From 6f710eb8f2d7ca02a126fc509b7f61a415ede7fb Mon Sep 17 00:00:00 2001 From: Luke Shingles Date: Mon, 3 Jun 2024 14:41:07 +0100 Subject: [PATCH] CI: Test in 2x2 multi-node configuration by adding optional MAX_NODE_SIZE override (#78) Also replace nebularonezone test with nebular three-zone test so ensure that both nodes (and both ranks on node 0) are assigned cells in update grid. --- .github/workflows/ci-checks.yml | 6 +- .github/workflows/ci.yml | 59 +- .vscode/extensions.json | 5 +- .vscode/settings.json | 10 +- Makefile | 4 + README.md | 2 +- decay.cc | 2 +- exspec.cc | 6 +- globals.h | 22 +- grid.cc | 8 +- input.cc | 16 +- packet.cc | 8 +- scripts/exspec-gzip-virgo-submit.sh | 2 +- sn3d.cc | 14 +- .../input-newrun.txt | 8 +- .../input-resume.txt | 8 +- .../results_md5_final.txt | 56 +- .../results_md5_job0.txt | 48 +- .../syn_dir.txt | 1 - .../input-newrun.txt | 2 +- .../input-resume.txt | 2 +- .../results_md5_final.txt | 1042 +++++++++-------- .../results_md5_job0.txt | 28 +- tests/classicmode_3d_inputfiles/syn_dir.txt | 1 - .../results_md5_final.txt | 30 +- .../results_md5_job0.txt | 28 +- .../input-newrun.txt | 2 +- .../input-resume.txt | 2 +- .../results_md5_final.txt | 30 +- .../results_md5_job0.txt | 28 +- .../kilonova_1d_3dgrid_inputfiles/syn_dir.txt | 1 - .../results_md5_final.txt | 230 ++-- .../results_md5_job0.txt | 24 +- .../results_md5_final.txt | 634 +++++----- .../results_md5_job0.txt | 22 +- .../results_md5_final.txt | 634 +++++----- .../results_md5_job0.txt | 28 +- .../input-newrun.txt | 2 +- .../input-resume.txt | 2 +- .../results_md5_final.txt | 634 +++++----- .../results_md5_job0.txt | 22 +- .../kilonova_2d_3dgrid_inputfiles/syn_dir.txt | 1 - .../abundances.txt | 3 + .../input-newrun.txt | 2 +- .../input-resume.txt | 2 +- tests/nebular_1d_3dgrid_inputfiles/model.txt | 6 + .../recombrates.txt | 0 .../results_md5_final.txt | 30 + .../results_md5_job0.txt | 29 + .../results_md5_final.txt | 30 + .../results_md5_job0.txt | 29 + .../abundances.txt | 1 - .../model.txt | 3 - .../results_md5_final.txt | 20 - .../results_md5_job0.txt | 19 - .../syn_dir.txt | 1 - .../results_md5_final.txt | 20 - .../results_md5_job0.txt | 19 - ...d_3dgrid.sh => setup_nebular_1d_3dgrid.sh} | 12 +- ... => setup_nebular_1d_3dgrid_limitbfest.sh} | 14 +- update_grid.cc | 6 +- vpkt.h | 6 +- 62 files changed, 2050 insertions(+), 1916 deletions(-) delete mode 100644 tests/classicmode_1d_3dgrid_inputfiles/syn_dir.txt delete mode 100644 tests/classicmode_3d_inputfiles/syn_dir.txt delete mode 100644 tests/kilonova_1d_3dgrid_inputfiles/syn_dir.txt delete mode 100644 tests/kilonova_2d_3dgrid_inputfiles/syn_dir.txt create mode 100644 tests/nebular_1d_3dgrid_inputfiles/abundances.txt rename tests/{nebularonezone_1d_3dgrid_inputfiles => nebular_1d_3dgrid_inputfiles}/input-newrun.txt (97%) rename tests/{nebularonezone_1d_3dgrid_inputfiles => nebular_1d_3dgrid_inputfiles}/input-resume.txt (97%) create mode 100644 tests/nebular_1d_3dgrid_inputfiles/model.txt rename tests/{nebularonezone_1d_3dgrid_inputfiles => nebular_1d_3dgrid_inputfiles}/recombrates.txt (100%) create mode 100644 tests/nebular_1d_3dgrid_inputfiles/results_md5_final.txt create mode 100644 tests/nebular_1d_3dgrid_inputfiles/results_md5_job0.txt create mode 100644 tests/nebular_1d_3dgrid_limitbfest_inputfiles/results_md5_final.txt create mode 100644 tests/nebular_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_inputfiles/abundances.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_inputfiles/model.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_final.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_job0.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_inputfiles/syn_dir.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_final.txt delete mode 100644 tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt rename tests/{setup_nebularonezone_1d_3dgrid.sh => setup_nebular_1d_3dgrid.sh} (79%) rename tests/{setup_nebularonezone_1d_3dgrid_limitbfest.sh => setup_nebular_1d_3dgrid_limitbfest.sh} (74%) diff --git a/.github/workflows/ci-checks.yml b/.github/workflows/ci-checks.yml index dfb31835e..178de431c 100644 --- a/.github/workflows/ci-checks.yml +++ b/.github/workflows/ci-checks.yml @@ -121,6 +121,8 @@ jobs: 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())')" >> $GITHUB_OUTPUT @@ -209,7 +211,9 @@ jobs: - name: CPU core count id: cpu-count run: | - # echo "count=$(python3 -c 'import psutil; print(int(psutil.cpu_count(logical=False)))')" >> $GITHUB_OUTPUT + #python3 -m pip install psutil + #python3 -c 'import psutil; print(f"CPU count (physical only): {int(psutil.cpu_count(logical=False))}")' + python3 -c 'import multiprocessing; print(f"CPU count: {multiprocessing.cpu_count()}")' echo "count=$(python3 -c 'import multiprocessing; print(multiprocessing.cpu_count())')" >> $GITHUB_OUTPUT - uses: maxim-lobanov/setup-xcode@v1 diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index dcff54515..637978aed 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -31,8 +31,8 @@ jobs: kilonova_2d_2dgrid_expansionopac, kilonova_2d_2dgrid_xcomgammaphotoion, kilonova_2d_3dgrid, - nebularonezone_1d_3dgrid, - nebularonezone_1d_3dgrid_limitbfest, + nebular_1d_3dgrid, + nebular_1d_3dgrid_limitbfest, ] exclude: - os: self-hosted @@ -40,7 +40,7 @@ jobs: fail-fast: false runs-on: ${{ matrix.os }} - timeout-minutes: 45 + timeout-minutes: 120 name: ${{ matrix.testname }}${{ matrix.testmode == 'ON' && ' testmode ON' || ''}} steps: @@ -48,14 +48,6 @@ jobs: with: fetch-depth: 0 - - name: apt update - run: | - # sudo add-apt-repository main - # sudo add-apt-repository universe - # sudo add-apt-repository restricted - # sudo add-apt-repository multiverse - sudo apt-get update - - name: Install gcc-14 if: always() uses: fortran-lang/setup-fortran@v1 @@ -65,6 +57,7 @@ jobs: - name: install gsl and openmpi run: | + sudo apt-get update sudo apt install -y libgsl-dev sudo apt install -y openmpi-bin libopenmpi-dev @@ -72,6 +65,8 @@ jobs: 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())')" >> $GITHUB_OUTPUT @@ -113,7 +108,7 @@ jobs: - name: Compile run: | - make TESTMODE=${{ matrix.testmode }} MPI=ON FASTMATH=OFF -j${{ steps.cpu-count.outputs.count }} sn3d exspec + make TESTMODE=${{ 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/${{ matrix.testname }}_testrun/ @@ -123,7 +118,7 @@ jobs: run: | cp input-newrun.txt input.txt touch output_0-0.txt - time mpirun -np 2 ./sn3d + time mpirun -np 4 --oversubscribe --mca mpi_yield_when_idle 1 ./sn3d - name: Move job0 files if: always() @@ -154,7 +149,7 @@ jobs: working-directory: tests/${{ matrix.testname }}_testrun/ run: | cp input-resume.txt input.txt - time mpirun -np 2 ./sn3d + time mpirun -np 4 --oversubscribe --mca mpi_yield_when_idle 1 ./sn3d - name: Move job1 files if: always() @@ -242,23 +237,23 @@ jobs: at plotlightcurves ${{ matrix.testname }}_testrun at plotlightcurves --frompackets ${{ matrix.testname }}_testrun - - name: Plot spectrum nebularonezone - if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'nebularonezone') + - 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_1d - if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'classicmode_1d') + - name: Plot spectrum classicmode + if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'classicmode_') working-directory: tests/ run: | - at plotspectra --frompackets -t 18-22 ${{ matrix.testname }}_testrun + at plotspectra --frompackets -t 4-6 ${{ matrix.testname }}_testrun - - name: Plot spectrum classicmode_3d - if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'classicmode_3d') + - name: Plot virtual packet spectrum classicmode_1d + if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'classicmode_1d') working-directory: tests/ run: | - at plotspectra --frompackets -t 4-6 ${{ matrix.testname }}_testrun + at plotspectra -t 4-6 -plotvspecpol 0 1 2 3 12 13 14 --frompackets ${{ matrix.testname }}_testrun - name: Plot spectrum kilonova if: always() && matrix.testmode == 'OFF' && startsWith(matrix.testname, 'kilonova') @@ -273,26 +268,6 @@ jobs: name: test-${{ matrix.testname }}-output-pdf path: tests/*.pdf - # - name: Compile previous commit - # if: matrix.testmode == 'OFF' - # continue-on-error: true - # run: | - # git checkout HEAD~1 - # git log -n 1 - # cp tests/${{ matrix.testname }}_testrun/artisoptions.h . - # make TESTMODE=${{ matrix.testmode }} MPI=ON -j${{ steps.cpu-count.outputs.count }} sn3d exspec - # cp sn3d tests/${{ matrix.testname }}_testrun/ - # cp exspec tests/${{ matrix.testname }}_testrun/ - - # - name: Run previous commit job0 start - # if: matrix.testmode == 'OFF' - # continue-on-error: true - # working-directory: tests/${{ matrix.testname }}_testrun/ - # run: | - # cp input-newrun.txt input.txt - # touch output_0-0.txt - # time mpirun -np 2 ./sn3d - combine_checksums: needs: testmodels if: always() diff --git a/.vscode/extensions.json b/.vscode/extensions.json index 7c35db31e..7d44db65f 100644 --- a/.vscode/extensions.json +++ b/.vscode/extensions.json @@ -1,5 +1,6 @@ { "recommendations": [ - "llvm-vs-code-extensions.vscode-clangd" + "llvm-vs-code-extensions.vscode-clangd", + "usernamehw.errorlens" ] -} \ No newline at end of file +} diff --git a/.vscode/settings.json b/.vscode/settings.json index eae03cbcb..2b419c5aa 100644 --- a/.vscode/settings.json +++ b/.vscode/settings.json @@ -8,5 +8,11 @@ }, "[yaml]": { "editor.tabSize": 4 - } -} \ No newline at end of file + }, + "files.eol": "\n", + "files.trimFinalNewlines": true, + "files.insertFinalNewline": true, + "files.trimTrailingWhitespace": true, + "editor.formatOnType": true, + "editor.formatOnSave": true +} diff --git a/Makefile b/Makefile index 3723f976c..7aab59af3 100644 --- a/Makefile +++ b/Makefile @@ -174,6 +174,10 @@ CXXFLAGS += $(shell pkg-config --cflags gsl) # Use GSL inline functions CXXFLAGS += -DHAVE_INLINE -DGSL_C99_INLINE +ifneq ($(MAX_NODE_SIZE),) + CXXFLAGS += -DMAX_NODE_SIZE=$(MAX_NODE_SIZE) +endif + ifeq ($(TESTMODE),ON) CXXFLAGS += -DTESTMODE=true -D_LIBCPP_DEBUG=0 diff --git a/README.md b/README.md index 0a4fb6e32..7b880b143 100644 --- a/README.md +++ b/README.md @@ -6,7 +6,7 @@ [ARTIS](https://github.com/artis-mcrt/artis) ([Sim 2007](https://ui.adsabs.harvard.edu/abs/2007MNRAS.375..154S/abstract); [Kromer & Sim 2009](https://ui.adsabs.harvard.edu/abs/2009MNRAS.398.1809K/abstract)) is a 3D radiative transfer code for Type Ia supernovae using the Monte Carlo method with indivisible energy packets ([Lucy 2002](https://ui.adsabs.harvard.edu/abs/2002A%26A...384..725L/abstract)). The latest version incorporates polarisation and virtual packets ([Bulla et al. 2015](https://ui.adsabs.harvard.edu/abs/2015MNRAS.450..967B/abstract)), non-LTE physics appropriate for the nebular phase of Type Ia supernovae ([Shingles et al. 2020](https://ui.adsabs.harvard.edu/abs/2020MNRAS.492.2029S/abstract)), and alpha- and beta-decays with time-dependent thermalisation ([Shingles et al. 2023](https://ui.adsabs.harvard.edu/abs/2023ApJ...954L..41S/abstract)). ## Why is this code available? -The ARTIS source code is available because it forms part of the method used in published scientific results. Anyone who is interested in understanding the detailed numerical techniques (in greater detail than the published descriptions) used to obtain those results now has access to this information. We anticipate that other scientific software developers may find our code useful as a reference, and in this case we ask that authors of any derivative works acknowledge and cite the ARTIS collaboration. This is in additional to the legal requirements of attribution and preservation of copyright notices on any substantial copies under the BSD 3-Clause licence. +The ARTIS source code is available because it forms part of the method used in published scientific results. Anyone interested in understanding the detailed numerical techniques (in greater detail than the published descriptions) used to obtain those results now has access to this information. We anticipate that other scientific software developers could find our code useful as a reference, and in this case we ask that authors of any derivative works acknowledge and cite the ARTIS collaboration. This is in additional to the legal requirements of attribution and preservation of copyright notices on any substantial copies under the BSD 3-Clause licence. ## Can you help me to run the code? We are not able to provide support to users of the code outside our team of collaborators. diff --git a/decay.cc b/decay.cc index 6a4e6961e..a1ba84ee3 100644 --- a/decay.cc +++ b/decay.cc @@ -1456,4 +1456,4 @@ void setup_radioactive_pellet(const double e0, const int mgi, Packet &pkt) { void cleanup() { free_decaypath_energy_per_mass(); } -} // namespace decay \ No newline at end of file +} // namespace decay diff --git a/exspec.cc b/exspec.cc index add394ef8..a56983460 100644 --- a/exspec.cc +++ b/exspec.cc @@ -194,9 +194,9 @@ auto main(int argc, char *argv[]) -> int { // NOLINT(misc-unused-parameters) #ifdef MPI_ON printout("process id (pid): %d\n", getpid()); printout("MPI enabled:\n"); - printout(" rank %d of [0..%d] in MPI_COMM_WORLD\n", globals::rank_global, globals::nprocs - 1); - printout(" rank %d of [0..%d] in MPI_COMM_WORLD_SHARED on node %d of [0..%d]\n", globals::rank_in_node, - globals::node_nprocs - 1, globals::node_id, globals::node_count - 1); + printout(" rank_global %d of [0..%d] in MPI_COMM_WORLD\n", globals::rank_global, globals::nprocs - 1); + printout(" rank_in_node %d of [0..%d] in node %d of [0..%d]\n", globals::rank_in_node, globals::node_nprocs - 1, + globals::node_id, globals::node_count - 1); #else printout("MPI is disabled in this build\n"); #endif diff --git a/globals.h b/globals.h index 33a66fa96..11d162378 100644 --- a/globals.h +++ b/globals.h @@ -214,6 +214,10 @@ inline int bfestimcount{0}; // for USE_LUT_PHOTOION = true inline double *corrphotoionrenorm{}; +#ifdef MPI_ON +inline MPI_Win win_corrphotoionrenorm{MPI_WIN_NULL}; +#endif + inline double *gammaestimator{}; // for USE_LUT_BFHEATING = true @@ -322,12 +326,28 @@ inline void setup_mpi_vars() { // make an intra-node communicator (group ranks that can share memory) MPI_Comm_split_type(MPI_COMM_WORLD, MPI_COMM_TYPE_SHARED, globals::rank_global, MPI_INFO_NULL, &globals::mpi_comm_node); + // get the local rank within this node MPI_Comm_rank(globals::mpi_comm_node, &globals::rank_in_node); + // get the number of ranks on the node MPI_Comm_size(globals::mpi_comm_node, &globals::node_nprocs); + MPI_Barrier(MPI_COMM_WORLD); +#ifdef MAX_NODE_SIZE + if (MAX_NODE_SIZE > 0 && globals::node_nprocs > MAX_NODE_SIZE) { + // limit the number of ranks that can share memory + MPI_Comm_split(globals::mpi_comm_node, globals::rank_in_node / MAX_NODE_SIZE, globals::rank_global, + &globals::mpi_comm_node); + + MPI_Comm_rank(globals::mpi_comm_node, &globals::rank_in_node); + MPI_Comm_size(globals::mpi_comm_node, &globals::node_nprocs); + } + + MPI_Barrier(MPI_COMM_WORLD); +#endif + // make an inter-node communicator (using local rank as the key for group membership) MPI_Comm_split(MPI_COMM_WORLD, globals::rank_in_node, globals::rank_global, &globals::mpi_comm_internode); @@ -352,4 +372,4 @@ inline void setup_mpi_vars() { } // namespace globals -#endif // GLOBALS_H \ No newline at end of file +#endif // GLOBALS_H diff --git a/grid.cc b/grid.cc index 36f1a6132..7a861971f 100644 --- a/grid.cc +++ b/grid.cc @@ -75,7 +75,6 @@ double *totmassradionuclide{}; /// total mass of each radionuclide in the eject #ifdef MPI_ON MPI_Win win_nltepops_allcells = MPI_WIN_NULL; MPI_Win win_initradioabund_allcells = MPI_WIN_NULL; -MPI_Win win_corrphotoionrenorm = MPI_WIN_NULL; #endif float *initradioabund_allcells{}; @@ -1021,9 +1020,10 @@ static void allocate_nonemptymodelcells() { auto size = static_cast(my_rank_cells * globals::nbfcontinua_ground * sizeof(double)); int disp_unit = sizeof(double); assert_always(MPI_Win_allocate_shared(size, disp_unit, MPI_INFO_NULL, globals::mpi_comm_node, - &globals::corrphotoionrenorm, &win_corrphotoionrenorm) == MPI_SUCCESS); - assert_always(MPI_Win_shared_query(win_corrphotoionrenorm, 0, &size, &disp_unit, &globals::corrphotoionrenorm) == - MPI_SUCCESS); + &globals::corrphotoionrenorm, + &globals::win_corrphotoionrenorm) == MPI_SUCCESS); + assert_always(MPI_Win_shared_query(globals::win_corrphotoionrenorm, 0, &size, &disp_unit, + &globals::corrphotoionrenorm) == MPI_SUCCESS); } #else if constexpr (USE_LUT_PHOTOION) { diff --git a/input.cc b/input.cc index c4529ef30..6f3d74704 100644 --- a/input.cc +++ b/input.cc @@ -504,15 +504,16 @@ void add_transitions_to_unsorted_linelist(const int element, const int ion, cons #ifdef MPI_ON MPI_Barrier(MPI_COMM_WORLD); - MPI_Win win = MPI_WIN_NULL; + MPI_Win win_alltransblock = MPI_WIN_NULL; auto [_, my_rank_trans] = get_range_chunk(totupdowntrans, globals::node_nprocs, globals::rank_in_node); auto size = static_cast(my_rank_trans * sizeof(TransitionLine)); int disp_unit = sizeof(TransitionLine); - MPI_Win_allocate_shared(size, disp_unit, MPI_INFO_NULL, globals::mpi_comm_node, &alltransblock, &win); + MPI_Win_allocate_shared(size, disp_unit, MPI_INFO_NULL, globals::mpi_comm_node, &alltransblock, + &win_alltransblock); - MPI_Win_shared_query(win, 0, &size, &disp_unit, &alltransblock); + MPI_Win_shared_query(win_alltransblock, 0, &size, &disp_unit, &alltransblock); #else alltransblock = static_cast(malloc(totupdowntrans * sizeof(LevelTransition))); #endif @@ -962,7 +963,7 @@ void