Overlap serialization and permutation edit. - #13

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hgangwar wants to merge 196 commits into

jacobmerson:developfrom

hgangwar:mfem_adapter_edits

Commits on Mar 14, 2026

add new rbf functions

abhiyan123
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jacobmerson
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d24f691
minor changes

abhiyan123
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jacobmerson
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5d3af4e
add doxygen comment

abhiyan123
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jacobmerson
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d4f6781
add mesh intersection files

abhiyan123
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jacobmerson
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6304092
add doxygen comments

abhiyan123
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jacobmerson
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8e07c9a
add doxygen comments

abhiyan123
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jacobmerson
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23e8434
add doxygen comments

abhiyan123
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jacobmerson
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83ed8ef
add doxygen comments

abhiyan123
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jacobmerson
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f712271
minor fixes

abhiyan123
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jacobmerson
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972d38e
update doxygen comments

abhiyan123
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jacobmerson
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a2fba6b
update comments

abhiyan123
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jacobmerson
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bbef708
update CMakeLists

abhiyan123
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jacobmerson
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5b7e369
update CMakeLists
jacobmerson
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5e5d64f
update topmost CMakeLists
jacobmerson
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4d62d5a
update CMakeLists

abhiyan123
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jacobmerson
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ea884ec
add pcms namespace

abhiyan123
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jacobmerson
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67405f5
add load vector test

abhiyan123
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b669fc9
add namespace

abhiyan123
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jacobmerson
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4395171
remove main

abhiyan123
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jacobmerson
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49a8304
correct the name of petsc variables

abhiyan123
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jacobmerson
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fa56a19
correct the petsc variables name

abhiyan123
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jacobmerson
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6bf0bd4
add PCMS_ENABLE_PETSC and PCMS_ENABLE_MESHFIELDS macros

abhiyan123
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jacobmerson
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c445cc6
fix memory space issue

abhiyan123
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jacobmerson
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aa97504
fix petsc variable name

abhiyan123
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jacobmerson
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c666821
fix header name

abhiyan123
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jacobmerson
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bf75141
fix header name

abhiyan123
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jacobmerson
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175d95e
add more rbfs and their use cases

abhiyan123
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jacobmerson
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620e847
fix constructor

abhiyan123
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jacobmerson
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819e0cb
remove semicolon

abhiyan123
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jacobmerson
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676ee48
resolve copilot suggestions
jacobmerson
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7b837ca
create a localization target
jacobmerson
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200f635
add pcms namespace to all interpolator files
jacobmerson
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a7185da
fix missing dimension in MLS construction
jacobmerson
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c5f026a
factor our centroid computations
jacobmerson
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a75d2fd
extract distance squared helper function
jacobmerson
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713630c
factor out helper function for loading Vector<3> from points array
jacobmerson
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31882f5
remove duplicated helper functions for computing centroids
jacobmerson
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6e139a8
raname interpolator -> transfer
jacobmerson
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db51568
Omega_h R3D no longer support R3D_USE_CUDA option
jacobmerson
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52e8793
ensure transfer functions are in pcms namespace
jacobmerson
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159d182
use memory/execution spaces from utility headers
jacobmerson
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55b5d73
Add FindPETSc.cmake for static+shared builds
jacobmerson
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55377a1
move non-templated code to .cpp files
jacobmerson
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d00ee51
add basic test for mesh intersection based field transfer
jacobmerson
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fb51a1b
remove duplicate centroid computation
jacobmerson
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ab861fa
factor out helper function to convert petsc vector to Omega_h array
jacobmerson
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0ae31c9
factor out for_each_intersection_subtriangle that constructs subtriangles of polytopes for the user to perform operations
jacobmerson
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3b8fbae
factor out support building code
jacobmerson
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8531044
factor out function for adding support points to search queue
jacobmerson
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a932e42
mark debug helpers as [[maybe_unused]] to silence compiler warnings
jacobmerson
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72facfa
extract helpers for copying view data to 1D arrays
jacobmerson
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7d7f3ff
use Omega_h::get_max for computing array max
jacobmerson
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ccddb3a
update header guards for consistency with rest of project
jacobmerson
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4e6f3c1
remove unused support struct creation
jacobmerson
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03dc44e
update include guards to match project template with PCMS_ prefix and matching file names
jacobmerson
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55582cb
factor out matrix /vector construction
jacobmerson
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e3bc2d9
cleanup unused headers
jacobmerson
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6d758a3
disable perfstubs timers
jacobmerson
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2d6b6b6
update CI debugging to dump the pcms_interpolator-targets.cmake
jacobmerson
committed
6bc97e7
update config file file with petsc dependency
jacobmerson
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f5ad0ac
update petsc in external build example
jacobmerson
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7f9507b
fix external build
jacobmerson
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01c0fae
change to git PETSC_COMM_WORLD from PETSC_COMM_SELF

