Regression test gold standard v11

Required update to test iterative tasking.

Regression test gold standard v10

Required update because HDF5 metadata changed

Regression test gold standard v9

Required update because OutputDatasetNames attribute in HDF5 metadata changed

Regression test gold standard v8

Required update because HDF5 metadata changed

Regression test gold standard v7

Required update because HDF5 metadata names changed

Regression test gold standard v6

Regression test gold standard, updates for new metadata and changed metadata labels in HDF5 output

Regression test gold standard v5

Regression test gold standard, updates for new metadata in HDF5 output when using multi-var advection

Regression test gold standard v4

Regression test gold standard, updates for new metadata in HDF5 output

Version 0.5.0

Release 0.5.0

Date: 03/30/2021

Added (new features/APIs/variables/...)

• [PR 475] Add update function UpdateWithFluxDivergence and gamma variables to integrator to support low-storage, two stage integrators.
• [PR 463] Add PARTHENON_ENABLE_TESTING and PARTHENON_ENABLE_PYTHON_MODULE_CHECK option and documentation on how to use the regression testing framework downstream.
• [PR 461] A negative dt in an output block disables it.
• [PR 439] Add split initialization of environment (ParthenonInitEnv()) and packages and mesh (ParthenonInitPackagesAndMesh()) to ParthenonManager
• [PR 406] Add stochastic_subgrid example that performs a random amount of work per cell (drawn from a power law distribution)
• [PR 440] Add abstraction for allocating a unique_ptr to an object in device memory
• [PR 438] More diagnostic runtime output (AMR/Loadbalance and mesh structure) controlled via parthenon/time/ncycle_out_mesh input parameter (default 0 - off)
• [PR 412] Add capability to use host (pinned) memory for communication buffers (via PARTHENON_ENABLE_HOST_COMM_BUFFERS - default OFF)
• [PR 359] MeshBlockPack support for buffer pack and unpack of CellCentered Variables

Changed (changing behavior/API/variables/...)

• [PR 451] Remove custom ran2 interface and source
• [PR 425] Remove ambiguity in package names. Packages_t no longer has an operator[] method. This has been replaced with Add and Get.
• [PR 359] Templated inline reconstruction functions to support different types (e.g., ParArray4D or ParArrayND)

Fixed (not changing behavior/API/variables/...)

• [PR 468] Fix extra endl in input CheckDesired
• [PR 465] Fix soft disable output for drivers without temporal evolution
• [PR 453] Fix array bounds for AMR hierarchy log and use vector instead of unique_ptr
• [PR 441] Fixed type in input parsing of pack_size

Infrastructure (changes irrelevant to downstream codes)

• [PR 436] Update Summit build doc and machine file
• [PR 435] Fix ctest logic for parsing number of ranks in MPI tests
• [PR 407] More cleanup, removed old bash scripts for ci.
• [PR 428] Triad Copyright 2021
• [PR 413] LANL Snow machine configuration
• [PR 390] Resolve @PAR_ROOT@ to parthenon root rather than the location of the current source directory
• [PR 443] Fix Darwin machine config - use spectrum mpi
• [PR 444] Writes performance metrics to file for advection test
• [PR 452] Disable copyright check and linting by default, add CI check for copyright
• [PR 473] Added documentation for forked pr

Version 0.4.0

Release 0.4.0

Date: 01/19/2021

Added (new features/APIs/variables/...)

• [PR 400] Extend StateDescriptor for customizable output via user-customizable function pointers PreStepDiagnosticsMesh and PostStepDiagnosticsMesh
• [PR 391] Add VariablePack<T>::GetSparseId and VariablePack<T>::GetSparseIndex to return global sparse ids and pack-local sparse index, repsectively.
• [PR 381] Overload DataCollection::Add to build MeshData and MeshBlockData objects with a subset of variables.
• [PR 378] Add Kokkos profiling regions throughout the code to allow the collection characteristic application profiles
• [PR 358] Generalize code that interfaces with downstream apps to work with both MeshData and MeshBlockData.
• [PR 335] Support for project-relative MACHINE_CFG with @PAR_ROOT@
• [PR 328] New MeshBlock packing interface using DataCollections of MeshData and MeshBlockData.
• [PR 386] Introduce Private, Provides, Requires, and Overridable variable metadata, allowing fine-grained control of conflict resolution between packages.

Changed (changing behavior/API/variables/...)

• [PR 393] Small refactor to make driver code more flexible for downstream apps.
• [PR 400] Change Mesh, ApplicationInput, and Driver to suppport pre- and post- step user work
• [PR 394] Make Params.Get const-correct.
• [PR 332] Rewrote boundary conditions to work on GPUs with variable packs. Re-enabled user-defined boundary conditions via ApplicationInput.

Fixed (not changing behavior/API/variables/...)

• [#401] Fix missing initial timestep for MeshData functions
• [PR 387] Add missing const that was needed
• [PR 353] Fixed small error in input_parameter logic
• [PR 352] Code compiles cleanly (no warnings) with nvcc_wrapper

Infrastructure (changes irrelevant to downstream codes)

• [PR 392] Fix C++ linting for when parthenon is a submodule
• [PR 335] New machine configuration file for LANL's Darwin cluster
• [PR 200] Adds support for running ci on power9 nodes.
• [PR 347] Speed up darwin ci by using pre installed spack packages from project space
• [PR 368] Fixes false positive in ci.
• [PR 369] Initializes submodules when running on darwin ci.
• [PR 382] Adds output on fail for fast ci implementation on Darwin.
• [PR 362] Small fix to clean regression tests output folder on reruns
• [PR 403] Cleanup Codacy warnings