convert error to warning when unknown parameters are found

See merge request !64

* convert error to warning when unknown parameters are found

`@with_signature`: Add debug options

See merge request !62

* add tests

* allow to selectively insert for loop macros

* add inbounds,simd,debug to @with_signature options

Add `HeatEq`

See merge request !61

* add ref test

* add HeatEq project

add helpers to run test parfiles with main()

See merge request !60

* add helpers to run test parfiles with main()

Migrate all of EulerEq project to use new boradcasting methods

See merge request !59

* remove t=0.6 output step from euler_sod_shock_tube_entropyav reftest

* rename euler_sod_shock_tube test to euler_sod_shock_tube_bernstein
also set `every_dt = 0` for ref test parfile

* migrate rest of Euler 1d + AV to use new broadcasting

* fixup new_broadcast_bdry and test it with 1d + AV method

* ref test euler_sod_shock_tube_entropyav: crank up CFL

* enable output checking for euler_sod_shock_tube test

* add ref test euler_sod_shock_tube_entropyav

* migrate 1d + AV method

* fixup migration of 1d eqs

* strip new_ from new 2d equations

* implement interpolate_face_data! for 1d mesh; migrate llf for 1d mesh

* migrate 1d equations to use new broadcasting, pt 1

* clean up more equations

* convert entropy variables computation and maxspeed
to use new broadcast interface

needed to update 2d ref tests, because somehow changing
speed computation showed massive differences in ref output

* use new broadcasts for other 2d rhs

* ref test: use aligned_ts for euler2d isentropic

* use new broadcast for 2d + AV method

* add klevin helmholtz as ref test

use aligned_ts for output times

New broadcasting methods based on face-buffer abstractions

See merge request !58

* wrap new_broadcast_* methods into TimerOutput

* Add LV to optimize `dg_rhs` loops v2 (!57)

* prefer @turbo over mul! in dg_rhs.jl

* test mul! instead of @turbo for mass matrix applicationg

* don't use mapreduce for 2 arg absmax

* allow using Cart[1d,2d,3d].[Directions,Axis] as tuple indices

* wrap broadcast_[volume,faces]_2! into global timer

* split up turbo loops due to limitation of single inner loops in LV; see discussion LV.jl/issues/506

* accelerate dg rhs evaluation using LoopVectorization.jl

* put new_broadcast_[volume,faces] to use in EulerEq2d

* introduce bulkfaceindices, bulkbdryindices to work with faceindices, bdryindices; implement face interpolation method

* make has_signature also dispatch on Type

* add print_idxs option to @with_signature

* add faceindices, bdryindices to Mesh; implement broadcasting for volume, faces, bdry

Add LV to optimize `dg_rhs` loops v2

See merge request !57

* prefer @turbo over mul! in dg_rhs.jl

* test mul! instead of @turbo for mass matrix applicationg

* don't use mapreduce for 2 arg absmax

* allow using Cart[1d,2d,3d].[Directions,Axis] as tuple indices

* wrap broadcast_[volume,faces]_2! into global timer

* split up turbo loops due to limitation of single inner loops in LV; see discussion LV.jl/issues/506

* accelerate dg rhs evaluation using LoopVectorization.jl

Refactor `@with_signature` to allow iterations over vectors and custom ranges

See merge request !56

* extend docs

* move new with_signature tests into test suite

* refactor keyword ex parsing; add more safeguards for options parsing; add more tests

* implemented tests for refactored version

* fixup to redesign

* rework with_signature to insert a loop into function body

Make EulerEq2d run with Kelvin Helmholtz test

See merge request !54

* add TODO on bdryconds not being implemented for AV 2d

* fixup dg_rhs in special case when one flux component is nonzero

* cleanup initialdata

* make EulerEq2d run with Kelvin Helmholtz test (not stable yet)
also substitute all max with absmax in equations.jl

* export broadcast_bdry_2!

* clean up EulerEq/equation.jl; remove local LLF definitions

* move out numerical utils in separate file

remove old precompile tools; bump julia version to 1.9

See merge request !53

* separate out movie.jl script

* bump julia version to 1.9

* remove precompile tools

improvements to ScalarEq, EulerEq, SRHD

See merge request !52

* make EulerEq sod shock tube work with entropy AV

* add Mesh.periodic parameters and update Mesh constructors and reftests

* fixup av parameters and edge case in mda viscosity

* hack in bdryconds for EulerEq

* get sod shock tube with EV going

* switch mesh1d methods from EulerEq over to use new broadcast; update integrationtests to include ID output

* fixup EulerEq 1d with reconstructors

* filter tests to run by regex

fixup regex dispatch for runtests

* filter tests to run by regex

* switch ScalarEq 1d versions over to use new
broadcasting methods; updated all ScalarEq tests

* fixup cons2prim call in RHS; some formatting

* fix find_cell_index edge case

* wip

* use vtk as default 2d output format

* add smoothed_bump initial data

* wip: hack in shocktube problem with non-periodic domain

* can't smooth boundary cells in non-periodic problems

* add cell index helper for mesh

* add bdrycell array to tree

* add absolute maximum with index helper

* add logging parameter section

* hack in entropy av method

Enable entropy av for 2d Euler equation

See merge request !50

* add kelvin helmholtz test which is not yet working

* fixup EulerEq reftests

* enable initialdata setup for hrsc modules

* add initial data for Kelvin Helmholtz test

* quick shot on EulerEquation with entropy viscosity

* add overloads of dg rhs weak form for more efficiency in LDG

convert some TCI and HRSC for 2d runs

See merge request !49

* disable advection2d_bump_entropyav test

* only log error type when ref test fails to run

* update ref tests

* initialize hrsc and tci variables

* add todos

* fix entropy av to account for jacobian

* tciav: remove unnecessary dispatch

* remove unused code

* fix typos in EV computation

* integration tests: copy and upload if two output files differ

* also update registry in ci

CI: update registry before activating env?

