hyteg merge requests
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests
2023-05-12T10:04:52+02:00
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/597
Add function for writing blended coarse mesh
2023-05-12T10:04:52+02:00
Daniel Bauer
Add function for writing blended coarse mesh
With this MR we can visualize meshes on the physical domain.
![image](/uploads/2412529a9f21b3c4d7b2c3d6cacd1f7a/image.png)
Edit: Now, VTP and poly lines are used.
With this MR we can visualize meshes on the physical domain.
![image](/uploads/2412529a9f21b3c4d7b2c3d6cacd1f7a/image.png)
Edit: Now, VTP and poly lines are used.
Daniel Bauer
Daniel Bauer
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/228
mohr/matrixExport
2019-04-16T15:06:53+02:00
Marcus Mohr
mohr/matrixExport
Hi,
this adds a templated auxilliary function for setting up and exporting the matrix associated to one of our operators and a demo app using it.
Cheers
Marcus
Hi,
this adds a templated auxilliary function for setting up and exporting the matrix associated to one of our operators and a demo app using it.
Cheers
Marcus
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/727
[Rebased] Integrating Stokes solvers from branch burk/ELWMS.
2024-03-20T15:56:34+01:00
Nils Kohl
[Rebased] Integrating Stokes solvers from branch burk/ELWMS.
Rebased - see !718.
Rebased - see !718.
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/723
Generated Stokes operators with annulus blending
2024-03-15T14:49:45+01:00
Nils Kohl
Generated Stokes operators with annulus blending
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/716
GEMV
2024-03-21T21:55:14+01:00
Nils Kohl
GEMV
This MR implements the `gemv` as described in detail in #253.
It turns out that only minor changes have to applied to the `apply()` method to make this work (at least for the elementwise operators).
This MR implements the `gemv` as described in detail in #253.
It turns out that only minor changes have to applied to the `apply()` method to make this work (at least for the elementwise operators).
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/713
Extend geometry getter functions of Face and Cell class
2024-02-29T15:25:13+01:00
Marcus Mohr
Extend geometry getter functions of Face and Cell class
This MR adds three new functions:
- `Face::getIncircleRadius()`
- `Cell::getVolume()`
- `Cell::getInsphereRadius()`
We test these together with the existing `Face::getArea()` function in the new **Face+CellGeometryTest**.
This MR adds three new functions:
- `Face::getIncircleRadius()`
- `Cell::getVolume()`
- `Cell::getInsphereRadius()`
We test these together with the existing `Face::getArea()` function in the new **Face+CellGeometryTest**.
Marcus Mohr
Marcus Mohr
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/710
New generated Stokes operators
2024-03-06T08:34:39+01:00
Nils Kohl
New generated Stokes operators
See #246 for extended discussion
----
## Checklist:
- [x] `hyteg-operators` submodule needs to be updated as soon as https://i10git.cs.fau.de/hyteg/hyteg-operators/-/merge_requests/3 is merged
- [x] fix unused variable warnings in gen...
See #246 for extended discussion
----
## Checklist:
- [x] `hyteg-operators` submodule needs to be updated as soon as https://i10git.cs.fau.de/hyteg/hyteg-operators/-/merge_requests/3 is merged
- [x] fix unused variable warnings in generated operators
- [x] [move divergence, gradient, viscous directories out of the stokes directory and under `hyteg_operators_composites` instead](https://i10git.cs.fau.de/hyteg/hyteg/-/issues/246#note_28717)
- [x] fix issues for `real_t = float` (single precision builds)
- [x] blending operators test
----
## New module `hyteg_operators_composites`
This MR adds a new module `hyteg_operators_composites` that contains composite operators that are built from generated operators.
For now, three variants of Stokes operators have been added:
* P2P1StokesConstantOperator
* P2P1StokesEpsilonOperator
* P2P1StokesFullOperator
including the necessary viscous, divergence and gradient operators plus their `IcosahedralShellMap` blending versions.
The new module also comes with a short README.