read_atomicdata_files() { // create a linelist shared on node and then copy data across, freeing the local copy TransitionLine *nonconstlinelist{}; #ifdef MPI_ON - MPI_Win win = MPI_WIN_NULL; + MPI_Win win_nonconstlinelist = MPI_WIN_NULL; size_t my_rank_lines = globals::nlines / globals::node_nprocs; // rank_in_node 0 gets any remainder @@ -972,9 +973,10 @@ void read_atomicdata_files() { MPI_Aint size = my_rank_lines * static_cast(sizeof(TransitionLine)); int disp_unit = sizeof(TransitionLine); - MPI_Win_allocate_shared(size, disp_unit, MPI_INFO_NULL, globals::mpi_comm_node, &nonconstlinelist, &win); + MPI_Win_allocate_shared(size, disp_unit, MPI_INFO_NULL, globals::mpi_comm_node, &nonconstlinelist, + &win_nonconstlinelist); - MPI_Win_shared_query(win, 0, &size, &disp_unit, &nonconstlinelist); + MPI_Win_shared_query(win_nonconstlinelist, 0, &size, &disp_unit, &nonconstlinelist); #else nonconstlinelist = static_cast(malloc(globals::nlines * sizeof(TransitionLine))); #endif @@ -2146,4 +2148,4 @@ void write_timestep_file() { globals::timesteps[n].width / DAY); } fclose(timestepfile); -} \ No newline at end of file +} diff --git a/packet.cc b/packet.cc index a4091ddd1..95c4ced18 100644 --- a/packet.cc +++ b/packet.cc @@ -213,14 +213,14 @@ void write_packets(const char filename[], const Packet *const pkt) { } void read_temp_packetsfile(const int timestep, const int my_rank, Packet *pkt) { - // read packets binary file + // read binary packets file char filename[MAXFILENAMELENGTH]; snprintf(filename, MAXFILENAMELENGTH, "packets_%.4d_ts%d.tmp", my_rank, timestep); printout("Reading %s...", filename); FILE *packets_file = fopen_required(filename, "rb"); - assert_always(std::fread(pkt, sizeof(Packet), globals::npkts, packets_file) == (size_t)globals::npkts); - // read_packets(packets_file); + assert_always(std::fread(pkt, sizeof(Packet), globals::npkts, packets_file) == static_cast(globals::npkts)); + fclose(packets_file); printout("done\n"); } @@ -228,7 +228,7 @@ void read_temp_packetsfile(const int timestep, const int my_rank, Packet *pkt) { auto verify_temp_packetsfile(const int timestep, const int my_rank, const Packet *const pkt) -> bool { // return true if verification is good, otherwise return false - // read packets binary file + // read binary packets file char filename[MAXFILENAMELENGTH]; snprintf(filename, MAXFILENAMELENGTH, "packets_%.4d_ts%d.tmp", my_rank, timestep); diff --git a/scripts/exspec-gzip-virgo-submit.sh b/scripts/exspec-gzip-virgo-submit.sh index 71ee1b7a8..7f1fa1dc8 100755 --- a/scripts/exspec-gzip-virgo-submit.sh +++ b/scripts/exspec-gzip-virgo-submit.sh @@ -1,2 +1,2 @@ #!/bin/bash -sbatch -J exspec_$(basename $(exec pwd)) --ntasks=1 --cpus-per-task 10 --mem-per-cpu=4096MB --partition=long --time=48:00:00 --mail-type=ALL --mail-user=${USER}@gsi.de -- artis/scripts/exspec-gzip-virgo-slurmjob.sh +sbatch -J exspec_$(basename $(exec pwd)) --ntasks=1 --cpus-per-task 16 --mem-per-cpu=4096MB --partition=long --time=48:00:00 --mail-type=ALL --mail-user=${USER}@gsi.de -- artis/scripts/exspec-gzip-virgo-slurmjob.sh diff --git a/sn3d.cc b/sn3d.cc index 580c44de3..d198b7022 100644 --- a/sn3d.cc +++ b/sn3d.cc @@ -245,12 +245,12 @@ void mpi_communicate_grid_properties(const int my_rank, const int nprocs, const const auto nonemptymgi = grid::get_modelcell_nonemptymgi(modelgridindex); assert_always(globals::corrphotoionrenorm != nullptr); if (globals::rank_in_node == 0) { - MPI_Bcast(&globals::corrphotoionrenorm[nonemptymgi * globals::nbfcontinua_ground], + MPI_Bcast(globals::corrphotoionrenorm + (nonemptymgi * globals::nbfcontinua_ground), globals::nbfcontinua_ground, MPI_DOUBLE, root_node_id, globals::mpi_comm_internode); } assert_always(globals::gammaestimator != nullptr); - MPI_Bcast(&globals::gammaestimator[nonemptymgi * globals::nbfcontinua_ground], globals::nbfcontinua_ground, + MPI_Bcast(globals::gammaestimator + (nonemptymgi * globals::nbfcontinua_ground), globals::nbfcontinua_ground, MPI_DOUBLE, root, MPI_COMM_WORLD); } @@ -833,8 +833,14 @@ auto main(int argc, char *argv[]) -> int { printout("process id (pid): %d\n", getpid()); printout("MPI enabled:\n"); printout(" rank %d of [0..%d] in MPI_COMM_WORLD\n", globals::rank_global, globals::nprocs - 1); - printout(" rank %d of [0..%d] in MPI_COMM_WORLD_SHARED on node %d of [0..%d]\n", globals::rank_in_node, - globals::node_nprocs - 1, globals::node_id, globals::node_count - 1); + printout(" rank %d of [0..%d] in node %d of [0..%d]\n", globals::rank_in_node, globals::node_nprocs - 1, + globals::node_id, globals::node_count - 1); +#ifdef MAX_NODE_SIZE + printout( + "WARNING: Compiled with MAX_NODE_SIZE %d, which may mean mean that there are more nodes reported than physically " + "present\n", + MAX_NODE_SIZE); +#endif #else printout("MPI is disabled in this build\n"); #endif diff --git a/tests/classicmode_1d_3dgrid_inputfiles/input-newrun.txt b/tests/classicmode_1d_3dgrid_inputfiles/input-newrun.txt index b70982c5b..3c8d78b22 100644 --- a/tests/classicmode_1d_3dgrid_inputfiles/input-newrun.txt +++ b/tests/classicmode_1d_3dgrid_inputfiles/input-newrun.txt @@ -1,7 +1,7 @@ 1281360349 # pre_zseed: specific random number seed if > 0 or random if negative -50 # globals::ntimesteps: number of timesteps -000 036 # timestep_start timestep_finish: number of start and end time step -3 30 # tmin_days tmax_days: start and end times [day] +30 # globals::ntimesteps: number of timesteps +000 011 # timestep_start timestep_finish: number of start and end time step +3 8 # tmin_days tmax_days: start and end times [day] 1.33 1.330000001 # nusyn_min_mev nusyn_max_mev: lowest and highest frequency to synthesise [MeV] 80 # nsyn_time: number of times for synthesis 3. 0.037 # start and end times for synthesis @@ -19,6 +19,6 @@ 5 # num_lte_timesteps 8.0 999 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/classicmode_1d_3dgrid_inputfiles/input-resume.txt b/tests/classicmode_1d_3dgrid_inputfiles/input-resume.txt index 538497ae2..23bdafeea 100644 --- a/tests/classicmode_1d_3dgrid_inputfiles/input-resume.txt +++ b/tests/classicmode_1d_3dgrid_inputfiles/input-resume.txt @@ -1,7 +1,7 @@ 1281360349 # pre_zseed: specific random number seed if > 0 or random if negative -50 # globals::ntimesteps: number of timesteps -035 050 # timestep_start timestep_finish: number of start and end time step -3 30 # tmin_days tmax_days: start and end times [day] +30 # globals::ntimesteps: number of timesteps +010 030 # timestep_start timestep_finish: number of start and end time step +3 8 # tmin_days tmax_days: start and end times [day] 1.33 1.330000001 # nusyn_min_mev nusyn_max_mev: lowest and highest frequency to synthesise [MeV] 80 # nsyn_time: number of times for synthesis 3. 0.037 # start and end times for synthesis @@ -19,6 +19,6 @@ 5 # num_lte_timesteps 8.0 999 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/classicmode_1d_3dgrid_inputfiles/results_md5_final.txt b/tests/classicmode_1d_3dgrid_inputfiles/results_md5_final.txt index 5b54ade19..7d93b222f 100644 --- a/tests/classicmode_1d_3dgrid_inputfiles/results_md5_final.txt +++ b/tests/classicmode_1d_3dgrid_inputfiles/results_md5_final.txt @@ -1,27 +1,37 @@ -50ef16bf43784e7f8dfbe2f6c285bc0a absorption.out -1a9d7d912bdc103a43b378b90e24c4ba absorptionpol.out +18d2e10f3bf71ef539852b5b2df4b439 absorption.out +d9c288195276a22408d15a75a657362c absorptionpol.out c0604236aa7df99cda43e5c7bbe7b6f4 bflist.out -fc4fc40330c7ecf916358cc744c422f3 deposition.out -fef7cc28820f477dd111d905a7cbdf5a emission.out -ca589bac83866a9479519cab74f31a09 emissionpol.out -21a1f61ef79299c43761614d097584b6 emissiontrue.out -1c8f43523a8bf1e24cd24db7f256701f gamma_light_curve.out -0c2a7f61dce00daa1da52a3085c41224 gamma_spec.out +c6d7319bb7136e9cae5874ee9efcc85d deposition.out +379b13704b6476814283bdd7d2ea4e47 emission.out +99235e55736cd52286bd74aa0fd07edc emissionpol.out +12cf80e6b48fe1f47b7647da1753f5eb emissiontrue.out +27f75c87d4cd766eb941db8bb54f1f81 gamma_light_curve.out +68f0fe43be3ff423a4a8b00e85dd79b7 gamma_spec.out 057b226c371f3819cba5e04bfea3d114 gammalinelist.out 20bddb22b6f084a7abc105c210366bfd grid.out -2918754ae0ca07ebba74ad8a148646ee light_curve.out +5c963868869e8d438927c54ec152551e light_curve.out 5740f40190d45653e5fce57ddf577dc8 linestat.out -c4e4e8d00846618f3931dc01cf52615f modelgridrankassignments.out -58fbae3d776d484d27cc7adb4d63d909 packets00_0000.out -fd81df81ec3fa4fbab5924f2892e59b4 packets00_0001.out -454b13ad8770380932e05e51bea9b9dc spec.out -ed8e92aa9a5d0d3717f697c967a35245 specpol.out -040c71f981716a2abf0467a82b1ac13c timesteps.out -508619acff2a825d7e3ce9a7536d2371 vpackets_0000.out -8be926090f01f929ef2f620a119db621 vpackets_0001.out -49214f0ff96736c807dfada58cd31f63 vpkt_grid_0000.out -aee10c0ea4c9070a6a99371e738cf1d0 vpkt_grid_0001.out -a5df7ee0f2b64fc14298b71f1c69a357 vspecpol_0000.out -1ea589c07198665405b2d037c104ad0f vspecpol_0001.out -1289d2c8180a1b1d0fbee86b07b97501 job1/estimators_0000.out -44aef2b4c845f2d5887c4949eca08a28 job1/estimators_0001.out \ No newline at end of file +41a1c375110d8edbf421edca3fc426e8 modelgridrankassignments.out +7bc2b07de9ebbc0bf802f17869da4a2d packets00_0000.out +ada898682332d885d8d4a1761c9591ed packets00_0001.out +6e53813bd40eeea80e16b261b99dcf3d packets00_0002.out +eec6b07e4c617c4a90e2b6e11a734c67 packets00_0003.out +c7852ce0d437fa2d69d281752b573a0e spec.out +406f0d143133f6f5acf6c3b918b30f70 specpol.out +bc01f046eab9bf3802149e0ff63d5069 timesteps.out +8602d0fc86e1ffdbd9362e025765032c vpackets_0000.out +2ddd0669aa42e86e4c3c33af336afabc vpackets_0001.out +221c7a09f5c875bb31d433d564ca0452 vpackets_0002.out +bb3135cb3ec944a611172c3d04fb033e vpackets_0003.