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.

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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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Add version macros and CeedGetVersion() [fix #697]

Requested-by: Freddie Witherden <freddie@witherden.org>

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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tests: enable junit testing of petsc-multigrid with OCCA

OCCA used to skip this test, but it was enabled in tap.sh as part of
issue #305 and I'm enabling here for junit (tested on noether and azure)

tests: enable junit testing of petsc-multigrid with OCCA

OCCA used to skip this test, but it was enabled in tap.sh as part of
issue #305 and I'm enabling here for junit (tested on noether and azure).

Reported-by: Jeremy L. Thompson <jeremy.thompson@colorado.edu>

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tests/junit.py: fix start time variable misuse

junit - fix args parsing for Nek

tests - exclude Nek+OCCA tests

Update t504 and t523 output with correct field names

CI - add hipMAGMA to CI (#641)

* CI - add hipMAGMA to CI

* Magma - add clearer error message for unsupported basis ranges

* make style

Tests - delete stray okl file (#640)

Jeremy/py debugging (#637)

* Ceed - only store error with parent

* Python - assert state is not in write status

* Vector - add reader check to destructor

* make style

* remove debugging

Jeremy/py debugging (#637)

* Ceed - only store error with parent

* Python - assert state is not in write status

* Vector - add reader check to destructor

* make style

* remove debugging assertion

* Python - minor documentation correctness

* Python - hold reference to data array for USE_POINTER to prevent gc

* Python - hold reference to data array for USE_POINTER to prevent gc for restriction and context

* Python - use None object for initial ref back to ceed objects

* Python - add USE_POINTER to imports as needed

* Junit - update valid error message for writable access lock

* Python - change exception raised test to help gc

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OCCA Backend Update (#305)

* [Docs] Update docs for new OCCA backend

* [Fortran] CeedVectorRestoreArray fix

* [Test] Updates t002-ceed test to support query params

* [Make] Adds tidy for cp

OCCA Backend Update (#305)

* [Docs] Update docs for new OCCA backend

* [Fortran] CeedVectorRestoreArray fix

* [Test] Updates t002-ceed test to support query params

* [Make] Adds tidy for cpp files

* [OCCA] Updates OCCA backend

* PR feedback: Update StrideType naming

* PR feedback: Fixed USER_STRIDES vs BACKEND_STRIDES usage

* [OCCA] Add comments to code generation

* [CI] Removes commit from OCCA build

* PR Feedback: Update README

* PR Feedback: Removed compiler warnings

* Fix restriction function changes

* occa: track AssembleLinear -> LinearAssemble

* [OCCA][Vector] Adds takeArray method

* [OCCA][Restriction] Fixes restriction strides

* [OCCA][Operator] Adds point block diagonal registration

* [OCCA][Operator] Fixes

* OCCA - update debug color for visability

* Travis - fix extra fi

* OCCA - adjust kernel, multi component derivatives are expected as [dim][comp][q]

* OCCA - adjust basis kernel args in operator kernel to agree with expected [dim][comp][q] ordeing

* OCCA - fix uninitalized memory in grad transpose 3d kernel

* OCCA - fix Elayout description

* OCCA - fix bad dimensions in basis kernel

* OCCA - fix TakeArray to sync before returning array pointer

* MFEM - print error when test fails

* OCCA - fix 2d grad kernels

* OCCA - flag digonal of composite operators unsupported

* OCCA - fix restoreArray logic

* OCCA - minor cleanup with GPU

* Travis - add 'make info' where able for debugging

* OCCA - explictily test OpenCL mode

* OCCA - drop restrict for ElemRestriction kernels, OpenCL doesn't like it

* OCCA - explicitly test cuda and hip versions of OCCA backend

* OCCA - explicitly test OpenMP mode in OCCA

* Tests - modify check for VLA support for OCCA to catch all OCCA modes

* WIP - test possible OCCA fix for PowerPC

* OCCA - separate CPU modes for testing as well

* Readme - update list of OCCA backend modes

* Makefile - fix unterminated addprefix

* OCCA - enable direct access to OCCA Serial mode

* OCCA - add comments to registration

* Makefile - remove extra )

* OCCA - remove pass by reference C++ syntax for OpenCL compatability

* OCCA - drop use of @restrict for OpenCL

* OCCA - remove OpenCL mode, not fully supported in OCCA (see OCCA issue #166)

