |
| # - uses: docker://multiarch/ubuntu-core:arm64-focal | |
| # with: | |
| # args: > | |
| # bash -c "apt-get update && | |
| # apt-get install -y zlib1g-dev gcc make python3 python3-pip git wget && | |
| # pip3 install setuptools cython numpy && | |
| # ldd --version && gcc --version && python3 --version && | |
| # git clone -b dev https://github.com/hasindu2008/slow5lib && cd slow5lib && python3 setup.py install && cd .. && | |
| # python3 setup.py install && blue-crab --help && test/test.sh" | |
| os_x_11: | |
| name: macos-11 | |
| runs-on: macos-11 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: install packages | |
| run: pip3 install numpy | |
| - name: install | |
| run: export HTSLIB_CONFIGURE_OPTIONS="--enable-bz2=no --enable-lzma=no --with-libdeflate=no --enable-libcurl=no --enable-gcs=no --enable-s3=no" && pip3 install . && squigualiser --help | |
| - name: test_reform | |
| run: test/test_reform.sh | |
| - name: test_realign | |
| run: test/test_realign.sh | |
| os_x_12: | |
| name: macos-12 | |
| runs-on: macos-12 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: install packages | |
| run: pip3 install numpy | |
| - name: install | |
| run: export HTSLIB_CONFIGURE_OPTIONS="--enable-bz2=no --enable-lzma=no --with-libdeflate=no --enable-libcurl=no --enable-gcs=no --enable-s3=no" && pip3 install . && squigualiser --help | |
| - name: test_reform | |
| run: test/test_reform.sh | |
| - name: test_realign | |
| run: test/test_realign.sh |