abhiyan123
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jacobmerson
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37c7fb6
add full conservative transfer test

abhiyan123
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jacobmerson
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1ef1aa6
add intersection search test

abhiyan123
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jacobmerson
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fefb18c
add function that remove duplicates nodes and fix links

abhiyan123
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jacobmerson
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5293a43
change PETSC_COMM_SELF to PETSC_COMM_WORLD

abhiyan123
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jacobmerson
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47cbb90
delete test_conservative_field_transfer.cpp

abhiyan123
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jacobmerson
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b7f9ccf
add R3D_USE_KOKKOS

abhiyan123
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jacobmerson
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e886959
remove order

abhiyan123
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jacobmerson
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65f3411
remove source_coordinates initialization

abhiyan123
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jacobmerson
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684b78b
take mesh.coords() out of kernel

abhiyan123
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5d0ea7e
change the mesh

abhiyan123
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jacobmerson
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e0edc83
remove second r3d test

abhiyan123
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f556c55
add petsc default arguments

abhiyan123
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jacobmerson
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f527840
add petsc default file

abhiyan123
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jacobmerson
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efb6709
add petsc arguments

abhiyan123
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jacobmerson
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a5e7aca
change from .h to .hpp

abhiyan123
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jacobmerson
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a5b7d4f
remove petsc options file

abhiyan123
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jacobmerson
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d54b5cc
add vec type kokkos

abhiyan123
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8fc43c6
add mat type aijkokkos

abhiyan123
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jacobmerson
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a14d8b9
delete petsc options

abhiyan123
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jacobmerson
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cbc6419
update test

abhiyan123
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jacobmerson
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2078dde
remove petsc options header

abhiyan123
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jacobmerson
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43ec10d
fix rbf_interpolation compilation
jacobmerson
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c12de24
resolve clang-tidy errors
jacobmerson
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05611e8
resolve clang-format formatting issues
jacobmerson
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0e582f7
resolve localization library path for mesh_fields adapter
jacobmerson
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b3a0b25

Commits on Mar 15, 2026

resolve GPU test crash
jacobmerson
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e61ae4d
factor out array creation code
jacobmerson
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a48d582
Merge pull request #281 from jacobmerson/cleanup-mesh-intersection
jacobmerson
authored
0894bff

Commits on Mar 16, 2026

remove spdlog
jacobmerson
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79706f9
enable building without petsc
jacobmerson
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93cdd93
Merge pull request #294 from jacobmerson/petsc-meshfields-gating
jacobmerson
authored
739dbc4
Merge pull request #293 from jacobmerson/remove-spdlog
jacobmerson
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1d17d40
default petsc to off
cwsmith
committed
5354dd5
self hosted ci: add build+test with petsc off
cwsmith
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e989dd6
pass uniform_grid by value
jacobmerson
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4c4dd8e
frontier: need host/device fn, use kokkos array (#297)
cwsmith
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a3ccc35
move pcms build after pcms_testcases clone
cwsmith
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0535172

Commits on Mar 17, 2026

Commits on Mar 18, 2026

add Omega_h field backend for centroid and linear fields
jacobmerson
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6edd8af
store shared_ptr to layout in Field types
jacobmerson
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00a688a

Commits on Mar 21, 2026

update targets to use C++ 20
jacobmerson
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919b781
PCMS builds without MeshFields
jacobmerson
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621312e
Add build without petsc to CI
jacobmerson
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11a37d0

Commits on Mar 22, 2026

use Lagrange factory for uniform grid.
jacobmerson
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9b8fba6
extract serialization from the field definition
jacobmerson
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f16be10
initial refactor to extract redev field evaluations
jacobmerson
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38a793a
Reorganize PCMS to separate field and communication operations
jacobmerson
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d73c2e1
Implementation of new evaluation style.
jacobmerson
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4fe8957

Commits on Mar 23, 2026

Replace APIs with new "evaluators"
jacobmerson
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4ed1162
Update XGC Adapter to utilize the new interface
jacobmerson
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d310976
Add an "EmptyLayout" this is a replacement for the dummy field adapter
jacobmerson
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26c96b2
add a handle that can be used to send the field
jacobmerson
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6a504c3
XGC proxy coupling tests running with our new Coupler/Fields.
jacobmerson
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1636f16
update xgc_n0_server with new Field interfaces
jacobmerson
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fa0c71c
remove coupler and communicator from pcms.h
jacobmerson
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8d841e4
resolve compiler error with xgc_n0_coupling_server
jacobmerson
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9aa9be8
Remove old adapters/communication
jacobmerson
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afbb2c4
create Dockerfile
Sichao25
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9cfaa37

