Update configparser SafeConfigParser and readfp, new in python 3.12 #1
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| name: Test Against XSPEC | |
| on: | |
| push: | |
| schedule: | |
| - cron: "0 22 * * 0" | |
| jobs: | |
| xspec-standard: | |
| name: Test against XSPEC | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.9 | |
| - name: Cache XPSEC | |
| uses: actions/cache@v4 | |
| id: cache-xspec | |
| with: | |
| path: ~/xspec_home | |
| key: xspec-ver3 | |
| - name: Get XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| echo "getting latest heasoft bundle"; | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOO" | |
| else | |
| mkdir -p ~/xspec_home | |
| wget -O heasoft-src.tar.gz 'https://heasarc.gsfc.nasa.gov/cgi-bin/Tools/tarit/tarit.pl?mode=download&arch=src&src_pc_linux_ubuntu=Y&src_other_specify=&general=heasptools&general=heagen&xanadu=xspec' --header 'User-Agent: Mozilla/5.0 (X11; Ubuntu; Linux x86_64; rv:84.0) Gecko/20100101 Firefox/84.0' --header 'Accept: text/html,application/xhtml+xml,application/xml;q=0.9,image/webp,*/*;q=0.8' --header 'Accept-Language: en-US' --header 'DNT: 1' --header 'Connection: keep-alive' --header 'Referer: https://heasarc.gsfc.nasa.gov/lheasoft/download.html' --header 'Upgrade-Insecure-Requests: 1' --header 'Sec-GPC: 1' --progress=dot:giga | |
| mv heasoft-src.tar.gz ~/xspec_home/ | |
| fi | |
| - name: Extract XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOOOO" | |
| else | |
| echo "unpacking heasoft"; | |
| cd ~/xspec_home | |
| #rm -rf heasoft*/; | |
| tar -xzf heasoft-src.tar.gz; | |
| ls heasoft*; | |
| ls; | |
| echo "compiling xspec"; | |
| sudo apt-get install -y gfortran build-essential cmake liblapack3 liblapack-dev libatlas3-base libatlas-base-dev libblas3 libblas-dev libreadline-dev; | |
| ls heasoft*; | |
| XSPEC_BUILD_DIR=`ls -d heasoft-*/BUILD_DIR`; | |
| pushd $XSPEC_BUILD_DIR; | |
| mkdir -p ~/xspec_home/xspec-install/; | |
| ./configure --prefix=/home/runner/xspec_home/xspec-install/ --with-components="Xspec" && make && make install | grep -v hd_install; | |
| ls ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/; | |
| ls | |
| popd; | |
| rm -rf $XSPEC_BUILD_DIR ~/xspec_home/heasoft-src.tar.gz | |
| fi | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Install dependencies | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -c 'import xspec' || true; | |
| python -m pip install --upgrade pip wheel | |
| pip install --upgrade astromodels | |
| pip install --upgrade flake8 coverage pytest-cov cython | |
| pip install -e . | |
| env: | |
| ASTRO_XSPEC_VERSION: 12.12.1 | |
| - name: Test xspec | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -m pytest threeML/test/test_AAA_against_xspec.py | |
| xspec-astro-master: | |
| name: Test against XSPEC astro master | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.9 | |
| - name: Cache XPSEC | |
| uses: actions/cache@v4 | |
| id: cache-xspec | |
| with: | |
| path: ~/xspec_home | |
| key: xspec-ver3 | |
| - name: Get XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| echo "getting latest heasoft bundle"; | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOO" | |
| else | |
| mkdir -p ~/xspec_home | |
| wget -O heasoft-src.tar.gz 'https://heasarc.gsfc.nasa.gov/cgi-bin/Tools/tarit/tarit.pl?mode=download&arch=src&src_pc_linux_ubuntu=Y&src_other_specify=&general=heasptools&general=heagen&xanadu=xspec' --header 'User-Agent: Mozilla/5.0 (X11; Ubuntu; Linux x86_64; rv:84.0) Gecko/20100101 Firefox/84.0' --header 'Accept: text/html,application/xhtml+xml,application/xml;q=0.9,image/webp,*/*;q=0.8' --header 'Accept-Language: en-US' --header 'DNT: 1' --header 'Connection: keep-alive' --header 'Referer: https://heasarc.gsfc.nasa.gov/lheasoft/download.html' --header 'Upgrade-Insecure-Requests: 1' --header 'Sec-GPC: 1' --progress=dot:giga | |