## Testing
The MR extends and modifies
* P2P1ElementwiseStokesOperatorTest (Stokes constant, 2D + 3D)
* P2P1ElementwiseStokesOperatorTest (full Stokes w/ blending, 3D)
* ElementwiseEpsilonMinResConvergenceTest (Stokes epsilon, 2D + 3D)
* DivergenceOperatorTest (divergence, 2D + 3D)
* ViscousOperatorsTest (epsilon + full viscous block, 2D )
to test the new composites.
At least the 2D versions of all non-blending Stokes operators are now tested to some extent.
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/705
Add Stokes benchmarks for annulus and thick spherical shell settings
2024-02-22T13:47:51+01:00
Marcus Mohr
Add Stokes benchmarks for annulus and thick spherical shell settings
The benchmarks are based on and extend, w.r.t. boundary conditions, those described in [Analytical solutions for mantle flow in cylindrical and spherical shells](https://doi.org/10.5194/gmd-14-1899-2021) by Kramer et al.
Also noteworthy...
The benchmarks are based on and extend, w.r.t. boundary conditions, those described in [Analytical solutions for mantle flow in cylindrical and spherical shells](https://doi.org/10.5194/gmd-14-1899-2021) by Kramer et al.
Also noteworthy is the addition of a `PythonCallingWrapper` class.
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/676
Add continues outputting to LaTeX Table printer
2024-01-19T17:58:21+01:00
Michael Zikeli
Add continues outputting to LaTeX Table printer
The header `LaTeX/Table.hpp` provides the possibility to log rows of a tabulated `.dat` file that can later be used to, e.g. print graphs with pgfplots or also just tables in LaTeX.
This MR introduces a `writeUpdate` Method, that allows...
The header `LaTeX/Table.hpp` provides the possibility to log rows of a tabulated `.dat` file that can later be used to, e.g. print graphs with pgfplots or also just tables in LaTeX.
This MR introduces a `writeUpdate` Method, that allows for intermediate printing of the tables rows, that have not been printed yet, instead of printing the entire table all the time.
Michael Zikeli
Michael Zikeli
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/671
Enable float16 support for the P1 functionspace
2024-02-13T18:29:24+01:00
Michael Zikeli
Enable float16 support for the P1 functionspace
HyTeG was not able to work with float16 types. This merge request fixes this by adding the missing functionality for the P1 functionspace.
Necessary changes:
- [x] Template and explicit instantiate the following kernels that have been ...
HyTeG was not able to work with float16 types. This merge request fixes this by adding the missing functionality for the P1 functionspace.
Necessary changes:
- [x] Template and explicit instantiate the following kernels that have been generated at some point <add, apply, assign, communicate>. The other two kernel types <GS and SOR> have not been templated yet, since they are not used for the generated operators.
- [x] Set standard to C++23 if half precision support is enabled, otherwise some basic asserts like `is_floating_point` will fail.
- [x] Add test that check if all necessary functionality of float16 is working properly.
- [x] Update walberla to support float16 support.
- [x] Make sure that `WALBERLA_BUILD_WITH_HALF_PRECISION_SUPPORT` is enabled in the pipeline.
- [x] Make sure that the remote on the submodule walberla is the walberla repo and not a local fork.
- [x] Test the implementation and float16SupportTest for older compilers as well.
- [x] Some of the now templated kernels use copy by value, while reference is sufficient. Go back and add references.
- [x] Update the license in the modified files.
---
This merge request is dependent on the walberla merge request [!643](https://i10git.cs.fau.de/walberla/walberla/-/merge_requests/643).
Michael Zikeli
Michael Zikeli
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/659
Eigen sparse solver wrapper
2024-02-12T18:33:32+01:00
Nils Kohl
Eigen sparse solver wrapper
To be introduced after !658.
To be introduced after !658.
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/658
Eigen sparse matrix and vector assembly (proxies and helper) from HyTeG's FE ...
2023-11-09T10:07:10+01:00
Nils Kohl
Eigen sparse matrix and vector assembly (proxies and helper) from HyTeG's FE operators functions.
See #233
Solver wrappers still left to be implemented.
See #233
Solver wrappers still left to be implemented.