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0000.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0001.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0002.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0003.out +c0f9d5656d2d155cd19bd98e45e2aecf vspecpol_0000.out +1d54f9876a95a759f41793d7afceea6e vspecpol_0001.out +6e4c992d669a05eaff47f310004b5a19 vspecpol_0002.out +22394b555269063ef22203785baf1da6 vspecpol_0003.out +96ed0b0aee737ee68753f9303226a2eb job1/estimators_0000.out +97d50c87e1932cb6ec152913792fe4e0 job1/estimators_0001.out +aa4ace2d555d3d24719d772f4d7f4ae5 job1/estimators_0002.out +04657cb83f1cb6e530c7203c667cd548 job1/estimators_0003.out diff --git a/tests/classicmode_1d_3dgrid_inputfiles/results_md5_job0.txt b/tests/classicmode_1d_3dgrid_inputfiles/results_md5_job0.txt index dd01f9024..5d029e80a 100644 --- a/tests/classicmode_1d_3dgrid_inputfiles/results_md5_job0.txt +++ b/tests/classicmode_1d_3dgrid_inputfiles/results_md5_job0.txt @@ -1,23 +1,33 @@ -e4646572d4363ee5a68fd32f5675ee3d absorption.out +f6f254e9f1381dc7b7f7ef8f8cd12b19 absorption.out c0604236aa7df99cda43e5c7bbe7b6f4 bflist.out -f3ee8a098c1131d1d5cf93e9fe0419d4 deposition.out -424f2177270e1ae0fb9622abaf6aec7d emission.out -5733cf949317613cbf531555c99a6b32 emissiontrue.out -522da47e6fee67deaa4f70f4c864810a gamma_light_curve.out +495e4053eb59ea072fa250fd7e0e92eb deposition.out +618536f8df9ce91e3215ef59cdd1d55e emission.out +5c757e01a7473b96512490153df67102 emissiontrue.out +bfe96e8a4db19cd45dff11ce3d3975d7 gamma_light_curve.out 057b226c371f3819cba5e04bfea3d114 gammalinelist.out 20bddb22b6f084a7abc105c210366bfd grid.out -a232896ac6ec44efdb9acee4a01e93c9 light_curve.out +8cb02f7c95a34b4a9b5b813e5e24017b light_curve.out 5740f40190d45653e5fce57ddf577dc8 linestat.out -c4e4e8d00846618f3931dc01cf52615f modelgridrankassignments.out -f5b346a235e97a802d4e8d21e078e025 packets00_0000.out -5039410ad2cfa41ec045723dae3c5ee0 packets00_0001.out -04b50cea1d7f9b69969dfdb295124409 spec.out -040c71f981716a2abf0467a82b1ac13c timesteps.out -edcc1eae5209d0cc50a08a9bc42411da vpackets_0000.out -8c941b0f8c1e9a51918ed7ecdc7c11ab vpackets_0001.out -16ce0ec48c62157a52752753f68e0c24 vpkt_grid_0000.out -12f46741e9a74403500c5851a02241c5 vpkt_grid_0001.out -61c709d5a671fe70707166f4c921a7a4 vspecpol_0000.out -ccb4805fe732dd03f860708de0bc34ef vspecpol_0001.out -dd193ed41652ff3db05a5c413a1af950 job0/estimators_0000.out -cfbf940c24b6696c4d28d2504a3cbfc0 job0/estimators_0001.out \ No newline at end of file +41a1c375110d8edbf421edca3fc426e8 modelgridrankassignments.out +7faaca35800ae2c3ad9d3f4960d48692 packets00_0000.out +163d6e63c3adaeb6411551f4e302dd02 packets00_0001.out +54fea7c30fe477a5c4937bed1b240749 packets00_0002.out +a3556934bd726112ef6870161515cf8a packets00_0003.out +7dbc1b825efffa6375b6a7985173a1c2 spec.out +bc01f046eab9bf3802149e0ff63d5069 timesteps.out +071332902024a0b4ab122020eda5c66c vpackets_0000.out +133a828923780814a105f2e19d101205 vpackets_0001.out +4ce751591988fb659a3ede79237ea563 vpackets_0002.out +0a5a8ef4f9d6ca2de6e382eba730ca7f vpackets_0003.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0000.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0001.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0002.out +d04b04da202515e44b961e6ec9f96c60 vpkt_grid_0003.out +ef9e1f821d4920e44053e909fdc51fe4 vspecpol_0000.out +abc6598657cda5f5a3be63bcaf519043 vspecpol_0001.out +d582dafe3ea571fe7473cc4c0be03455 vspecpol_0002.out +5b7fc753283aa641885d587c2f9518e6 vspecpol_0003.out +99ddf74f709d9eef3d62429416346220 job0/estimators_0000.out +68d13c6c4da76d29db65f6ce18a8e161 job0/estimators_0001.out +01a6901b977aca4d845c3cdafa75921c job0/estimators_0002.out +d802e8c65aea8c8005f39485bcc2e7c7 job0/estimators_0003.out diff --git a/tests/classicmode_1d_3dgrid_inputfiles/syn_dir.txt b/tests/classicmode_1d_3dgrid_inputfiles/syn_dir.txt deleted file mode 100644 index ba4514071..000000000 --- a/tests/classicmode_1d_3dgrid_inputfiles/syn_dir.txt +++ /dev/null @@ -1 +0,0 @@ -0 0 1 \ No newline at end of file diff --git a/tests/classicmode_3d_inputfiles/input-newrun.txt b/tests/classicmode_3d_inputfiles/input-newrun.txt index 569806299..70b1cb66d 100644 --- a/tests/classicmode_3d_inputfiles/input-newrun.txt +++ b/tests/classicmode_3d_inputfiles/input-newrun.txt @@ -19,6 +19,6 @@ 5 # num_lte_timesteps 3.0 999 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/classicmode_3d_inputfiles/input-resume.txt b/tests/classicmode_3d_inputfiles/input-resume.txt index d92fa54bb..11427bc80 100644 --- a/tests/classicmode_3d_inputfiles/input-resume.txt +++ b/tests/classicmode_3d_inputfiles/input-resume.txt @@ -19,6 +19,6 @@ 5 # num_lte_timesteps 3.0 999 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/classicmode_3d_inputfiles/results_md5_final.txt b/tests/classicmode_3d_inputfiles/results_md5_final.txt index d2a5b4b7b..79a5ec047 100644 --- a/tests/classicmode_3d_inputfiles/results_md5_final.txt +++ b/tests/classicmode_3d_inputfiles/results_md5_final.txt @@ -1,524 +1,528 @@ -6aaacd150ac3cb0a274696a43b6de762 absorption.out -2b85ff8d366027b8103ce119172f5904 absorption_res_00.out -3820b971acb8fe7cb45e0baf65ac0bbe absorption_res_01.out -4f21c24008368678c5948395b5c20456 absorption_res_02.out -5efa006b01013a8f2f1e5ec091cb48cc absorption_res_03.out -83f50e4a5f1b043ebc9f237a42bf8d4d absorption_res_04.out -8ac0f301a7ba0d8caa0c90fa5f511794 absorption_res_05.out -c75596d52717e972b7929e1af9664472 absorption_res_06.out -c1f1dfec732ae132e163ee5e886f3de5 absorption_res_07.out -d154657b450468a6b15455a996456643 absorption_res_08.out -0ef7c89a7305b15b2a35b5c6292490c4 absorption_res_09.out -a205fcf5c1ca3550e9f260d8c8c2a8b7 absorption_res_10.out -6d8538f10409822aa39142b553ba3682 absorption_res_11.out -c873785cff45d3184dc34f1c120c1b55 absorption_res_12.out -cbaa46c3b2363693f37c0bdf705d5f27 absorption_res_13.out -21cea727f1246958731ed14ac64588a1 absorption_res_14.out -a634b6be259776622324958021463afc absorption_res_15.out -14b72e21c470958db9f03b5de8f83592 absorption_res_16.out -50fb8a7634f57f45efc7d46fa84b0495 absorption_res_17.out -2254dda0e62960abd68a4658faeccc5a absorption_res_18.out -80a799397a52f577e3f1b7e94e846232 absorption_res_19.out -71491c47ab133463fdb7dc2df5013771 absorption_res_20.out -0427a52c3d1377f8ea92f84cc9881c83 absorption_res_21.out -11d85586bca5a614d52e3cd755e40f29 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+a21e0884dda7b21835da74054ed5a98e job1/estimators_0002.out +21160a59d95307c9dc879e733d3910bf job1/estimators_0003.out diff --git a/tests/classicmode_3d_inputfiles/results_md5_job0.txt b/tests/classicmode_3d_inputfiles/results_md5_job0.txt index 2ac14ccce..5b6afcc4a 100644 --- a/tests/classicmode_3d_inputfiles/results_md5_job0.txt +++ b/tests/classicmode_3d_inputfiles/results_md5_job0.txt @@ -1,17 +1,21 @@ -a99504f0f6ca86d9e2aff57f20f7ee9d absorption.out +6a5510f9d5126f62fe65ea11f76af72b absorption.out 9cbb3a257dd95b6b3dd92d1d7d913e6c bflist.out -5b31124754b49d826b64acafb7392314 deposition.out -b2aea5bf81aeee2ce78eb7d2849efdd0 emission.out -0687866947a31887dc9a598b34f9f5a4 emissiontrue.out -92542f1f55ece854b0d80c0df8304a6f gamma_light_curve.out +908b5a71a0fc1121935273b5a9e7ab8c deposition.out +558ee7d654a300cc3ad478fd74b20c11 emission.out +680cc0d3c4ecee72bea9a2e0c2454df8 emissiontrue.out +827d710010ae243eb29395b468d91440 gamma_light_curve.out 057b226c371f3819cba5e04bfea3d114 gammalinelist.out e08bbb965fac36412810b8769a13ab9d grid.out -1d8cdb0bee6f55a1eb80d3a18f6a3cef light_curve.out +35006afc4fd038ac1843dae8531bb1e4 light_curve.out 6a60c8e204b6679e37d10f30386d4948 linestat.out -07e400ff3495dc0b972ebe785db8b3c2 modelgridrankassignments.out -f3120cee010cee2ea0af2bbf4a075754 packets00_0000.out -3b5fabda07493598f6b9467d4de681e5 packets00_0001.out -fb3f4285858a753c24de4d61c709fbcc spec.out +0edca801bc9867f17f0208399cf9ebd3 modelgridrankassignments.out +40c324ca17f8fccec763cfb7ce81ddbc