Switch to clang-format (#1051)

* style - switch to clang-format

* ci - use newer libxsmm

* action - update format action

* format - consistent use of {} for multi-line if/for

* make - re

Switch to clang-format (#1051)

* style - switch to clang-format

* ci - use newer libxsmm

* action - update format action

* format - consistent use of {} for multi-line if/for

* make - remove stray newline

* make - simpler 'make format' target

* ci - use newer libxsmm

* doc - minor release note claification

* minor - minor fix

* minor - minor fix

* minor - minor fix

* minor - minor fix

* make format

* format - less aggressive alignment rules

* tidy - check for argument name mismatches

* fix newline

* format - mirror Ratel update to .clang-format

* fix merge error

* fix merge conflict

* fix merge error

* drop style in .phony list

* Update .clang-format

Co-authored-by: Jed Brown <jed@jedbrown.org>

* apply updated format

Co-authored-by: Jed Brown <jed@jedbrown.org>

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Merge pull request #1070 from CEED/rezgar/tap-output

removed tap.sh and updated junit.py

some clean-up

Merge pull request #1002 from CEED/jeremy/format-ceed-types

Add CeedInt_FMT

fmt - add CeedInt_FMT

Merge pull request #858 from CEED/jeremy/dump-copy-stuff

Strip redundant/outdated license info duplication

minor - update copyright headers

vec/qf - initial valid/borrowed/owned split for data (#853)

* vec/qf - initial valid/borrowed/owned split for data

* vec/qf - tidy logic for checking active/stale data

* minor - add missing NU

vec/qf - initial valid/borrowed/owned split for data (#853)

* vec/qf - initial valid/borrowed/owned split for data

* vec/qf - tidy logic for checking active/stale data

* minor - add missing NULL

* doc - explain VectorTakeArray update

* minor - update error messages

* test - update error message in junit/tap

* gpu - fix stray CeedScalar vs void for QFunctionContext

* vec/qf - clarify/simplify access logic

* vec - calloc host arrays when no value set to make empty

* style - minor

* style - minor

* minor - fix error messages

* vec/qf - move data validity checking to backend interface

* gpu - add missing sync error checking for qfcontext

* gpu - homogonize use of impl for backend data to reduce confusion

* vec - clarify access conditions

* python - update test for stricter vector access

* vec - minor fixes

* minor - fix ipython change

* vec - add missing declarations in ceed/backend.h

* ctx - mirror vector borrowed data check in ctx interface

* vec - add CeedVectorGetArrayWrite

* vec - consistent use of CeedVectorGetArray vs CeedVectorGetArrayWrite

* python - small vec fixes

* doc - describe vector data semantics

* magma - update restriction

* gpu - fix restr bug I added, need to sum into target

* magma - fix restriction bug

* cpu - fix restriction bug here too

* op - fix evec allocations

* julia - fix ElemRestriction for new vector access rules

* op - double check GetArray vs Read vs Write usage

* doc - small fix

* restr - clean up read/write logic for restr

* python - add vec.array_write

* magma - typo fix

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Allow CeedScalar to be single precision (#788)

One can modify `ceed.h` to include `ceed-f32.h` and then use single precision. This is tested for C in CI and has been tested by developers with Rust,

Allow CeedScalar to be single precision (#788)

One can modify `ceed.h` to include `ceed-f32.h` and then use single precision. This is tested for C in CI and has been tested by developers with Rust, Julia, and Python. This interface is evolving and should be considered experimental at this time (thus lack of automated build support).