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/657
Include multiple-precision floating-point library MPFR to HyTeG
2023-11-06T12:38:45+01:00
Michael Zikeli
Include multiple-precision floating-point library MPFR to HyTeG
MPFR is a C library for simulating arbitrary whole number precision for floating-point variables, hence enabling multiple-precision floating-point computations with correct rounding. The precision requested by the user is the number of b...
MPFR is a C library for simulating arbitrary whole number precision for floating-point variables, hence enabling multiple-precision floating-point computations with correct rounding. The precision requested by the user is the number of bits used to represent the mantissa.
For more information about MPFR compare: [mpfr.org](http://www.mpfr.org/)
For better usage in HyTeG, two external C++ wrapper libraries are included as well to enable e.g. operator overloading, automatic memory management, ...
One of these is using compile time definition of the variable precision. Compare the distributor website: [mpfr::real<>](http://chschneider.eu/programming/mpfr_real/)
The other one uses a runtime definition of the variable precision. Compare the distributor website: [mpfr::mpreal](http://www.holoborodko.com/pavel/mpfr/)
Dominik Thoennes
dominik.thoennes@fau.de
Dominik Thoennes
dominik.thoennes@fau.de
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/653
Particles
2023-10-19T12:20:24+02:00
Nils Kohl
Particles
This MR implements unresolved particles via the MESA-PD particle code generation framework.
The objective is the implementation of **fluid (<)-> particle** and later **particle <-> particle** interactions. Since the particles are assume...
This MR implements unresolved particles via the MESA-PD particle code generation framework.
The objective is the implementation of **fluid (<)-> particle** and later **particle <-> particle** interactions. Since the particles are assumed to be smaller than the elements, the module is referred to as _unresolved particles_. Thus fluid-particle interactions are not meant to be fully resolved but are modeled instead. At this point, only the one-way coupling (fluid acts on particles, not vice versa) is considered.
This is sufficient to, e.g., implement tracer particles.
Some notes:
* The implementation is already fully parallelized.
* There is a new tutorial (no. 12) including some images.
* The particle properties are subject to change and probably need to be discussed in the future. As of now, it is possible to flexibly add custom real and integer scalars to particles if needed.
* Direct application of velocity and force fields is possible. For tracer particles, the former is sufficient and can be interpreted as a extremely simplified form of Faxén's law (https://en.wikipedia.org/wiki/Fax%C3%A9n%27s_law). Force fields are also already supported, and naturally involve the particle mass for the computation of the resulting translational velocity.
* Theoretically, all features that are available in MESA-PD can be used. This includes, for instance, other integrators. However, using them involves generating the corresponding C++ code via MESA-PD through the python script in the `data/codegen/unresolved_particles/` directory.
* I had in mind that there has been a temporary(?) tracer particle implementation in the TerraNeo module. I cannot find it right now (could be on a branch) - and I might be wrong. If there is one, we should consider replacing it (and add required features to this new version - if possible).
* Blended domains are not yet supported.
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/642
First version of parallel PrimitiveStorage setup from file.
2023-10-23T13:54:07+02:00
Nils Kohl
First version of parallel PrimitiveStorage setup from file.
This MR realizes a two-step process. First, in a serial (offline) run, the SetupPrimitiveStorage is built and passed to a load balancer, followed by serialization to a file. During the actual, parallel run, the file is read via MPIIO suc...
This MR realizes a two-step process. First, in a serial (offline) run, the SetupPrimitiveStorage is built and passed to a load balancer, followed by serialization to a file. During the actual, parallel run, the file is read via MPIIO such that only the portion that is necessary has to be viewed by the respective process. From that binary string, the entire PrimitiveStorage is created in parallel.
There are numerous possible optimizations - most notably, it is not clear to me right now if the current approach of simply writing all neighbor primitives to file is preferable, or if alternatively, such data should be communicated after only reading the locally allocated primitives. Maybe it does not even make a difference at all. Also, this implementation has not been tested with large setups yet.
Nils Kohl
Nils Kohl
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/635
Enhance functionality of FEFunctionRegistry and FunctionMultiStore
2023-07-28T14:21:17+02:00
Marcus Mohr
Enhance functionality of FEFunctionRegistry and FunctionMultiStore
The `FEFunctionRegistry` and `FunctionMultiStore` classes are extended to
- allow to remove functions again; note: this technically touches on issues #172 and #186
- only store functions once, where uniqueness is based on the function's...
