Update macroatom.cc #7216
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| --- | |
| name: CI | |
| on: | |
| push: | |
| branches-ignore: | |
| - classic* | |
| schedule: | |
| - cron: 0 13 * * 1 | |
| workflow_dispatch: | |
| # pull_request: | |
| # branches-ignore: | |
| # - classic* | |
| env: | |
| ASAN_OPTIONS: detect_stack_use_after_return=1:detect_leaks=0 | |
| jobs: | |
| testmodels: | |
| strategy: | |
| matrix: | |
| os: [ubuntu-24.04] | |
| testmode: [OFF, ON] | |
| testname: | |
| [ | |
| classicmode_1d_3dgrid, | |
| classicmode_3d, | |
| kilonova_1d_1dgrid, | |
| kilonova_1d_3dgrid, | |
| kilonova_2d_2dgrid, | |
| kilonova_2d_2dgrid_barnesthermalisation, | |
| kilonova_2d_2dgrid_expansionopac, | |
| kilonova_2d_2dgrid_xcomgammaphotoion, | |
| kilonova_2d_3dgrid, | |
| nebular_1d_3dgrid, | |
| nebular_1d_3dgrid_limitbfest, | |
| ] | |
| exclude: | |
| - os: self-hosted | |
| testmode: ON | |
| fail-fast: false | |
| runs-on: ${{ matrix.os }} | |
| timeout-minutes: 120 | |
| name: ${{ matrix.testname }}${{ matrix.testmode == 'ON' && ' testmode ON' || ''}} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| - name: Install gcc-14 | |
| if: always() | |
| uses: fortran-lang/setup-fortran@v1 | |
| with: | |
| compiler: gcc | |
| version: 14 | |
| - name: install gsl and openmpi | |
| run: | | |
| sudo apt-get update | |
| sudo apt install -y libgsl-dev | |
| sudo apt install -y openmpi-bin libopenmpi-dev | |
| - name: CPU type and core count | |
| id: cpu-count | |
| run: | | |
| g++ -march=native -Q --help=target | grep -- '-march= ' | cut -f3 | |
| #python3 -m pip install psutil | |
| #python3 -c 'import psutil; print(f"CPU count (physical only): {int(psutil.cpu_count(logical=False))}")' | |
| python3 -c 'import multiprocessing; print(f"CPU count: {multiprocessing.cpu_count()}")' | |
| echo "count=$(python3 -c 'import multiprocessing; print(multiprocessing.cpu_count())')" >> $GITHUB_OUTPUT | |
| # cache this for classic options because the super low integration tolerance makes generation of the file very slow | |
| - name: Cache ratecoeff.dat | |
| if: ${{ startsWith(matrix.testname, 'classicmode') }} | |
| uses: actions/cache@v4 | |
| with: | |
| path: tests/${{ matrix.testname }}_testrun/ratecoeff.dat | |
| key: tests/${{ matrix.testname }}_testrun/ratecoeff.dat-${{ github.run_id }} | |
| restore-keys: | | |
| tests/${{ matrix.testname }}_testrun/ratecoeff.dat- | |
| - name: Cache test atomic data | |
| if: ${{ !startsWith(matrix.testname, 'classicmode') }} | |
| uses: actions/cache@v4 | |
| id: cache-testatomicdata | |
| with: | |
| path: tests/atomicdata_feconi.tar.xz | |
| key: tests/atomicdata_feconi.tar.xz | |
| - name: Cache test atomic data classic | |
| if: ${{ startsWith(matrix.testname, 'classicmode') }} | |
| uses: actions/cache@v4 | |
| id: cache-testatomicdata-classic | |
| with: | |
| path: tests/atomicdata_classic.tar.xz | |
| key: tests/atomicdata_classic.tar.xz | |
| - name: Download/extract test data | |
| working-directory: tests/ | |
| run: | | |
| source ./setup_${{ matrix.testname }}.sh | |
| - name: cat artisoptions.h | |
| run: | | |
| cp tests/${{ matrix.testname }}_testrun/artisoptions.h . | |
| cat artisoptions.h | |
| - name: Compile | |
| run: | | |
| make REPRODUCIBLE=ON TESTMODE=${{ matrix.testmode }} MPI=ON MAX_NODE_SIZE=2 FASTMATH=OFF -j${{ steps.cpu-count.outputs.count }} sn3d exspec | |
| cp sn3d tests/${{ matrix.testname }}_testrun/ | |
| cp exspec tests/${{ matrix.testname }}_testrun/ | |
| - name: Run test job0 start | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| cp input-newrun.txt input.txt | |
| touch output_0-0.txt | |
| time mpirun -np 4 --oversubscribe --mca mpi_yield_when_idle 1 ./sn3d | |
| - name: Move job0 files | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| mkdir job0 | |
| ../../scripts/movefiles.sh job0 | |
| - name: cat job0 estimators | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: cat job0/estimators*.out | |
| - name: cat job0 output log | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: cat job0/output_0-0.txt | |
| - name: Checksum job0 output files | |
| #if: always() | |
| if: always() && matrix.testmode == 'OFF' | |
| working-directory: tests/${{ matrix.testname }}_testrun | |
| run: | | |
| md5sum *.out job0/*.out | tee ../${{ matrix.testname }}_inputfiles/results_md5_job0.txt | |
| if [ -f results_md5_job0.txt ]; then md5sum -c results_md5_job0.txt; else echo "results_md5_job0.txt not found"; fi | |
| - name: Run test job1 resume | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| cp input-resume.txt input.txt | |