* Introduce CeedScalarType enum

* WIP changes to allow different definitions of CeedScalar

* Introduce new header files for float and double

* Only use avx tensor contract and MAGMA non-tensor basis if CeedScalar is double

* WIP changes to allow CeedScalar to be float

* WIP start trying to adjust test tolerances for float or double

* fix typos in comments

* install ceed-f32/64 headers

* Fix missing casts for hipMAGMA element restrictions

* make CeedQFunctionContextGetContextSize available for Python bindings

* Changes to Python bindings to allow CeedScalar to be float

* WIP adjust Python tests for float or double

* make style

* remove QFunctionContextGetContextSize from backend header

* Use quotes instead of <> in include statement

* Remove unncessary includes

* Update tolerances for tests

* [Julia] allow CeedScalar to be Float32

* [Julia] Use Preferences instead of custom build configuration

# Conflicts:
# julia/LibCEED.jl/src/C.jl

* [Makefile] Change definition of CC_VENDOR so it works with cross-compilation

* [Julia] Use Preferences in CI

# Conflicts:
# .github/workflows/julia-test-with-style.yml

* [Julia] Update docs about preferences

* [Julia] Add test/Project.toml workaround for Preferences

* Add CeedGetScalarType to get the type of CeedScalar at runtime

* [Julia] Move functions from Ceed.jl to LibCEED.jl

* [Julia] Add support for getting library path and scalar type at runtime

* [Julia] Minor change to checking if CUDA is loaded

* [Julia] Check correct CeedScalar types in basis functions

* [Julia] Fix tests comparing with output file

* [Julia] Change devtests to use CeedScalar instead of Float64

* Update test 402 so context will be same size in double or float

* Update tolerances for ceed examples

* [Julia] CUDA fixes

* remove unused variable in t208

* SchurDecomposition: do not compute tau on final iteration

* Update tolerances for some basis tests (for single precision)

* Make style

* Python style fixes for basis test

* Add single precision output for t300 and t320 and adjust checks; skip t541 in single

* Add LCOV exclusions after moving to new line

* fix spacing

* Python: make CEED_EPSILON available as libceed.EPSILON

* Python: optional parameter to specify different output file for test comparison

* Python: update tests' use of EPSILON and change test_300 output file for single precision

* Python: add convenience function for getting dtype corresponding to CeedScalar

* rust - add single precision support

* [Julia] Fall back on Float64 if CeedGetScalarType is not available

* [Julia] style

* Adjust tolerance for t301

* xsmm - add single precision support

* avx - add single precision support

* Add initial single precision support for MAGMA non-tensor basis

* Skip t300 and t320 in single precision; revert Python t300 changes

* Revert output changes for t300 and t320 in junit

* [Julia] Changes to autogenerated bindings for mixed precision

* [Julia] style

* [Julia] Check scalar type when changing libceed library path

The check is also performed when the package is loaded. This prevents having to
restart the Julia session twice

* [Julia] Require JLLWrappers version 1.3

This is needed to use Preferences to change the library path

* Add documentation page for precision development

Co-authored-by: Will Pazner <will.e.p@gmail.com>

* Cleanup from merge: remove old README

* Return CEED_ALIGN to backend.h

* Make Fortran compiler (FC) optional; empty skips Fortran tests

Use in Python and Rust builds, which may not have a Fortran compiler
installed and thus would produce confusing output.

* Add single precision CI test for Noether

Co-authored-by: Jeremy L Thompson <jeremy@jeremylt.org>

Co-authored-by: Will Pazner <will.e.p@gmail.com>
Co-authored-by: Jeremy L Thompson <jeremy@jeremylt.org>
Co-authored-by: Jed Brown <jed@jedbrown.org>

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Merge pull request #793 from CEED/jeremy/vla-ex1-ex2

ex - remove recast of fixed length array as vla

ex - fix vla/fixed length mismatches

Merge pull request #735 from CEED/jeremy/style-guide

Style Unification

style - updating C variable style

Merge pull request #716 from CEED/jed/install-backend.h

Jed/install backend.h

Install install backend headers under include/ceed/

This makes it possible to distribute source plugins that provide
additional backends. It's also used in MFEM, perhaps temporarily.

Deprecate ceed

Install install backend headers under include/ceed/

This makes it possible to distribute source plugins that provide
additional backends. It's also used in MFEM, perhaps temporarily.

Deprecate ceed-backend.h, which was not previously installed, but some
users accessed it from an in-place build.

Also install CUDA and HIP headers that allow users to provide CUfunction
and hipFunction_t.

