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paper/paper.md

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AMReX is a C++ software framework that supports the development of
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block-structured adaptive mesh refinement (AMR) algorithms for solving
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systems of partial differential equations (PDEs) with complex boundary
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conditions on current and emerging architectures.
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conditions on current and emerging architectures.
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Block-structured AMR discretization provides the basis for the temporal and spatial
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strategy for a large number of applications; see, e.g.,
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strategy for a large number of applications; see, e.g.,
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[@BergerOliger], [@BergerColella], [@BBSW], [@IAMR], [@Pember]
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for some of the earliest block-structured AMR work.
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There are also a number of block-structured and octtree AMR
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There are also a number of block-structured and octree AMR
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software frameworks publicly available; see [@CalhounWebPage] for links to many of them.
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AMR reduces the computational cost and memory footprint compared to a uniform mesh while preserving the
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including atmospheric modeling, astrophysics, combustion, cosmology, fluctuating hydrodynamics,
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multiphase flows, and particle accelerators.
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In particular, the AMReX-Astro GitHub repository holds a number of astrophysical modeling
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tools based on AMReX [@Zingale_2018].
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tools based on AMReX [@Zingale_2018].
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The origins of AMReX trace back to the BoxLib [@BoxLib] software framework.
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AMReX supports a number of different time-stepping strategies
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AMReX developers believe that interoperability is an important feature of sustainable software.
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AMReX has examples of interfaces to other popular software packages such as
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SUNDIALS [@sundials], PETSc {@petsc] and hypre [@petsc], and is part of the
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2018 xSDK [@xsdk] software release thus installable with Spack.
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SUNDIALS [@sundials], PETSc [@petsc] and hypre [@petsc], and is part of the
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2018 xSDK [@xsdk] software release thus installable with Spack.
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### Mesh and Particle Data
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AMReX has native I/O for checkpointing and for reading and writing plotfiles for post-processing
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analysis or visualization. AMReX also supplies interfaces to HDF5. The AMReX plotfile format
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is supported by VisIt [@Visit], Paraview [@Paraview], and yt [@yt].
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is supported by VisIt [@Visit], Paraview [@Paraview], and yt [@yt].
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AMReX also has linkages to external routines through both
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Conduit [@Conduit] and SENSEI [@SENSEI].
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### Documentation, Tutorials and Profiling Tools
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Extensive documentation of core AMReX functionality is available online, and many of the application
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codes based on AMReX are publicly available as well.
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codes based on AMReX are publicly available as well.
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Smaller examples of using AMReX for building application codes
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are provided in the AMReX Tutorials section.
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Examples include a Particle-in-Cell (PIC) code, a compressible Navier--Stokes solver in complex geometry,

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