Unit required error for Sod problem #152
Description
I am attempting to compile and run AthenaPK on my laptop (for testing purposes) but am running into an unexpected error when running the Sod shock tube problem (see below). I compile the system with the following
MACHINE_CFG=Local.cmake cmake -S. -Bbuild-native
cd build-native
make -j 4./bin/athenaPK -i ../inputs/sod.in Output:
### PARTHENON ERROR
Message: Temperature ceiling requires units and gas composition. Either set a 'units' block and the 'hydro/He_mass_fraction' in input file or use a pressure floor (defined code units) instead.
File: /home/sten/Documents/PhD/AthenaPK/athenapk/src/hydro/hydro.cpp
Line number: 530
Temperature ceiling requires units and gas composition. Either set a 'units' block and the 'hydro/He_mass_fraction' in input file or use a pressure floor (defined code units) instead.
Backtrace:
[0x55fcc7437215]
[0x55fcc7422711]
[0x55fcc6e5af62]
[0x55fcc6ed6758]
[0x55fcc6ed7413]
[0x55fcc6e34b9e]
[0x55fcc73dd382]
[0x55fcc6e276c4]
[0x7faebba27675]
[0x7faebba27729] __libc_start_main
[0x55fcc6e343a5]
[Auriga:262056] *** Process received signal ***
[Auriga:262056] Signal: Aborted (6)
[Auriga:262056] Signal code: (-6)
[Auriga:262056] [ 0] /usr/lib/libc.so.6(+0x3e540) [0x7faebba3e540]
[Auriga:262056] [ 1] /usr/lib/libc.so.6(+0x9894c) [0x7faebba9894c]
[Auriga:262056] [ 2] /usr/lib/libc.so.6(gsignal+0x20) [0x7faebba3e410]
[Auriga:262056] [ 3] /usr/lib/libc.so.6(abort+0x26) [0x7faebba2557a]
[Auriga:262056] [ 4] ./bin/athenaPK(+0x65571e) [0x55fcc742271e]
[Auriga:262056] [ 5] ./bin/athenaPK(+0x8df62) [0x55fcc6e5af62]
[Auriga:262056] [ 6] ./bin/athenaPK(+0x109758) [0x55fcc6ed6758]
[Auriga:262056] [ 7] ./bin/athenaPK(+0x10a413) [0x55fcc6ed7413]
[Auriga:262056] [ 8] ./bin/athenaPK(+0x67b9e) [0x55fcc6e34b9e]
[Auriga:262056] [ 9] ./bin/athenaPK(+0x610382) [0x55fcc73dd382]
[Auriga:262056] [10] ./bin/athenaPK(+0x5a6c4) [0x55fcc6e276c4]
[Auriga:262056] [11] /usr/lib/libc.so.6(+0x27675) [0x7faebba27675]
[Auriga:262056] [12] /usr/lib/libc.so.6(__libc_start_main+0x89) [0x7faebba27729]
[Auriga:262056] [13] ./bin/athenaPK(+0x673a5) [0x55fcc6e343a5]
[Auriga:262056] *** End of error message ***
zsh: IOT instruction (core dumped) ./bin/athenaPK -i ../inputs/sod.in
I compile with my own Local.cmake, derived from one of the other example variants, but please if you have improvements let me know. I find it difficult to figure out what parameters are actually necessary to make things work:
message(STATUS "WIP machine config file for my local laptop.\n"
)
# common options
# set(Kokkos_ARCH_SPR ON CACHE BOOL "CPU architecture")
set(Kokkos_ARCH_NATIVE ON CACHE BOOL "CPU architecture")
set(CMAKE_BUILD_TYPE "Release" CACHE STRING "Default release build")
set(MACHINE_VARIANT "cpu-mpi" CACHE STRING "Default build for just CPU")
# Options for above
# - cuda: build with CUDA only
# - cuda-mpi: build with CUDA and MPI
# - cpu-mpi: build with CPU and MPI
# - cpu: build with CPU only
# variants
if (${MACHINE_VARIANT} MATCHES "cuda")
set(Kokkos_ARCH_PASCAL61 ON CACHE BOOL "GPU architecture") # For my own GPU
set(Kokkos_ENABLE_CUDA ON CACHE BOOL "Enable Cuda")
set(CMAKE_CXX_COMPILER ${CMAKE_CURRENT_SOURCE_DIR}/external/Kokkos/bin/nvcc_wrapper CACHE STRING "Use nvcc_wrapper")
else()
set(CMAKE_CXX_COMPILER g++ CACHE STRING "Use g++")
set(CMAKE_CXX_FLAGS "-fopenmp-simd -ffast-math -fprefetch-loop-arrays" CACHE STRING "Default opt flags")
endif()
# Setting launcher options independent of parallel or serial test as the launcher always
# needs to be called from the batch node (so that the tests are actually run on the
# compute nodes.
# TODO: check if the below flags work for my system...
set(TEST_MPIEXEC mpirun CACHE STRING "Command to launch MPI applications")
set(TEST_NUMPROC_FLAG "-np" CACHE STRING "Flag to set number of processes")
# set(NUM_GPU_DEVICES_PER_NODE "6" CACHE STRING "6x V100 per node")
set(PARTHENON_ENABLE_GPU_MPI_CHECKS OFF CACHE BOOL "Disable check by default")
if (${MACHINE_VARIANT} MATCHES "mpi")
set(PARTHENON_DISABLE_HDF5 ON CACHE BOOL "Disable HDF5 (does not work for parallel)")
# Use a single resource set on a node that includes all cores and GPUs.
# GPUs are automatically assigned round robin when run with more than one rank.
list(APPEND TEST_MPIOPTS "-n" "1" "-g" "6" "-c" "42" "-r" "1" "-d" "packed" "-b" "packed:7" "--smpiargs='-gpu'")
else()
set(PARTHENON_DISABLE_MPI ON CACHE BOOL "Disable MPI")
endif()