Co-authored-by: Jeremy L. Thompson <jeremy.thompson@colorado.edu>
Requested-by: Andrew T. Barker <barker29@llnl.gov>

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Fluids - More Regression Tests (#687)

* examples/fluids: Regression tests: Changed the reference files' names and
the flags to associate with the corresponding example (so far
density_current only

Fluids - More Regression Tests (#687)

* examples/fluids: Regression tests: Changed the reference files' names and
the flags to associate with the corresponding example (so far
density_current only)

Changed the files' names

Changed the flags

* examples/fluids: added new regression tests for advection(2d)

* examples/fluids: regression tests: removed the enums and passed defined command-line options for filepath and test tolerance.
Removed solver controls and assigned testtol=1E-11 for explicit cases.

style

examples/fluids: regression tests: fixed the pathfile issue (it needs to be relative)

examples/fluids: Specified a name for each test

examples/fluids: TESTARGS - trying absolute path for the test files

* tests/tap.sh: Print out test names for fluids examples

inspired-by: @jeremylt

tests/tap.sh: drop quotation marks from the printed test names

* tests: specify test name for ceed and nek examples and print the names when there are multiple test arguments

* examples/fluids: remove test_ from test names

* style

* tests/junit.py: Add name for tests with multiple test cases

* examples/ceed/ex1-volume.c: make the naming of the tests consistent

* tests/junit.py: a more compact if statement

helped-by: @jeremylt

* examples/fluids: drop the broken supg test of density_current for now

The stabilization enum is not passed to density_current QFunction hence
the test doesn't work. We need to create a new test when the code is
debugged.

show more ...

Error Handling Improvement [fix #696] (#691)

* Operator - add operator/qfunction field compatibility checks

* QFunction - do not allow adding fields to QFunction in use with an operator

* Exam

Error Handling Improvement [fix #696] (#691)

* Operator - add operator/qfunction field compatibility checks

* QFunction - do not allow adding fields to QFunction in use with an operator

* Examples - add some extra exclusion markers in ceed example

* error - add error enum

* error - update error enum names and numbering

* error - use CEED_ERROR_BACKEND in all backend errors

* error - begin classifying interface errors

* error - update backends to use CEED_ERROR_SUCCESS and CeedChkBackend

* error - use new errors in gallery

* error - add some unsaved modifications

* error - improve documentation

* error - define CEED_ERROR_SUCCESS in GPU JiT; we really should have a common header to pipe defines to the JiT code

* error - more error code editing

* error - fix error string

* operator - fix setting field qpts

* basis - add input/output dimension error checking

* python - move basis utility methods to ceed object, no basis required or used

* python - force exit with negative error code

* make style-py

* rust - initial work to add error handling logic

* rust - add ceed.resource method

* rust - add results for methods that may fail

* rust - also format doctests

* minor - drop unused CeedChk()

* error - rename terminal/nonterminal to major/minor

* rust - set ErrorStore as default errorhandler

* python - revert error handing change for python

* python - use success error code from C bindings

* error - only upgrade error code in backend if positive

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headers - clearify includes to not rely on transitive includes (#701)

* headers - clearify includes to not rely on transitive includes

* style - add header recommendations from 'include-what-you-

headers - clearify includes to not rely on transitive includes (#701)

* headers - clearify includes to not rely on transitive includes

* style - add header recommendations from 'include-what-you-use'

* style - apply 'include-what-you-use' changes to CUDA backends

* style - 'include-what-you-use' for hip backends

* style - drop ceed.h includes in gallery qf source

* docs - add dev notes for header files

* style - header style and alphabetize

show more ...

Rust - add examples (#683)

* Rust - initial version of ex1

Example - move closure

Co-authored-by: Jed Brown <jed@jedbrown.org>

typo fix

Co-authored-by: Jed Brown <jed@jedbrown.org>

mi

Rust - add examples (#683)

* Rust - initial version of ex1

Example - move closure

Co-authored-by: Jed Brown <jed@jedbrown.org>

typo fix

Co-authored-by: Jed Brown <jed@jedbrown.org>

minor tidying

order -> degree

drop operator applicaiton messages

* rust: make top-level workspace and use libceed from path

This allows a single "cargo test" from the top level.

