SF: rename SFCreateEmbeddedSF to SFCreateEmbeddedRootSF

SF: add an MPI_Op argument to SFBcast

Replace MPIU_REPLACE with MPI_REPLACE

Since we believe all MPI implementations support MPI_REPLACE

Merge branch 'barry/2021-02-02/petscsf-communication-specific' into 'main'

PetscSFView() never called viewer for the specific type (bug), hence many...

See merge request petsc/petsc!3606

PetscSFView() never called viewer for the specific type (bug), hence many output files were incorrect.

Added PetscSFView() support for basic MPI implementation and binary viewer saves communication

PetscSFView() never called viewer for the specific type (bug), hence many output files were incorrect.

Added PetscSFView() support for basic MPI implementation and binary viewer saves communication data to binary file.
This new viewer shows exactly how much data is sent from each rank to the other ranks
allowing fiting various performanace models to the data.

This uses MatView() to save the PetscSF data, but since Mat is above PetscSF in the software stack
the code will not work with multiple PETSc libraries. How should this be managed if one wishes to preserve the
traditionl PETSc algorithm stack?

Commit-type: bug-fix, feature
Funded-by: brain project
Project: brain project
spend 1h

Update sfbasic.c save the transpose of the matrix since that indicates the sends for each rank which is easier to understand

Enable PetscSFView_Basic_PatternAndSizes only with single library

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Merge branch 'barry/2020-10-08/fix-mpi-error-codes' into 'master'

Convert MPI error type to PETSc error with string message for all MPI calls

See merge request petsc/petsc!3326

Convert MPI error type to PETSc error with string message for all MPI calls

Now PETSc examples will ONLY return PETSc error codes and never MPI error codes directly so we can understand and post-pro

Convert MPI error type to PETSc error with string message for all MPI calls

Now PETSc examples will ONLY return PETSc error codes and never MPI error codes directly so we can understand and post-process their
errors better.

The test harness will now automatically retry tests that fail with MPI, this may help with Intel MPI that produces
seemingly random failures.

Commit-type: error-checking
/spend 30m

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Merge branch 'scott/hip-sys-vec' into 'master'

Implementation of HIP for sys and vec packages

See merge request petsc/petsc!3056

Implementation of HIP for sys and vec packages

This implements the vec functionality including tests.
In the sys level, we handle the initialization issues, but it is tested
at the vec level.

Works

Implementation of HIP for sys and vec packages

This implements the vec functionality including tests.
In the sys level, we handle the initialization issues, but it is tested
at the vec level.

Works with ROCm 3.9.

show more ...

Merge branch 'jczhang/sf-kokkos' into 'master'

Feature: Add a Kokkos backend for PetscSF

See merge request petsc/petsc!3076

Implement sfcuda and sfkokkos as runtime options

Put more cuda related stuff to sfcuda.cu

Merge branch 'barry/2020-08-16/fix-source-formatting' into 'master'

Turn on checkbadSource test to generate an error when found; fix all source code that causes errors

See merge request petsc/petsc

Merge branch 'barry/2020-08-16/fix-source-formatting' into 'master'

Turn on checkbadSource test to generate an error when found; fix all source code that causes errors

See merge request petsc/petsc!3064

show more ...

Turn on checkbadSource test to generate an error when found; fix all source code that causes errors

Commit-type: portability-fix, testing-fix, style-fix, feature, maintainability
/spend 1.5h

Merge remote-tracking branch 'origin/jczhang/feature-sf-pack-direct'

Directly pass root/leafdata to MPI in SF when possible

See merge request petsc/petsc!2506

No need to get mtypes in PetscSFXxxEnd(). The cuda call is not cheap.

Refactor SF packing

1) Separate out local communication from remote communication
2) Directly pass root/leafdata to MPI when suitable

Merge branch 'stefanozampini/sfwin-reuse-win' into 'master'

Improve PETSCSFWINDOW

See merge request petsc/petsc!2336

Merge remote-tracking branch 'origin/maint'

Merge branch 'jczhang/fix-sf-compile-warning' into 'maint'

Fix SF "may be used uninitialized' compiler warnings

See merge request petsc/petsc!2436

Fix 'may be used uninitialized' compiler warnings

PETSCSFBASIC: only reset BASIC specific data when destroying the object

Merge branch 'stefanozampini/petscpartitioner-target-weights' into 'master'

Fix PetscPartitioner and add support for target partition weights

See merge request petsc/petsc!2333

PetscSortedIntRemoveDups: use PetscCheckSorted

Merge branch 'jczhang/feature-sf-do-pack-on-gpu' into 'master'

Add support to do pack/unpack on GPU and do MPI on CPU

See merge request petsc/petsc!2205