| mv heasoft-src.tar.gz ~/xspec_home/ | |
| fi | |
| - name: Extract XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOOOO" | |
| else | |
| echo "unpacking heasoft"; | |
| cd ~/xspec_home | |
| #rm -rf heasoft*/; | |
| tar -xzf heasoft-src.tar.gz; | |
| ls heasoft*; | |
| ls; | |
| echo "compiling xspec"; | |
| sudo apt-get install -y gfortran build-essential cmake liblapack3 liblapack-dev libatlas3-base libatlas-base-dev libblas3 libblas-dev libreadline-dev; | |
| ls heasoft*; | |
| XSPEC_BUILD_DIR=`ls -d heasoft-*/BUILD_DIR`; | |
| pushd $XSPEC_BUILD_DIR; | |
| mkdir -p ~/xspec_home/xspec-install/; | |
| ./configure --prefix=/home/runner/xspec_home/xspec-install/ --with-components="Xspec" && make && make install | grep -v hd_install; | |
| ls ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/; | |
| ls | |
| popd; | |
| rm -rf $XSPEC_BUILD_DIR ~/xspec_home/heasoft-src.tar.gz | |
| fi | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Install dependencies | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -c 'import xspec' || true; | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install numpy numba | |
| git clone https://github.com/threeML/astromodels | |
| cd astromodels | |
| pip install -e . | |
| cd .. | |
| pip install --upgrade flake8 coverage pytest-cov cython | |
| pip install -e . | |
| env: | |
| ASTRO_XSPEC_VERSION: 12.12.1 | |
| - name: Test xspec | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -m pytest threeML/test/test_AAA_against_xspec.py | |
| xspec-astro-dev: | |
| name: Test against XSPEC astro dev | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.9 | |
| - name: Cache XPSEC | |
| uses: actions/cache@v4 | |
| id: cache-xspec | |
| with: | |
| path: ~/xspec_home | |
| key: xspec-ver3 | |
| - name: Get XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| echo "getting latest heasoft bundle"; | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOO" | |
| else | |
| mkdir -p ~/xspec_home | |
| wget -O heasoft-src.tar.gz 'https://heasarc.gsfc.nasa.gov/cgi-bin/Tools/tarit/tarit.pl?mode=download&arch=src&src_pc_linux_ubuntu=Y&src_other_specify=&general=heasptools&general=heagen&xanadu=xspec' --header 'User-Agent: Mozilla/5.0 (X11; Ubuntu; Linux x86_64; rv:84.0) Gecko/20100101 Firefox/84.0' --header 'Accept: text/html,application/xhtml+xml,application/xml;q=0.9,image/webp,*/*;q=0.8' --header 'Accept-Language: en-US' --header 'DNT: 1' --header 'Connection: keep-alive' --header 'Referer: https://heasarc.gsfc.nasa.gov/lheasoft/download.html' --header 'Upgrade-Insecure-Requests: 1' --header 'Sec-GPC: 1' --progress=dot:giga | |
| mv heasoft-src.tar.gz ~/xspec_home/ | |
| fi | |
| - name: Extract XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOOOO" | |
| else | |
| echo "unpacking heasoft"; | |
| cd ~/xspec_home | |
| #rm -rf heasoft*/; | |
| tar -xzf heasoft-src.tar.gz; | |
| ls heasoft*; | |
| ls; | |
| echo "compiling xspec"; | |
| sudo apt-get install -y gfortran build-essential cmake liblapack3 liblapack-dev libatlas3-base libatlas-base-dev libblas3 libblas-dev libreadline-dev; | |
| ls heasoft*; | |
| XSPEC_BUILD_DIR=`ls -d heasoft-*/BUILD_DIR`; | |
| pushd $XSPEC_BUILD_DIR; | |
| mkdir -p ~/xspec_home/xspec-install/; | |
| ./configure --prefix=/home/runner/xspec_home/xspec-install/ --with-components="Xspec" && make && make install | grep -v hd_install; | |
| ls ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/; | |
| ls | |
| popd; | |
| rm -rf $XSPEC_BUILD_DIR ~/xspec_home/heasoft-src.tar.gz | |
| fi | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Install dependencies | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -c 'import xspec' || true; | |