* rust: add version-sync (to help us remember when we publish a crate)

* examples - consistency update

* Rust - add Cargo.lock to top level gitignore

* rust - refactor example to add tests

* Rust - test and style from workspace

* Rust - update year in header

* Rust - add error values to Error, switch to String

* Rust - add input validation in check

* Rust - format volume output in example

* Rust - update example help output

* Rust - example tests rename to simplify

* Rust - split example 1 into 3 parts

* rust: std::sync::Once for CeedRegisterAll()

* Promote CeedRegisterAll() and CeedQFunctionRegisterAll() to User
* Guard calls to CeedInit() to avoid races in parallel testing

* Examples - update rust example to new builder syntax

* Examples - add rust ex2

* Rust - add CEED_STRIDES_BACKEND

* Examples - drop unused restriction in ceed ex2

* Rust - minor documentation update

* Rust - adopt convention of 'dimension-like' values all using usize; reduces casting

* Actions - add Rust code coverage

* Rust - fix usize conversion

* Rust - update casting between i32(C interface) and usize(Rust interface)

* Actions - include Rust doctests

* Actions - Rust doctest coverange only avaliable in nightly

* Rust - drop explict typing of values passed to C get* functions

* Rust - modify version numbers tests, cargo-tarpaulin and cargo have different calling paths in tests

* cargo fmt

* Examples - add separate Rust example quiet mode

* Actions - rustfmt not always avaliable on nightly

* Rust - simplify version tests

* Actions - add a few notes

* CodeCov - try adding gallery to 'fixes'

* CodeCov - drop some codecov noise in examples

* Examples - test all combinations in ex1/ex2

* Rust - test 3d examples without quiet flag

* Actions - use gcc-10 for compatibility in gcov reports

* Examples - test gallery in 1/2/3d in Rust ex

* Gitlab - also report gcov version

* JUnit - adjust indentation

* Gitlab - make it easier to find complier info in logs

* Tests - fix minor styling strangeness in t002

* Actions - only upload rust coverage

* Actions - exclude non-rust files from rust coverage

* Cov - exclude weak symbols code, not useful cov info

* Examples - clean up options creation for tests in Rust examples

* Examples - simplify tolerance for testing Rust examples

* cargo fmt

* Examples - another match

* Examples - common Rust example code in shared local crate

Co-authored-by: Jed Brown <jed@jedbrown.org>

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resolve merge conflicts for v0.7 release

Merge pull request #634 from CEED/jeremy/occa-order

OCCA - update backend resource names to match other GPU backends

OCCA - update backend resource names to match conventions

QFunction Context Data Object (#596)

* Ctx - create context object for QFunction context data

* Context - rename UserContext -> QFunctionContext

* Ctx - add lcov markers

* Ctx - fix leak in

QFunction Context Data Object (#596)

* Ctx - create context object for QFunction context data

* Context - rename UserContext -> QFunctionContext

* Ctx - add lcov markers

* Ctx - fix leak in identity QFunctions

* Hip/Cuda - rename sync functions for vector/context

* Tests - lcov marker update

* QFunction - drop unused function

* Python - fix copy-paste errors

* Ctx - update notes for Fortran usage

* Fortran - drop unneeded cast

Co-authored-by: Jed Brown <jed@jedbrown.org>

* Interface - use void* for SetData interfaces

* Make - use call quiet for NVCC

* Interface - use void* for GetData interfaces

* Make - add quiet call option for examples

* Makefile - create common makefile to reduce duplication/complexity in example makefiles

Co-authored-by: Jed Brown <jed@jedbrown.org>

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Composite Operator support for AssembleLinearDiag/PBDiag (#552)

* ref - add composite operator support for building diagonal/pb diagonal

* ref - add error for non-composite mult-field operator di

Composite Operator support for AssembleLinearDiag/PBDiag (#552)

* ref - add composite operator support for building diagonal/pb diagonal

* ref - add error for non-composite mult-field operator diagonal/pb diagonal assembly

* tap - add t538 exclusion because OCCA does not support galleries

* tests - adjust test cases for ceed examples for test coverage

* Op - fix documentation

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Merge branch 'master' into valeria/NSfixes