packets00_0000.out +503658330ea8a3d1faae20d952eaee55 packets00_0001.out +a254dfb37db9eb536d40948b140cf80b packets00_0002.out +56de76c244b04137473bb437052fd18f packets00_0003.out +fdb3d9de60da03e358b37bac30907ff2 spec.out bc01f046eab9bf3802149e0ff63d5069 timesteps.out -5ccc4503f3b44a5d35dd36c6013e86e9 job0/estimators_0000.out -008fd3b91d628326fc908479cdd771e5 job0/estimators_0001.out +047cee1126fec1c031af6218cc1a7549 job0/estimators_0000.out +ffbc88b7b7769ab17640fe6cc6eab391 job0/estimators_0001.out +4e2867e694940dc38911f049b983d0fb job0/estimators_0002.out +756b76a5d25b306127219443f459c903 job0/estimators_0003.out diff --git a/tests/classicmode_3d_inputfiles/syn_dir.txt b/tests/classicmode_3d_inputfiles/syn_dir.txt deleted file mode 100644 index ba4514071..000000000 --- a/tests/classicmode_3d_inputfiles/syn_dir.txt +++ /dev/null @@ -1 +0,0 @@ -0 0 1 \ No newline at end of file diff --git a/tests/kilonova_1d_1dgrid_inputfiles/results_md5_final.txt b/tests/kilonova_1d_1dgrid_inputfiles/results_md5_final.txt index 191cae38e..d68e8010f 100644 --- a/tests/kilonova_1d_1dgrid_inputfiles/results_md5_final.txt +++ b/tests/kilonova_1d_1dgrid_inputfiles/results_md5_final.txt @@ -1,18 +1,22 @@ -e1bbb9e147672e32bb50fba260343584 absorption.out +b8bb4ec33055c0533e85a030b888c0bb absorption.out f9bb214eb7f1ac22791a13c8025c4887 bflist.out -c075c25a09896046ceb8af9b6f998d83 deposition.out -7f7ee4926056b26206170ae330594d99 emission.out -4b1b8d917ab7f915b6f3b1afcef48011 emissiontrue.out -893ba3deb7c680605311de7f18ff01a2 gamma_light_curve.out -24ad8d7469380a561eecaedffde4e334 gamma_spec.out +da224a7c93bafb9d65fd8c60de4875b9 deposition.out +57152d87e775fac387aedbe2da63565f emission.out +28e11260373f18ceb90dbc7a51fd4d1b emissiontrue.out +c2dd25e167199fd8259801ed44307aad gamma_light_curve.out +9d32cad9f8c7a81c302cd0e54ffa9cf9 gamma_spec.out 4af36569cc2db94b41cdadbc03354ac4 gammalinelist.out 7db21c856b5d2784b14eabfd22e5b837 grid.out -9b198e6c609babbe223c63018acb7979 light_curve.out +0c4caa9c47d0c8c03ba7782661b4d454 light_curve.out 9773becefdfe4afffb041b703210c67c linestat.out -f5b097e63480ea2b54bb88459f72b19a modelgridrankassignments.out -bc41266bd7af71f9ad2dbef19fceb931 packets00_0000.out -5640ca76c081103daab5481a948b7437 packets00_0001.out -5fbbcd0c30de4611d0f6e8e3b7644174 spec.out +bc40edd64676f86b6ac2df0934e2ce9a modelgridrankassignments.out +97099188ebd7f840dfe86cbf973b526a packets00_0000.out +626b66d6579d9b4d0092e3e224c1e5cc packets00_0001.out +95aedbb99244264bcb569851c2808d92 packets00_0002.out +63ac2dd4ef4a01115cacfb4f56142aaa packets00_0003.out +0d71dd643700788b34c6cc0e6e16b249 spec.out a351f1711fecd60c023d0ba7332092db timesteps.out -2c3b065fff996381b2e0a45c70738f1e job1/estimators_0000.out -0639426a93fe8a9349b24676e19e0da5 job1/estimators_0001.out +8887f9816dee5adfbf9e7fcfb7322f96 job1/estimators_0000.out +e8a07489101da8c29e32a93f9a632ccd job1/estimators_0001.out +13fd3fa04d1b2591e38f0b1fded7c24f job1/estimators_0002.out +a1e22e2ab6d2e12086e4a7c89bc23107 job1/estimators_0003.out diff --git a/tests/kilonova_1d_1dgrid_inputfiles/results_md5_job0.txt b/tests/kilonova_1d_1dgrid_inputfiles/results_md5_job0.txt index 292f1c51a..1eebf01c8 100644 --- a/tests/kilonova_1d_1dgrid_inputfiles/results_md5_job0.txt +++ b/tests/kilonova_1d_1dgrid_inputfiles/results_md5_job0.txt @@ -1,17 +1,21 @@ -7e47b382ddacd759ae33771c8fba1bc2 absorption.out +d4e0ad3b9282fd7d355e59fedd9ca524 absorption.out f9bb214eb7f1ac22791a13c8025c4887 bflist.out -54a15c584936535a52da16c4747ba4be deposition.out -43641ad17d13b4d07954d7fd9a45864a emission.out -d23d4ea71b94b1a4fb706f49a4c8c002 emissiontrue.out -b82ac74d554da3f567302ccbadff7366 gamma_light_curve.out +fe31a2fabe038df41f5e5c11c96d54a3 deposition.out +2f8d16bf3a72e4cccab4b31d8bac6433 emission.out +d71f446aa4f40eb3075096f74ac10d32 emissiontrue.out +76e2a2d6efa64ba43940acafaf1bded1 gamma_light_curve.out 4af36569cc2db94b41cdadbc03354ac4 gammalinelist.out 7db21c856b5d2784b14eabfd22e5b837 grid.out -31be3b86c22c343df5b2f0f10c2edd0c light_curve.out +3f7d485a712e6ccd161286055665d5cf light_curve.out 9773becefdfe4afffb041b703210c67c linestat.out -f5b097e63480ea2b54bb88459f72b19a modelgridrankassignments.out -7c8652d52cd04232598027f9ce28fbaa packets00_0000.out -e763c71053277f450be602d76c2530d6 packets00_0001.out -8269008eb999358088439c0330a996fd spec.out +bc40edd64676f86b6ac2df0934e2ce9a modelgridrankassignments.out +8bb4b6f07fc34142439bd8f4ebb0bcb9 packets00_0000.out +0494ff2946480c3f202e783e96febf18 packets00_0001.out +38c35feeb2562209fc032a5d2b4214aa packets00_0002.out +391eabcea04d522b3737bbad2b7a8ae8 packets00_0003.out +5578753ba7bd469be0351accab13098a spec.out a351f1711fecd60c023d0ba7332092db timesteps.out -1562cb1d6e35294fef43933942689fee job0/estimators_0000.out -b6fdebf56f3b91161ef78489a3a6df56 job0/estimators_0001.out +248d0cf29942868d28a1ae0d356be77d job0/estimators_0000.out +fc900ecb9d79011718cd7ae52fb3a380 job0/estimators_0001.out +912058d7398ef507ee1cdf68b03d5343 job0/estimators_0002.out +4b7a4256554dfbdf9a175744eda5ab3e job0/estimators_0003.out diff --git a/tests/kilonova_1d_3dgrid_inputfiles/input-newrun.txt b/tests/kilonova_1d_3dgrid_inputfiles/input-newrun.txt index 4918076a4..c2488fd27 100644 --- a/tests/kilonova_1d_3dgrid_inputfiles/input-newrun.txt +++ b/tests/kilonova_1d_3dgrid_inputfiles/input-newrun.txt @@ -19,6 +19,6 @@ 999 # num_lte_timesteps 0.0 5 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/kilonova_1d_3dgrid_inputfiles/input-resume.txt b/tests/kilonova_1d_3dgrid_inputfiles/input-resume.txt index 24e7330c8..2f4a2e2fe 100644 --- a/tests/kilonova_1d_3dgrid_inputfiles/input-resume.txt +++ b/tests/kilonova_1d_3dgrid_inputfiles/input-resume.txt @@ -19,6 +19,6 @@ 999 # num_lte_timesteps 0.0 5 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/kilonova_1d_3dgrid_inputfiles/results_md5_final.txt b/tests/kilonova_1d_3dgrid_inputfiles/results_md5_final.txt index 3d90de8d2..0fb800378 100644 --- a/tests/kilonova_1d_3dgrid_inputfiles/results_md5_final.txt +++ b/tests/kilonova_1d_3dgrid_inputfiles/results_md5_final.txt @@ -1,18 +1,22 @@ -a28abc7f3400c76d3b38da6cc3815b13 absorption.out +afddb3dfcd4820f26b386e4c109bf290 absorption.out f9bb214eb7f1ac22791a13c8025c4887 bflist.out -47ec1e26673e6d95cf29ad41f51856a1 deposition.out -858da30ef4cfe71f53759dbc7dedd1ff emission.out -56c691bbc3c3e0d93a32e209c64bfc3d emissiontrue.out -a24dd7054c3bc0c35be4e74a5f9e6ed3 gamma_light_curve.out -756a288eb4e4d171fcb1162c0ec8c3d8 gamma_spec.out +cab02bd10e1c7fe69fed3b2900cb259d deposition.out +4b6cdd402c56e1fb42bbcab2da2798ba emission.out +fb46627a27e8b5c60a7c19e8afa899ba emissiontrue.out +b2574e7b86bd084f4099e71457d31d61 gamma_light_curve.out +9b45ff5c668ac3e676b337643fe69de8 gamma_spec.out 4af36569cc2db94b41cdadbc03354ac4 gammalinelist.out 17cf657837d7df2969e3e1540b183cfe grid.out -a180e52d4ee94f2d679a1320ca628b06 light_curve.out +1ec0e115098575b6c3772a165b364b7b light_curve.out 9773becefdfe4afffb041b703210c67c linestat.out -f5b097e63480ea2b54bb88459f72b19a modelgridrankassignments.out -187dadc1e5ed8bb6cdb25684f2ebb8de packets00_0000.out -cd13ef75f6e694f9062dc47caa96ff32 packets00_0001.out -821414204b3fb0fab174b9895cbc6e68 spec.out +bc40edd64676f86b6ac2df0934e2ce9a modelgridrankassignments.out +786989f46d846cb92aaeed1095e13e0b packets00_0000.out +85052248726d4392c31bede29a9bbea1 packets00_0001.out +ceade568de559a7fcfb0f5237334916a packets00_0002.out +e7cbd8bf315b0c240e41b03d68494748 packets00_0003.out +533109b016dccf2ac1c01a8dad972a1a spec.out a351f1711fecd60c023d0ba7332092db timesteps.out -3c8106ae605fffd169219d901d7ab212 job1/estimators_0000.out -c7b390ad5ca2566dd0b4d6477f50a3e6 job1/estimators_0001.out +4a0efcfacf204a8b9871e4d2bc859a31 job1/estimators_0000.out +eb91d0a23333ee4e17f49fb3803b2602 job1/estimators_0001.out +5667e1a17d165b74d83239c50a8ca8a2 job1/estimators_0002.out +24df7096085b6a13a4caa99530570b6e job1/estimators_0003.out diff --git a/tests/kilonova_1d_3dgrid_inputfiles/results_md5_job0.txt b/tests/kilonova_1d_3dgrid_inputfiles/results_md5_job0.txt index 7b2a46fb8..15b94afb2 100644 --- a/tests/kilonova_1d_3dgrid_inputfiles/results_md5_job0.txt +++ b/tests/kilonova_1d_3dgrid_inputfiles/results_md5_job0.txt @@ -1,17 +1,21 @@ -86efe2dfb75107386eb4a0a2b01825cb absorption.out +0d160e90f51c01c2409981ccb9259631 absorption.out f9bb214eb7f1ac22791a13c8025c4887 bflist.out -9185d6817583cd68b3cad05eb2368aa6 deposition.out -badaf4d5686bac45bcaf19efc6eacb02 emission.out -1cc31f4dc885f52aa180cef4b1dc3dc5 emissiontrue.out -28454eabb842b47ba951914a57add3eb gamma_light_curve.out +c9dd16b245bd5acd7f8bffc806f5b170 deposition.out +4880162d2de1707a307aead7ab553f0a emission.out +e245e07bb000a542b4c42b909c829a66 emissiontrue.out +87243e77a401ec46e86aff78dbe3a5ce gamma_light_curve.out 