| python -m pip install --upgrade pip wheel | |
| python -m pip install numpy numba | |
| git clone https://github.com/threeML/astromodels | |
| cd astromodels | |
| git checkout dev | |
| pip install -e . | |
| cd .. | |
| pip install --upgrade flake8 coverage pytest-cov cython | |
| pip install -e . | |
| env: | |
| ASTRO_XSPEC_VERSION: 12.12.1 | |
| - name: Test xspec | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -m pytest threeML/test/test_AAA_against_xspec.py | |
| xspec-astro-conda: | |
| name: Test against XSPEC astro conda | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Set up Python 3.9 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.9 | |
| - name: Add conda ${{ matrix.python-version }} to system path | |
| uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| activate-environment: "test_env" | |
| auto-activate-base: false | |
| miniforge-variant: Mambaforge | |
| architecture: "x64" | |
| #conda-build-version: "*" | |
| python-version: ${{ matrix.python-version }} | |
| auto-update-conda: true | |
| channels: conda-forge, threeml, fermi, defaults | |
| use-only-tar-bz2: true | |
| - name: Cache XPSEC | |
| uses: actions/cache@v4 | |
| id: cache-xspec | |
| with: | |
| path: ~/xspec_home | |
| key: xspec-ver3 | |
| - name: Get XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| echo "getting latest heasoft bundle"; | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOO" | |
| else | |
| mkdir -p ~/xspec_home | |
| wget -O heasoft-src.tar.gz 'https://heasarc.gsfc.nasa.gov/cgi-bin/Tools/tarit/tarit.pl?mode=download&arch=src&src_pc_linux_ubuntu=Y&src_other_specify=&general=heasptools&general=heagen&xanadu=xspec' --header 'User-Agent: Mozilla/5.0 (X11; Ubuntu; Linux x86_64; rv:84.0) Gecko/20100101 Firefox/84.0' --header 'Accept: text/html,application/xhtml+xml,application/xml;q=0.9,image/webp,*/*;q=0.8' --header 'Accept-Language: en-US' --header 'DNT: 1' --header 'Connection: keep-alive' --header 'Referer: https://heasarc.gsfc.nasa.gov/lheasoft/download.html' --header 'Upgrade-Insecure-Requests: 1' --header 'Sec-GPC: 1' --progress=dot:giga | |
| mv heasoft-src.tar.gz ~/xspec_home/ | |
| fi | |
| - name: Extract XSPEC | |
| env: | |
| CACHE_HIT: ${{steps.cache-xspec.outputs.cache-hit}} | |
| run: | | |
| if [[ "$CACHE_HIT" == 'true' ]]; then | |
| echo "NOOOOOO" | |
| else | |
| echo "unpacking heasoft"; | |
| cd ~/xspec_home | |
| #rm -rf heasoft*/; | |
| tar -xzf heasoft-src.tar.gz; | |
| ls heasoft*; | |
| ls; | |
| echo "compiling xspec"; | |
| sudo apt-get install -y gfortran build-essential cmake liblapack3 liblapack-dev libatlas3-base libatlas-base-dev libblas3 libblas-dev libreadline-dev; | |
| ls heasoft*; | |
| XSPEC_BUILD_DIR=`ls -d heasoft-*/BUILD_DIR`; | |
| pushd $XSPEC_BUILD_DIR; | |
| mkdir -p ~/xspec_home/xspec-install/; | |
| ./configure --prefix=/home/runner/xspec_home/xspec-install/ --with-components="Xspec" && make && make install | grep -v hd_install; | |
| ls ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/; | |
| ls | |
| popd; | |
| rm -rf $XSPEC_BUILD_DIR ~/xspec_home/heasoft-src.tar.gz | |
| fi | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Install dependencies | |
| shell: bash -l {0} | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| conda install -c conda-forge -c threeml astromodels | |
| pip install --upgrade flake8 coverage pytest-cov cython | |
| pip install -e . | |
| env: | |
| ASTRO_XSPEC_VERSION: 12.12.1 | |
| - name: Test xspec | |
| shell: bash -l {0} | |
| run: | | |
| export HEADAS=`ls -d ~/xspec_home/xspec-install/x86_64-pc-linux-gnu-libc*/`; | |
| echo "loading xspec from " $HEADAS; | |
| source ${HEADAS}/headas-init.sh; | |
| python -m pytest threeML/test/test_AAA_against_xspec.py |