CI: debug registry status

CI: readd general registry

CI: rm registry update

CI: somehow need registry update now ...

* commit Manifest and let CI run on 1.9

remove Manifest again

readd manifest

* add missing output.h5 for ref test

* remove xdmf output from refs

* fix duplicated index in av smoother

* rework AV smoother for mesh1d

* fix cell offsets and iterator for mesh1d

remove debug statement

* use 1d output for ref tests of 2d runs

update ref test vars for 2d runs

* test entropy AV with burgers2d

* fix HRSC smoother

* no need to add up results for cell integration

* remove branch when integrating

* enforce type stability for evolve method

* fix entropy AV computation

* fix type instability in glgl

* also import dependencies ...

* add integration test for advection2d + tci av + threshold tci

* change default format2d to xdmf

* add integration for advection2d + entropy av

* fix vtk

* update dependencies

* add unittests for 2d output formats

* cleanup vtk

* enable vtk, xdmf+bin, xdmf+h5 2d output methods

* add vtk output method for 2d

* refactor xdmf output to allow hdf5 and bin format for heavy data

* quick&dirty enabling of entropy viscosity for advection2d

* add integrate_cell for meshes

* inline integrate

* export cellindices

* extend entropy viscosity to 2d

* adjust dispatch

* remove irrelevant size check

* enable av smoothing in 2d

* implement C0 smoother in 2d

* make SmoothedArtificialViscosity type stable

* cure type stability in Environment

* quick shot on ScalarEq with AV

* extend TCIViscosity to 2d

* merge HRSC/interface.jl into HRSC/HRSC.jl

* extend TCI/threshold to Mesh2d

* remove TCI/interface.jl

Streamline DG rhs computation interface

See merge request !48

* remove dg strong form for now

* streamline dg weak form interface

* add ref tests for EulerEq2d and SRHD2d

add ref tests for EulerEq2d and SRHD2d

See merge request !47

* add ref tests for EulerEq2d and SRHD2d

Implement 2D version of SRHD

See merge request !46

* fix unit tests

* disambiguate timestep overloads

* premature optimization

* fix type instabilities

* implement smooth_diagonal initial data

* quick shot implementation

Implement 2d Euler equations & rework `@with_signature`

See merge request !45

* fix integration tests

* fix unit tests

* make Tree type stable

* rework @with_signature

- allow for multiple @accepts
- add a Prefix(...) option to disambig vars from multiple @accepts
- test with EulerEq2, replacing previous draft

* fix typo in error message

* quick shot on euler 2d

Rework mesh

See merge request !43

* remove RefVector residuals

* make ObjectCache typestable

* fix riemann solver tests

* add burgers2d periodic test

* make 2d equations only return maximum velocity

* adjust broadcasting of boundaryconditions to use new numflux signature

* migrate EulerEq and SRHD

* simplify numerical flux computation, part 3

- migrate 1d mesh versions
- boundary conditions were disabled for now
- added projection method to unitfy numerical flux computations in
  different dims

* fix 2d riemann solver constructors and flux computations

* simplify numerical flux computation, pt 2

- only return one value instead of a tuple from a numerical flux
  function; whatever we did before was unnecessary and probably wrong
- atm this breaks the 1d tests, but will fix this next

* simplify numerical flux computation, pt 1

* cleanup parameter docs and some other comments

* implemente Burgers2d

* fix more unit tests

* fix integration tests

* fix integration tests

* fix unit tests

* also add parfile for 2d advection test

* IntegrationTests: track ref tomls

* hack in support for normal vectors in bdry flux computations

* make cache member of mesh in preparation of eliminating cache from all interfaces

* add integration test for 2d advection

* prepare output reader to deal with 2d outputs and update ref tests

* hack in Mesh2d DG evolution -- needs a bit of refactoring

* fix mesh in save callback

* ScalarEq: make advection_v parameter dimension agnostic

* change mesh parameter xrange to range and update tests

* update Mesh constructors

* add 2d output options

* ScalarEq: fix time step computation to use smallest grid distance; update ref tests

* fix timestep computation scalareq

* make 2d DG work

* scalareq: dispatch timestep also on mesh

* make ScalarEq 1d work again

* fix offsets, iterate and invdetJ in mesh

* xdmf: add cell idx to scalars

* also report error message when running a ref test failed

* catch h5 load errors in IntegrationTests

* add xdmf output utils

* add eachcell method to iterate over the cell data of a bulk array

* add cell data offset to mesh

* extend cache to 2d mesh

* generalize helpfers for mesh

* fix flux for scalareq

* fix periodize

* fix 2

* fix dg_rhs

* add 2d riemann solver

* draft advection 2d

* more exports

* fix dg rhs 3

* fix dg rhs 2

* fix dg rhs

* remove whitespaces

* implement 2d dg rhs

* use vreshape and mul! in dg computation

* add mesh2d constructor

* adjust show method

* fix unit tests

* adjust runtests args

* use tci.method=mda for avtci test

* fix euler sod shock tube test

* fix tests

* remove unused buffer

* rework mesh to organize cells in a tree

* add widths for boxes

* remove unused

* fix box placement

* fix connecting periodic boundaries for tree3d; fix place_boxes algorithm

* fix connecting periodic boundaries for tree2d

* add refvector and tests

* add utility for box

* clean up spectralelement

* remove unused file

* overload sizehint for objectcache

* implement tree structure incl tests

* also include box.jl

* add box

* remove fd.jl

* add tensorbasis

* add numeric utils tests

* cleanup

* separate numeric utilities

* add object cache

Fixallocs

See merge request !42