4af36569cc2db94b41cdadbc03354ac4 gammalinelist.out 17cf657837d7df2969e3e1540b183cfe grid.out -9626cbeee57ff23233a67786179520ae light_curve.out +0929d932cd01be6ee3ed3d867c7723d4 light_curve.out 9773becefdfe4afffb041b703210c67c linestat.out -f5b097e63480ea2b54bb88459f72b19a modelgridrankassignments.out -57ed4007507e2d752360602a13d14d5a packets00_0000.out -072bb27a8fd8a4ec54bae4e465641b96 packets00_0001.out -6fe9dc86f38f3b31814186c336019313 spec.out +bc40edd64676f86b6ac2df0934e2ce9a modelgridrankassignments.out +8a2b74a4d447c9d9f68cb6abaa72dafc packets00_0000.out +4504927b31d88820e80de6231517f5f4 packets00_0001.out +b5075578608a73090483c067cb86c3e6 packets00_0002.out +07498486311d07baca18d9746f3b0ebe packets00_0003.out +c23c2d7807e88f7d8501494e22d16735 spec.out a351f1711fecd60c023d0ba7332092db timesteps.out -c58117ca6aebfbb76d7635a5493ebec2 job0/estimators_0000.out -edbb07384f94a3c38054aa84e3d36192 job0/estimators_0001.out +a7aa64ff12cc5e0b683066dacc660912 job0/estimators_0000.out +3eb076b0a6c858705c7c9b39c94ddba4 job0/estimators_0001.out +c7226c689ee1d0ba380bc73d94930054 job0/estimators_0002.out +8684f27afd45ce681d2003e1be75504d job0/estimators_0003.out diff --git a/tests/kilonova_1d_3dgrid_inputfiles/syn_dir.txt b/tests/kilonova_1d_3dgrid_inputfiles/syn_dir.txt deleted file mode 100644 index ba4514071..000000000 --- a/tests/kilonova_1d_3dgrid_inputfiles/syn_dir.txt +++ /dev/null @@ -1 +0,0 @@ -0 0 1 \ No newline at end of file diff --git a/tests/kilonova_2d_2dgrid_expansionopac_inputfiles/results_md5_final.txt b/tests/kilonova_2d_2dgrid_expansionopac_inputfiles/results_md5_final.txt index 1ffd88a1d..f30a4b1e7 100644 --- a/tests/kilonova_2d_2dgrid_expansionopac_inputfiles/results_md5_final.txt +++ 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0.0 5 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/kilonova_2d_3dgrid_inputfiles/input-resume.txt b/tests/kilonova_2d_3dgrid_inputfiles/input-resume.txt index 8f4486546..6f5f6393f 100644 --- a/tests/kilonova_2d_3dgrid_inputfiles/input-resume.txt +++ b/tests/kilonova_2d_3dgrid_inputfiles/input-resume.txt @@ -19,6 +19,6 @@ 999 # num_lte_timesteps 0.0 5 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: 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emissiontrue_res_93.out +b6598ed87d03ca3f51e131dc52527485 emissiontrue_res_94.out +9a30724131314209675dde794cfe2d69 emissiontrue_res_95.out +901c9571fa159adc156be72c50f58700 emissiontrue_res_96.out +8a15750775ac7c0e9ac9f4571572d857 emissiontrue_res_97.out +e31eec573dc4434532d7e82f0aaf84ca emissiontrue_res_98.out +e09f8cf0d23a9fb772b627cd3cf3ac4f emissiontrue_res_99.out +7be290623cbfe8cff563766751f57a34 gamma_light_curve.out +15e54b37a5b94b04dacb437ae6785ff7 gamma_spec.out 2b769145664780d4f90b07f963588536 gammalinelist.out b72b67aae10074c2b0915aaad7d9ccbc grid.out -0a19c2e25fca1ae65278653adbee7c0d light_curve.out -d59673879699412cfe041953e4daa1e4 light_curve_res.out +59d4e63b24a46d89cc19995a4bbfa9a6 light_curve.out +3e3927250cf10270dee0d2e29e846ba1 light_curve_res.out 9773becefdfe4afffb041b703210c67c linestat.out -fa80b4c76909e5984e9f17d0548a9a73 modelgridrankassignments.out -967d3df041556c802c72bb66e7d7b0a3 packets00_0000.out -28094c2a199ee6607d6f8ff2988dd2f6 packets00_0001.out -f2bea0bcfa94e8edcc00ce440857aa26 spec.out -bd96aa33323c64e02bb6b901f304bfbb spec_res.out +d80043ce6bedca56511b9fd3f7c0a49f modelgridrankassignments.out +058637596c32e8c6bdd6b15fc3ab9491 packets00_0000.out +6833be5d39a8c9e61437e6cec5108d94 packets00_0001.out +e438ccc343efbf3e33cc2a3b0ba3d03f packets00_0002.out +8cac5d7ec612112d2db49fa6e2642555 packets00_0003.out +fefbb2e13fb77978eb282b360970dc3e spec.out +c1baf1876b8084f9e6026f107358aaab spec_res.out a351f1711fecd60c023d0ba7332092db timesteps.out -70fd776510b5226e2b0868406dad0b13 job1/estimators_0000.out -f3d0f296a9134f10dcf0b9caee69e998 job1/estimators_0001.out +e644a723d9198610e5512cd60d36243e job1/estimators_0000.out +2cda179b034eb9e7fcab21a49eccf7f8 job1/estimators_0001.out +aae4e57600fa366c4dac1854d9687d9f job1/estimators_0002.out +8034893dde531c11dfbd3d6b797c54f6 job1/estimators_0003.out diff --git a/tests/kilonova_2d_3dgrid_inputfiles/results_md5_job0.txt b/tests/kilonova_2d_3dgrid_inputfiles/results_md5_job0.txt index fff18ea08..4b97e8e8d 100644 --- a/tests/kilonova_2d_3dgrid_inputfiles/results_md5_job0.txt +++ b/tests/kilonova_2d_3dgrid_inputfiles/results_md5_job0.txt @@ -1,14 +1,18 @@ f9bb214eb7f1ac22791a13c8025c4887 bflist.out -01a1967b7c2abb14674d80efe9d77076 deposition.out -ed035872d205ede8cbefb6f6e66db7fa gamma_light_curve.out +0cd0a493679114a220b0621680bc532c deposition.out +6f1004591fceaa1d5ca9189980932075 gamma_light_curve.out 2b769145664780d4f90b07f963588536 gammalinelist.out b72b67aae10074c2b0915aaad7d9ccbc grid.out -b2e8ee953967d6709099ad05be61b09f light_curve.out +0424d7bbe86c0db3b58817bd800e159e light_curve.out 9773becefdfe4afffb041b703210c67c linestat.out -fa80b4c76909e5984e9f17d0548a9a73 modelgridrankassignments.out -896c99a2c3e589ac732cdadd949c067e packets00_0000.out -2431b38779b007bc986ff022ed921ad6 packets00_0001.out -f8cfd141dfa301309bd0fba60c6f0c71 spec.out +d80043ce6bedca56511b9fd3f7c0a49f modelgridrankassignments.out +e23e312f8b0070f8a83f0bca9583b1ae packets00_0000.out +08fd730ffcdd0a56b754184cb524e6a4 packets00_0001.out +bdb8608de1561af021c7c670009f76d0 packets00_0002.out +751417675baa159245b0e667d5f914f1 packets00_0003.out +6d2808e463c2250c53be08c2d6b59e92 spec.out a351f1711fecd60c023d0ba7332092db timesteps.out -0970d2071bf460007ecb98035a668703 job0/estimators_0000.out -38b655306a34333a109303f0c4308278 job0/estimators_0001.out +37e1259e7d845efeaac6fa851143d655 job0/estimators_0000.out +3b6d88914795a2213ed90924b6a08835 job0/estimators_0001.out +952c0eb856084016b97d0123a2ec2d67 job0/estimators_0002.out +690f779fd1f174bff190036c33adf727 job0/estimators_0003.out diff --git a/tests/kilonova_2d_3dgrid_inputfiles/syn_dir.txt b/tests/kilonova_2d_3dgrid_inputfiles/syn_dir.txt deleted file mode 100644 index ba4514071..000000000 --- a/tests/kilonova_2d_3dgrid_inputfiles/syn_dir.txt +++ /dev/null @@ -1 +0,0 @@ -0 0 1 \ No newline at end of file diff --git a/tests/nebular_1d_3dgrid_inputfiles/abundances.txt b/tests/nebular_1d_3dgrid_inputfiles/abundances.txt new file mode 100644 index 000000000..09ee25bde --- /dev/null +++ b/tests/nebular_1d_3dgrid_inputfiles/abundances.txt @@ -0,0 +1,3 @@ + 1 0.0000e+00 6.9514e-03 0.0000e+00 2.0648e-22 9.7252e-16 1.3451e-06 4.9710e-15 2.0193e-09 1.0082e-15 3.5137e-09 1.0459e-13 7.2570e-09 5.4240e-10 3.9343e-08 4.0184e-09 2.0361e-07 4.7223e-08 9.8554e-07 1.9935e-07 1.8840e-06 3.5162e-08 5.6235e-06 2.7310e-07 8.4381e-06 1.8827e-07 1.2830e-05 1.3316e-05 9.7483e-01 8.7574e-04 1.7228e-02 + 2 0.0000e+00 7.6968e-16 1.6136e-24 2.2353e-22 1.8141e-21 9.1461e-07 3.5075e-14 9.8778e-06 1.4576e-20 3.0563e-10 2.4066e-11 1.2837e-05 9.8383e-10 4.9594e-01 1.9633e-06 2.8436e-01 1.0232e-06 4.9474e-02 3.1854e-06 3.9321e-02 7.2034e-10 1.5527e-05 5.0874e-07 1.0818e-03 1.2200e-04 5.9636e-02 3.6199e-03 6.6399e-02 4.1547e-09 1.5526e-09 + 3 0.0000e+00 1.0341e-18 6.8943e-23 5.4017e-21 2.0264e-19 6.7339e-06 1.1900e-10 1.9010e-01 3.8956e-16 6.1026e-06 6.1755e-09 4.6316e-04 8.6701e-06 4.6691e-01 6.3257e-04 2.5276e-01 8.0895e-04 5.4871e-02 1.1270e-03 2.5027e-02 2.2171e-07 3.2222e-04 2.5126e-06 7.1980e-04 9.1150e-05 5.8136e-03 3.9783e-05 2.9783e-04 1.1065e-09 2.7728e-10 diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/input-newrun.txt b/tests/nebular_1d_3dgrid_inputfiles/input-newrun.txt similarity index 97% rename from tests/nebularonezone_1d_3dgrid_inputfiles/input-newrun.txt rename to tests/nebular_1d_3dgrid_inputfiles/input-newrun.txt index 7840a6b33..bcfcfa804 100644 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/input-newrun.txt +++ b/tests/nebular_1d_3dgrid_inputfiles/input-newrun.txt @@ -19,6 +19,6 @@ 4 # num_lte_timesteps 0.0 4 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/input-resume.txt b/tests/nebular_1d_3dgrid_inputfiles/input-resume.txt similarity index 97% rename from tests/nebularonezone_1d_3dgrid_inputfiles/input-resume.txt rename to tests/nebular_1d_3dgrid_inputfiles/input-resume.txt index de564696d..31521770b 100644 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/input-resume.txt +++ b/tests/nebular_1d_3dgrid_inputfiles/input-resume.txt @@ -19,6 +19,6 @@ 4 # num_lte_timesteps 0.0 4 # cell_is_optically_thick num_grey_timesteps -1 # UNUSED max_bf_continua: (>0: max bound-free continua per ion, <0 unlimited) -2 # nprocs_exspec: extract spectra for n MPI tasks +4 # nprocs_exspec: extract spectra for n MPI tasks 1 # do_emission_res: Extract line-of-sight dependent information of last emission for spectrum_res (1: yes, 2: no) 0.001 1000 # kpktdiffusion_timescale n_kpktdiffusion_timesteps: kpkts diffuse x of a