| time mpirun -np 4 --oversubscribe --mca mpi_yield_when_idle 1 ./sn3d | |
| - name: Move job1 files | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| rm *.tmp | |
| mkdir job1 | |
| ../../scripts/movefiles.sh job1 | |
| - name: cat job1 estimators | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: cat job1/estimators*.out | |
| - name: cat job1 output log | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: cat job1/output_0-0.txt | |
| - name: Set up Python | |
| if: always() && matrix.testmode == 'OFF' | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.12' | |
| - name: Install artistools | |
| if: always() && matrix.testmode == 'OFF' | |
| run: | | |
| python3 -m pip install --upgrade pip uv | |
| uv pip install --system -U artistools | |
| - name: show deposition.out | |
| if: always() && matrix.testmode == 'OFF' | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| echo -e "import artistools as at; import polars as pl;\nwith pl.Config(tbl_rows=-1,tbl_cols=-1,tbl_width_chars=300,tbl_formatting='NOTHING'):\n df = at.get_deposition('.')\n print(df.select(['timestep', 'tmid_days'] + [c for c in sorted(df.columns, key=lambda x: x.lower().lstrip('eps_')) if c not in ['timestep', 'tmid_days', 'tmid_s']]))" | python3 - | |
| cat deposition.out | |
| - name: Run exspec | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| time mpirun -np 1 ./exspec | |
| python3 ../../scripts/mergeangleres.py | |
| rm -f light_curve_res_*.out spec_res_*.out specpol_res_*.out | |
| - name: cat exspec log | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun/ | |
| run: | | |
| mkdir output | |
| cat exspec.txt | |
| - name: Checksum job1 output files | |
| #if: always() | |
| if: always() && matrix.testmode == 'OFF' | |
| working-directory: tests/${{ matrix.testname }}_testrun | |
| run: | | |
| md5sum *.out job1/*.out | tee ../${{ matrix.testname }}_inputfiles/results_md5_final.txt | |
| if [ -f results_md5_final.txt ]; then md5sum -c results_md5_final.txt; else echo "results_md5_final.txt not found"; fi | |
| - name: Prepare for next steps | |
| if: always() | |
| working-directory: tests/${{ matrix.testname }}_testrun | |
| run: | | |
| touch requirements.txt | |
| find . -name "*_res_*.out" -exec zstd -v -T0 --rm -f {} \; | |
| - name: Upload output files | |
| uses: actions/upload-artifact@v4 | |
| if: always() && matrix.testmode == 'OFF' | |
| with: | |
| name: test-${{ matrix.testname }}-output | |
| path: tests/${{ matrix.testname }}_testrun | |
| - name: Upload checksum files | |
| uses: actions/upload-artifact@v4 | |
| if: always() && matrix.testmode == 'OFF' | |
| with: | |
| name: ${{ matrix.testname }}_inputfiles | |
| path: tests/${{ matrix.testname }}_inputfiles/results_md5* | |
| - name: Plot light curve | |
| if: always() && matrix.testmode == 'OFF' | |
| working-directory: tests/ | |
| run: | | |
| at plotlightcurves ${{ matrix.testname }}_testrun | |
| at plotlightcurves --frompackets ${{ matrix.testname }}_testrun | |
| - name: Plot spectrum nebular | |
| if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'nebular') | |
| working-directory: tests/ | |
| run: | | |
| at plotspectra --frompackets -ts 8 ${{ matrix.testname }}_testrun | |
| - name: Plot spectrum classicmode | |
| if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'classicmode_') | |
| working-directory: tests/ | |
| run: | | |
| at plotspectra --frompackets -t 4-6 ${{ matrix.testname }}_testrun | |
| - name: Plot virtual packet spectrum classicmode_1d | |
| if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'classicmode_1d') | |
| working-directory: tests/ | |
| run: | | |
| at plotspectra -t 4-6 -plotvspecpol 0 1 2 3 12 13 14 --frompackets ${{ matrix.testname }}_testrun | |
| - name: Plot spectrum kilonova | |
| if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'kilonova') | |
| working-directory: tests/ | |
| run: | | |
| at plotspectra --frompackets -t 2 ${{ matrix.testname }}_testrun | |
| - name: Upload plot files | |
| if: always() && matrix.testmode == 'OFF' | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: test-${{ matrix.testname }}-output-pdf | |
| path: tests/*.pdf | |
| combine_checksums: | |
| needs: testmodels | |
| if: always() | |
| runs-on: ubuntu-24.04 | |
| steps: | |
| - name: Download test output | |
| uses: actions/download-artifact@v4 | |
| - name: List all files | |
| if: always() | |
| run: find . | |
| - name: Upload bundled checksum files | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: checksums | |
| path: '*_inputfiles/results_md5*.txt' |