* OCCA - fixing rebase issues

* OCCA - Fix implementation of QFunctionContext

* OCCA - move GetContextSize so ierr check actually works

* Travis - use libOCCA instead of jeremylt/occa

* Junit - update OCCA test skip list

* Make - simplify OCCA check for enabled modes

Co-authored-by: Jed Brown <jed@jedbrown.org>
Co-authored-by: Jeremy L. Thompson <jeremy.thompson@colorado.edu>

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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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Fix CodeCov Reports (#597)

* Tests - use qfunction headers for Fortran tests to improve bypass gcov issue

* Gitlab - use latest gcc on Noether

* Cuda/Hip - add case in reciprocal for completen

Fix CodeCov Reports (#597)

* Tests - use qfunction headers for Fortran tests to improve bypass gcov issue

* Gitlab - use latest gcc on Noether

* Cuda/Hip - add case in reciprocal for completeness

* Cuda - remove duplicate case

* Makefile - exclude fortran test headers from make style

* Travis - update to Focal

* Cov - adjust style to be consistent and avoid false misses

* Travis - update comments and style

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Op - add interface for multigrid level creation (#579)

* Op - add interface for multigrid level creation

* Op - add implementation for OperatorMultigridLevelCreate

* make style

* make tidy

Op - add interface for multigrid level creation (#579)

* Op - add interface for multigrid level creation

* Op - add implementation for OperatorMultigridLevelCreate

* make style

* make tidy

* Op - add test t550, fix errors

* Tests - add Fortran version of t550

* Tests - add t511 for testing tensor basis multigrid level setup

* make style and tidy

* Tests - fix t55* memory leaks

* Tests - add t552 for non-tensor basis multigrid levels

* CUDA - use CeedIntMax in shared CUDA backend

* Tests - add OCCA test exception for t55*

* Op - add lvector global prolongation multiplicity, simplifies user interface

* Solids - convert example to new interface

* make style

* Tests - convert t550 to multicomponent

* Solids - drop unused ceed_fine

* Python - add new multigrid level interface

* Python - fix operator wrap, use ceed python obj rather than ceed pointer

* Gallery - update comment slightly

* Tests - remove accidental duplicate test

* Multigrid - add size=2 case as well

* Operator - drop unneeded inline

* QFunction - simplify context ownership to match vector

* make style

* Python - update multigrid function signature

* Operator - refactor prolong/restrict qfunctions as scaling qfunctions

* Vector - add testing for reciprocal and add to Fortran/Python interfaces

* CUDA - add VectorReciprocal on device

* Gallery - drop specalized versions for 'Scale', wil fix performance hit later

* Hip - add vector reciprocal

* Operator - add more flexible prologation basis creation interface

* Vec - make sure data is set for VectorReciprocal

* Tests - drop ncomp for t550/1 so kernel is not too large for Magma backend

* Tests - add missing lcov markers

* make style

* Travis - allow ARM job to fail

* Travis - fix intel install

* Travis - try different install dir name for inteloneapi

* Travis - add ifort, ipp packages

* Tests - add missing lcov marker

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make junit: return failure when tests fail

Tests - renumber python test t005

Ceed - add message storing error handler (#587)

* Ceed - add message storing error handler

* Python - use CeedErrorStore and CeedGetErrorMessage to pass messages from C to Python

* make style

Ceed - add message storing error handler (#587)

* Ceed - add message storing error handler

* Python - use CeedErrorStore and CeedGetErrorMessage to pass messages from C to Python

* make style

* make tidy

* Python - add comment about cffi and vargs

* Ceed - add 'store' as possible env option for CEED_ERROR_HANDLER

* Python - and error handling for creation of ceed context

* Ceed - statically allocate error message array

* Ceed - simplify error message copying and guard against buffer overflow

* Tests - fix small t005 python bug

* Tests - fix small leak in t005

* Ceed - small fix in setting error handler from env

* Tests - add missing lcov markers

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Tests - add comment explaining double destroy in t000

Fortran - guard double calls to ceed*destroy in Fortran interface

Tests - update test descriptions

Python - fix bad docstring copy-paste

Python - add operator diagonal assembly to the python interface

Tests - add memory management note for t109