time step's length for the first y time steps diff --git a/tests/nebular_1d_3dgrid_inputfiles/model.txt b/tests/nebular_1d_3dgrid_inputfiles/model.txt new file mode 100644 index 000000000..ff9198bde --- /dev/null +++ b/tests/nebular_1d_3dgrid_inputfiles/model.txt @@ -0,0 +1,6 @@ +# cells 70, 100, 120 from W7 Iwamoto +3 +0.000231481 + 1 7.07500e+03 1.68330e+00 9.93040e-01 8.97610e-01 1.14680e-05 0.00000e+00 0.00000e+00 + 2 1.02600e+04 1.25210e+00 1.30870e-01 6.09340e-02 2.38250e-05 0.00000e+00 0.00000e+00 + 3 1.24150e+04 9.61470e-01 7.28710e-03 2.38750e-07 1.47070e-06 0.00000e+00 0.00000e+00 diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/recombrates.txt b/tests/nebular_1d_3dgrid_inputfiles/recombrates.txt similarity index 100% rename from tests/nebularonezone_1d_3dgrid_inputfiles/recombrates.txt rename to tests/nebular_1d_3dgrid_inputfiles/recombrates.txt diff --git a/tests/nebular_1d_3dgrid_inputfiles/results_md5_final.txt b/tests/nebular_1d_3dgrid_inputfiles/results_md5_final.txt new file mode 100644 index 000000000..838339ea0 --- /dev/null +++ b/tests/nebular_1d_3dgrid_inputfiles/results_md5_final.txt @@ -0,0 +1,30 @@ +a0a9957fe56f07b30fd667bbc8862c43 absorption.out +aff44ecad68d986f04fcd6110331ba8b bflist.out +0b7686ff1fab9c4bacc5486aabc5c421 deposition.out +82e9cc26719f53714737065dda43da79 emission.out +2fca8b6df84bfec802c623725b584294 emissiontrue.out +bbc12a10475fb7a801a04f06e56861ed gamma_light_curve.out +1db22751dc8a80ba3f23831630b52097 gamma_spec.out +057b226c371f3819cba5e04bfea3d114 gammalinelist.out +a3e3cf9b6adeac882d182c06011c63e8 grid.out +ab459cc8e8540d5f4352bfbda140a469 light_curve.out +9773becefdfe4afffb041b703210c67c linestat.out +25a9dd224aa09e3ac10e091ad673223d modelgridrankassignments.out +541602a1b9c5ac8be6372dbff57e97b0 packets00_0000.out +ad732ad19eb47535e731413261716e81 packets00_0001.out +6791dfcc8b3fb600864e007f0fde5020 packets00_0002.out +ba11000fc9f3e22c361905e5c88d1e70 packets00_0003.out +b9f314f9a296a32b1732c4ac163088e7 spec.out +8e7163982f1aa938dc1505478b8c60d1 timesteps.out +d2af692fa171802c2735c6c2cb3d21e6 job1/estimators_0000.out +9409e1a11e01e0ae494257f145d7047f job1/estimators_0001.out +f737dca3a18a377d4af6d594e2e1753c job1/estimators_0002.out +3939046c8f072fbcafb2825969713398 job1/nlte_0000.out +01d0f41f84fcb57145a3eb7111cf6ccc job1/nlte_0001.out +4f9e04505f266651af15e057be690ed1 job1/nlte_0002.out +098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0000.out +098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0001.out +098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0002.out +8d1912ef1d02d786c6f2cf0802422adf job1/radfield_0000.out +a80801660c77cec7a6fd9d144361c71e job1/radfield_0001.out +982f164f7c07f26afbefe86c1820b709 job1/radfield_0002.out diff --git a/tests/nebular_1d_3dgrid_inputfiles/results_md5_job0.txt b/tests/nebular_1d_3dgrid_inputfiles/results_md5_job0.txt new file mode 100644 index 000000000..b17fdf386 --- /dev/null +++ b/tests/nebular_1d_3dgrid_inputfiles/results_md5_job0.txt @@ -0,0 +1,29 @@ +0214118b0d1f2bcf1ea70600d1e2c236 absorption.out +aff44ecad68d986f04fcd6110331ba8b bflist.out +fbb89ee95b9323d3c1f843482935977b deposition.out +806f2bac5f9839b7d5dde80872d2335b emission.out +f47c36a3905e6baac50624adbf781d15 emissiontrue.out +b103a8b8a93234f6ed4ec9f7134d7b74 gamma_light_curve.out +057b226c371f3819cba5e04bfea3d114 gammalinelist.out +a3e3cf9b6adeac882d182c06011c63e8 grid.out +7f9f624aff57c77ba267d188bd8f3b76 light_curve.out +9773becefdfe4afffb041b703210c67c linestat.out +25a9dd224aa09e3ac10e091ad673223d modelgridrankassignments.out +c59add030d3c8b251e74086f771407ef packets00_0000.out +c20fb13f1ec7b4e0367b38d48e291f61 packets00_0001.out +b0dc28be8d00ecd40e260e605131fb1a packets00_0002.out +4fff710f3c66b07d072473d263704b4c packets00_0003.out +c98d7b9bc20e210c34c1d9d18cdcd30b spec.out +8e7163982f1aa938dc1505478b8c60d1 timesteps.out +cb6d40184608eb4234e60a84b96cdcd6 job0/estimators_0000.out 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+2ebac101c6a3e4f0db8ce36d3c179e04 job1/estimators_0002.out +6038cb41537b773a9fd659af21e04a41 job1/nlte_0000.out +5f3d791a08c7ee9142e883275db74b33 job1/nlte_0001.out +8c4ea4b2d7fd417b9aa4d65cf0751cf3 job1/nlte_0002.out +098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0000.out +098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0001.out +098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0002.out +c45755ed24897d2871689f992ed2c0e9 job1/radfield_0000.out +92930c7409684e306e10e19d3229d1fb job1/radfield_0001.out +135611c424d52921baa48877098cd545 job1/radfield_0002.out diff --git a/tests/nebular_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt b/tests/nebular_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt new file mode 100644 index 000000000..949c058b8 --- /dev/null +++ b/tests/nebular_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt @@ -0,0 +1,29 @@ +2bab28e6c44dc5f73ce68bd1e9792e2b absorption.out +aff44ecad68d986f04fcd6110331ba8b bflist.out +c2188ca7df89b8a6b40006dc32ed8c8b deposition.out +d7852586693f119d71c452553abac594 emission.out +66e15feb69cdcdba0f477301a3c15db1 emissiontrue.out +93bf0f184c75652ba532acb05013b2bb gamma_light_curve.out +057b226c371f3819cba5e04bfea3d114 gammalinelist.out +a3e3cf9b6adeac882d182c06011c63e8 grid.out +5ac9cb2c4967e6156bd73cbf510483c9 light_curve.out +9773becefdfe4afffb041b703210c67c linestat.out +25a9dd224aa09e3ac10e091ad673223d modelgridrankassignments.out +38f43634a42ef185adab06be6c555684 packets00_0000.out +267c5ecf781af9fa2b6575160e8da225 packets00_0001.out +b43a4b88e59ee6d370dbd1e74f48e5bc packets00_0002.out +ffb281555aa9b97c67710b305dadc8ad packets00_0003.out +6359d469d801b3eda814b0cc4a5eb196 spec.out +8e7163982f1aa938dc1505478b8c60d1 timesteps.out +20276e33ca8f3dfc4aadc378c043b5bf job0/estimators_0000.out +79725dee21a0aa8cd019391f496f8e77 job0/estimators_0001.out +159836770680e7457bc47e37947a0f92 job0/estimators_0002.out +70745363977227f69b62785cf6773acd job0/nlte_0000.out +c49c7ccf68d648435a82116406c8d6eb job0/nlte_0001.out +38aab2a3c5650a86117213fba89b5175 job0/nlte_0002.out +098fc87f14a17287756a3a4f2cadc922 job0/nonthermalspec_0000.out +098fc87f14a17287756a3a4f2cadc922 job0/nonthermalspec_0001.out +098fc87f14a17287756a3a4f2cadc922 job0/nonthermalspec_0002.out +e49dde6600b47037b6557cf80fd88fd8 job0/radfield_0000.out +ea41d42c7769892ed09670146727f025 job0/radfield_0001.out +f961b54108e02d7dd06facf00adf8776 job0/radfield_0002.out diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/abundances.txt b/tests/nebularonezone_1d_3dgrid_inputfiles/abundances.txt deleted file mode 100644 index a2d2e4446..000000000 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/abundances.txt +++ /dev/null @@ -1 +0,0 @@ - 1 0.0000e+00 6.9861e-03 0.0000e+00 0.0000e+00 0.0000e+00 1.3292e-06 4.1989e-15 1.9917e-09 8.5972e-16 3.4451e-09 1.0535e-13 7.0733e-09 5.2826e-10 3.7960e-08 3.8863e-09 1.9474e-07 4.5971e-08 9.3588e-07 1.9767e-07 1.8130e-06 3.1913e-08 5.4161e-06 2.7787e-07 8.1404e-06 1.8798e-07 1.2464e-05 1.3119e-05 9.7463e-01 9.1571e-04 1.7358e-02 diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/model.txt b/tests/nebularonezone_1d_3dgrid_inputfiles/model.txt deleted file mode 100644 index 766138a31..000000000 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/model.txt +++ /dev/null @@ -1,3 +0,0 @@ -1 -0.000231481 - 1 7.20500e+03 1.66570e+00 9.93010e-01 8.88480e-01 1.11350e-05 0.00000e+00 0.00000e+00 diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_final.txt b/tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_final.txt deleted file mode 100644 index 5a1549ef1..000000000 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_final.txt +++ /dev/null @@ -1,20 +0,0 @@ -0f80218f5e006e738d41f10911739241 absorption.out -aff44ecad68d986f04fcd6110331ba8b bflist.out -f4256dada874ae19eadb355a3e5291f8 deposition.out -4b8e160948fa0e4262622fd5421ef0fd emission.out -3e047978b52ef4deef2a774ae9cc6ac0 emissiontrue.out -466d493075dafcb4b60101de6634e0df gamma_light_curve.out -3395346161f4f07a0a80f968b8c7636f gamma_spec.out -057b226c371f3819cba5e04bfea3d114 gammalinelist.out -47dd2e31cc98d5d1dda67520fb399429 grid.out -11e3120f7b6b01185cf4f6f933cb07d5 light_curve.out -9773becefdfe4afffb041b703210c67c linestat.out -98195ccb920b6831d137861c8c6cbfa7 modelgridrankassignments.out -dbcd005ed0d131e8860df06956446ad3 packets00_0000.out -0a97a4118b2161020dbfe2c379e28370 packets00_0001.out -358203b8b6eb08c5e3f492709ad015f7 spec.out -8e7163982f1aa938dc1505478b8c60d1 timesteps.out -5b83b49be2c182fee5a2a0b74f9b6ab2 job1/estimators_0000.out -4be02364811482aeb4c793f5ade8f4d2 job1/nlte_0000.out -098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0000.out -6e62ef25ea497f5a9253bffd7d19ebaf job1/radfield_0000.out diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_job0.txt b/tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_job0.txt deleted file mode 100644 index c83bd6173..000000000 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/results_md5_job0.txt +++ /dev/null @@ -1,19 +0,0 @@ -f49774867b219288f87362d6500f97fa absorption.out -aff44ecad68d986f04fcd6110331ba8b bflist.out -c520fc8c095cfcd30e788cbe8368e25e deposition.out -06370cdf659014deb654bef94b1a5fcb emission.out -85385bae7837383447715525a694e7ae emissiontrue.out -bae276e6bf19e86ebdddaf8625809782 gamma_light_curve.out -057b226c371f3819cba5e04bfea3d114 gammalinelist.out -47dd2e31cc98d5d1dda67520fb399429 grid.out -0d36d6fe2d76f837e65f497d81fe1d40 light_curve.out -9773becefdfe4afffb041b703210c67c linestat.out -98195ccb920b6831d137861c8c6cbfa7 modelgridrankassignments.out -4689ac13b0c15eb06c84cf5cebc7f185 packets00_0000.out -51c5841ac521eda008d39778b4c941ad packets00_0001.out -ee4f0b2582331d708a34c84a142b88f9 spec.out -8e7163982f1aa938dc1505478b8c60d1 timesteps.out -3af8502252935c2687816472a08cbe1a job0/estimators_0000.out -5014e7828f79e5a47bc28430a2c07589 job0/nlte_0000.out -098fc87f14a17287756a3a4f2cadc922 job0/nonthermalspec_0000.out -3bfb5acd6d0f18ec923ef5e5faa0c844 job0/radfield_0000.out diff --git a/tests/nebularonezone_1d_3dgrid_inputfiles/syn_dir.txt b/tests/nebularonezone_1d_3dgrid_inputfiles/syn_dir.txt deleted file mode 100644 index ba4514071..000000000 --- a/tests/nebularonezone_1d_3dgrid_inputfiles/syn_dir.txt +++ /dev/null @@ -1 +0,0 @@ -0 0 1 \ No newline at end of file diff --git a/tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_final.txt b/tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_final.txt deleted file mode 100644 index 05564c81f..000000000 --- a/tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_final.txt +++ /dev/null @@ -1,20 +0,0 @@ -2a7a8e7b14d09d8d9449142d6affab01 absorption.out -aff44ecad68d986f04fcd6110331ba8b bflist.out -1b66c697ffeb49b8f49ef16e6034e557 deposition.out -8d60ee7aedfe3ae93ea05f7275ef72e1 emission.out -8f8009f6e42b7d296a258a47b59ea62d emissiontrue.out -3b2b080c721f6d34d92511637bc02d90 gamma_light_curve.out -13ed15cfa5ecb2ad81d6f25f71f5e2d7 gamma_spec.out -057b226c371f3819cba5e04bfea3d114 gammalinelist.out -47dd2e31cc98d5d1dda67520fb399429 grid.out -777bef431feedce41df7cfd0a99bdc65 light_curve.out -9773becefdfe4afffb041b703210c67c linestat.out -98195ccb920b6831d137861c8c6cbfa7 modelgridrankassignments.out -92b849956330137800ae9aa1918e5628 packets00_0000.out -77cbad65da64c6d5bc786a24ff44eda1 packets00_0001.out -84beb7a8468873c0e87ace701f9cd5c0 spec.out -8e7163982f1aa938dc1505478b8c60d1 timesteps.out -8a549b6db369303ec1e1926078414d3d job1/estimators_0000.out -b3cff112ae236ffd91ab8c02a43b5acd job1/nlte_0000.out -098fc87f14a17287756a3a4f2cadc922 job1/nonthermalspec_0000.out -d6dde8e9cedc7d18aefbecfd267a5014 job1/radfield_0000.out \ No newline at end of file diff --git a/tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt b/tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt deleted file mode 100644 index 8c55ff1f6..000000000 --- a/tests/nebularonezone_1d_3dgrid_limitbfest_inputfiles/results_md5_job0.txt +++ /dev/null @@ -1,19 +0,0 @@ -782f6b145460bd745e649e73d179525c absorption.out -aff44ecad68d986f04fcd6110331ba8b bflist.out -e6b1397b0c1d4924c5bf29d7dda5c519 deposition.out -9bef58048b2e2b883eb2f07e47f29612 emission.out -9444209c71cba29ceb4d55ed94c28398 emissiontrue.out -c03cf354af41b3355c5a13d779de5d3e gamma_light_curve.out -057b226c371f3819cba5e04bfea3d114 gammalinelist.out -47dd2e31cc98d5d1dda67520fb399429 grid.out -1ddae4372b95a1436479520096564578 light_curve.out -9773becefdfe4afffb041b703210c67c linestat.out -98195ccb920b6831d137861c8c6cbfa7 modelgridrankassignments.out -c53862ab86401f76f882e9ce89f274ce packets00_0000.out -c0772a1934e4f61b9b9a4b54ef58addb packets00_0001.out -f253b841ed8ff5d832ce82e6b9266cdd spec.out -8e7163982f1aa938dc1505478b8c60d1 timesteps.out -2b54247cf58f0e826f7d497b41c174ec job0/estimators_0000.out -6e93d50a4d1941dbc3f261ca76196a01 job0/nlte_0000.out -098fc87f14a17287756a3a4f2cadc922 job0/nonthermalspec_0000.out -349185aee4a31f3d3cfc4b7180407400 job0/radfield_0000.out \ No newline at end of file diff --git a/tests/setup_nebularonezone_1d_3dgrid.sh b/tests/setup_nebular_1d_3dgrid.sh similarity index 79% rename from tests/setup_nebularonezone_1d_3dgrid.sh rename to tests/setup_nebular_1d_3dgrid.sh index f21262009..3b01ffc3c 100755 --- a/tests/setup_nebularonezone_1d_3dgrid.sh +++ b/tests/setup_nebular_1d_3dgrid.sh @@ -2,19 +2,19 @@ set -x -runfolder=nebularonezone_1d_3dgrid_testrun +runfolder=nebular_1d_3dgrid_testrun -rsync -av nebularonezone_1d_3dgrid_inputfiles/ nebularonezone_1d_3dgrid_testrun/ +rsync -av nebular_1d_3dgrid_inputfiles/ nebular_1d_3dgrid_testrun/ if [ ! -f atomicdata_feconi.tar.xz ]; then curl -O https://theory.gsi.de/~lshingle/artis_http_public/artis/atomicdata_feconi.tar.xz; fi -tar -xf atomicdata_feconi.tar.xz --directory nebularonezone_1d_3dgrid_testrun/ +tar -xf atomicdata_feconi.tar.xz --directory nebular_1d_3dgrid_testrun/ -cp ../data/* nebularonezone_1d_3dgrid_testrun/ +cp ../data/* nebular_1d_3dgrid_testrun/ -cp ../artisoptions_nltenebular.h nebularonezone_1d_3dgrid_testrun/artisoptions.h +cp ../artisoptions_nltenebular.h nebular_1d_3dgrid_testrun/artisoptions.h -cd nebularonezone_1d_3dgrid_testrun +cd nebular_1d_3dgrid_testrun sed -i'' -e 's/constexpr int MPKTS.*/constexpr int MPKTS = 1000000;/g' artisoptions.h diff --git a/tests/setup_nebularonezone_1d_3dgrid_limitbfest.sh b/tests/setup_nebular_1d_3dgrid_limitbfest.sh similarity index 74% rename from tests/setup_nebularonezone_1d_3dgrid_limitbfest.sh rename to tests/setup_nebular_1d_3dgrid_limitbfest.sh index 9de39e3e6..8f2bd04c4 100755 --- a/tests/setup_nebularonezone_1d_3dgrid_limitbfest.sh +++ b/tests/setup_nebular_1d_3dgrid_limitbfest.sh @@ -2,21 +2,21 @@ set -x -runfolder=nebularonezone_1d_3dgrid_limitbfest_testrun +runfolder=nebular_1d_3dgrid_limitbfest_testrun -rsync -av nebularonezone_1d_3dgrid_inputfiles/ nebularonezone_1d_3dgrid_limitbfest_testrun/ +rsync -av nebular_1d_3dgrid_inputfiles/ nebular_1d_3dgrid_limitbfest_testrun/ -rsync --ignore-times -av nebularonezone_1d_3dgrid_limitbfest_inputfiles/ nebularonezone_1d_3dgrid_limitbfest_testrun/ +rsync --ignore-times -av nebular_1d_3dgrid_limitbfest_inputfiles/ nebular_1d_3dgrid_limitbfest_testrun/ if [ ! -f atomicdata_feconi.tar.xz ]; then curl -O https://theory.gsi.de/~lshingle/artis_http_public/artis/atomicdata_feconi.tar.xz; fi -tar -xf atomicdata_feconi.tar.xz --directory nebularonezone_1d_3dgrid_limitbfest_testrun/ +tar -xf atomicdata_feconi.tar.xz --directory nebular_1d_3dgrid_limitbfest_testrun/ -cp ../data/* nebularonezone_1d_3dgrid_limitbfest_testrun/ +cp ../data/* nebular_1d_3dgrid_limitbfest_testrun/ -cp ../artisoptions_nltenebular.h nebularonezone_1d_3dgrid_limitbfest_testrun/artisoptions.h +cp ../artisoptions_nltenebular.h nebular_1d_3dgrid_limitbfest_testrun/artisoptions.h -cd nebularonezone_1d_3dgrid_limitbfest_testrun +cd nebular_1d_3dgrid_limitbfest_testrun sed -i'' -e 's/constexpr int MPKTS.*/constexpr int MPKTS = 1000000;/g' artisoptions.h diff --git a/update_grid.cc b/update_grid.cc index 7113cfd20..4a4e32ddc 100644 --- a/update_grid.cc +++ b/update_grid.cc @@ -922,8 +922,8 @@ void update_grid_cell(const int mgi, const int nts, const int nts_prev, const in if (USE_LUT_PHOTOION && !globals::simulation_continued_from_saved) { /// Determine renormalisation factor for corrected photoionization cross-sections - std::fill_n(&globals::corrphotoionrenorm[nonemptymgi * globals::nbfcontinua_ground], globals::nbfcontinua_ground, - 1.); + std::fill_n(globals::corrphotoionrenorm + (nonemptymgi * globals::nbfcontinua_ground), + globals::nbfcontinua_ground, 1.); } /// W == 1 indicates that this modelgrid cell was treated grey in the @@ -980,7 +980,7 @@ void update_grid_cell(const int mgi, const int nts, const int nts_prev, const in grid::set_W(mgi, 1); if constexpr (USE_LUT_PHOTOION) { - std::fill_n(&globals::corrphotoionrenorm[nonemptymgi * globals::nbfcontinua_ground], + std::fill_n(globals::corrphotoionrenorm + (nonemptymgi * globals::nbfcontinua_ground), globals::nbfcontinua_ground, 1.); } diff --git a/vpkt.h b/vpkt.h index 5d271356d..e78a77dde 100644 --- a/vpkt.h +++ b/vpkt.h @@ -23,9 +23,9 @@ constexpr int VMNUBINS = 2500; // TIME // dlogt = (log(globals::tmin) - log(globals::tmax)) / VMTBINS ~ 3.69e-2 (111 over 2-120 d) -constexpr double VSPEC_TIMEMIN = 10 * DAY; -constexpr double VSPEC_TIMEMAX = 30 * DAY; -constexpr int VMTBINS = 30; +constexpr double VSPEC_TIMEMIN = 3 * DAY; +constexpr double VSPEC_TIMEMAX = 8 * DAY; +constexpr int VMTBINS = 5; // number of virtual packets in a given timestep inline int nvpkt{0};