Commits on Mar 24, 2026

Rename to functionspace
jacobmerson
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2f43912
Resolve participates.
jacobmerson
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b22f8ae
XGCFunctionSpace and AddField takes Field<T>
jacobmerson
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7f379bd
Add class based copy and move interpolator to transfer
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d55b93a
AddField returns a typed field handle that send/recv and do evaluations
jacobmerson
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6aa969d
Match python API to C++ API
jacobmerson
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e9f55f0
update python APIs (currently working state)
jacobmerson
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933758e

Commits on Mar 25, 2026

move spline_interpolator to uniform_grid directory
jacobmerson
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3c7f816
remove extraneous header file
jacobmerson
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34fa591

Commits on Mar 26, 2026

reorganize files to match updated project structure
jacobmerson
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28e9fab
Add a function space for splines
jacobmerson
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5b38ad1
Update FromUniformGrid on LagrangeFunctionSpace
jacobmerson
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9f6ebd5
remove layout from FieldData
jacobmerson
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8684f82
Update FunctionSpace apis to handle multiple field types
jacobmerson
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f181493
remove raw Field construction
jacobmerson
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0b7d418

Commits on Mar 27, 2026

Commits on Mar 28, 2026

Add transfer operator base class
jacobmerson
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ea3b61b
Evaluate APIs take Field<T>
jacobmerson
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01c8c68

Commits on Mar 29, 2026

Commits on Mar 30, 2026

Commits on Mar 31, 2026

remove unused variables
Sichao25
committed
7d4de3b

Commits on Apr 1, 2026

Commits on Apr 2, 2026

debug CUDA build
Sichao25
committed
87f008e

Commits on Apr 3, 2026

implement CUDA field methods
Sichao25
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e2ed92e

Commits on Apr 7, 2026

switch FieldData to device backend
Sichao25
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6f8938a

Commits on Apr 9, 2026

switch layout to device backend
Sichao25
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5418dca
switch evaluator to device side
Sichao25
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da8d087

Commits on Apr 10, 2026

Commits on Apr 13, 2026

use device memory for uniform grid
Sichao25
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b585d73

Commits on Apr 14, 2026

resolve compiler warnings
Sichao25
committed
8a942ca

Commits on Apr 15, 2026

correct kokkos view layout
Sichao25
committed
a1bd999

Commits on Apr 16, 2026

template kokkos layout in View
Sichao25
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f66a166

Commits on Apr 17, 2026

add branch management in MAINTAINER.md
Sichao25
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9085226
debug petsc shared build in ci
Sichao25
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346825d
add mdspan helper for omega_h read
Sichao25
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386eddc

Commits on Apr 21, 2026

switch discretization to device backend
Sichao25
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2cb8a26
name layout host methods explicitly
Sichao25
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609e3bd

Commits on Apr 22, 2026

create OverlapMask class
Sichao25
committed
614797a

Commits on Apr 23, 2026

Merge pull request #313 from Sichao25/yus/ci_petsc_test
jacobmerson
authored
1f2afdd
debug pythonapi life time issue in evaluation request
Sichao25
committed
dd387a5
create view from omega_h array with helper
Sichao25
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e173156

Commits on Apr 24, 2026

use mdspan as ouput for overlap mask
Sichao25
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3dad792
Merge branch 'develop' into evaluation-library
Sichao25
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fe540ed
reformat
Sichao25
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486e037
guard meshfield dependent headers
Sichao25
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c5e8afe
debug headers enabled w meshfield wo petsc
Sichao25
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342b9ab

Commits on Apr 25, 2026

add missing target to config.cmake.in
Sichao25
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419e23c

Commits on Apr 27, 2026

debug clang-tidy issues
Sichao25
committed
9987eb7

Commits on May 1, 2026

bump version to 0.4.0
Sichao25
committed
6eaf892

Commits on May 2, 2026

Merge pull request #316 from Sichao25/evaluation-library
jacobmerson
authored
65aa318

Commits on May 8, 2026

remove kokkos only test case
Sichao25
committed
f657d3d
Merge pull request #317 from Sichao25/yus/debug_gpu_build
jacobmerson
authored
d9a6800

Commits on May 10, 2026

Merge pull request #312 from Sichao25/yus/ci
jacobmerson
authored
37647ff

Commits on Jun 17, 2026

Initial addition of MFEM adapter
jacobmerson
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95b049b
WORKING STATE: some initial testing with adding mfem layout/adapter
jacobmerson
committed
5979f51

Commits on Jun 18, 2026

Make the concept of a FunctionSpace more clear
jacobmerson
committed
91dd41f

Commits on Jun 21, 2026

hacky WORKING state fix to resolve overlap region bug.
jacobmerson
committed
014fb7f

Commits on Jul 8, 2026

overlap_edits
hgangwar
committed
41ee1bb