The `FEFunctionRegistry` and `FunctionMultiStore` classes are extended to
- allow to remove functions again; note: this technically touches on issues #172 and #186
- only store functions once, where uniqueness is based on the function's name
This MR supersedes !634.
Marcus Mohr
Marcus Mohr
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/627
Add capability to export FE functions for visualisation using the ADIOS2 library
2023-07-17T14:34:59+02:00
Marcus Mohr
Add capability to export FE functions for visualisation using the ADIOS2 library
This MR extends the dataexport capabilities of HyTeG by allowing to use the [ADIOS 2: The Adaptable Input Output (I/O) System version 2](https://csmd.ornl.gov/software/adios2) to write FE function data to file for visualisation with Para...
This MR extends the dataexport capabilities of HyTeG by allowing to use the [ADIOS 2: The Adaptable Input Output (I/O) System version 2](https://csmd.ornl.gov/software/adios2) to write FE function data to file for visualisation with ParaView.
The corrent implementation so far only supports functions of type
- P1Function + P1VectorFunction
- P2Function + P2VectorFunction
- P2P1TaylorHoodFunction
but is easily extensible by adding another specialised sub-writer class.
Extend capabilities for exporting data by adding support for ADIOS2
Marcus Mohr
Marcus Mohr
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/600
Allow asking a Primitive for its type
2023-05-19T17:19:54+02:00
Marcus Mohr
Allow asking a Primitive for its type
In most of our current algorithms we (implicitely) know what type of primitive we are dealing with, i.e. whether we are working on a `Cell`, `Face`, `Edge` or `Vertex`. This largely results from the fact that we ask a `PrimitiveStorage` ...
In most of our current algorithms we (implicitely) know what type of primitive we are dealing with, i.e. whether we are working on a `Cell`, `Face`, `Edge` or `Vertex`. This largely results from the fact that we ask a `PrimitiveStorage` object to provide us with all local primitives of a certain type, e.g. via `PrimitiveStorage::getFaces()`.
Still to me it feels strange that we can neither query an object of type `Primitive` to obtain its type, nor that this is encoded in its associated `PrimitiveID`. There are some situations, where we might not (implicitely) know what kind of primitive we are dealing with. An example at the moment would be the migration of primitives between MPI processes. As a consequence of this the `PrimitiveStorage` class defines its own `PrimitiveTypeEnum` and provides a `getPrimitiveType()` method, which, presented with a `PrimitiveID` will return the type of the primitive, if this is either present locally, or in the immediate neighbourhood. If not, it will return `INVALID`.
The idea of this MR is to equip the `Primitive` class itself with a `PrimitiveTypeEnum` type that only has the values `CELL`, `FACE`, `EDGE` and `VERTEX` and a pure virtual function `Primitive::getType()` that can be used to query this. The latter is then easily implemented in the child classes.
The MR preserves `PrimitiveStorage::PrimitiveTypeEnum`, because I did not want to add a special situation `INVALID` enum to `Primitive::PrimitiveTypeEnum`. The former quasi extends the latter, based on fixed int values, so that we can cast the former into the latter.
That feels not ideal, but I am too unfamiliar with the details of primitive migration to understand, why we might want to send a nullptr together with an `INVALID` from one process to another, to change that.
Cheers
Marcus
Marcus Mohr
Marcus Mohr
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/594
Allow use of isoparametric elements in VTKOutput for P2Functions
2023-06-22T17:38:46+02:00
Marcus Mohr
Allow use of isoparametric elements in VTKOutput for P2Functions
The merge introduces a change to the functionality of the `VTKOutput` class. When writing `P2(Vector)Function`s the default now is to use *VTK_QUADRATIC_TRIANGLE* or *VTK_QUADRATIC_TETRA* as cell type.
The old way to export these functi...
The merge introduces a change to the functionality of the `VTKOutput` class. When writing `P2(Vector)Function`s the default now is to use *VTK_QUADRATIC_TRIANGLE* or *VTK_QUADRATIC_TETRA* as cell type.
The old way to export these functions as `P1Function`s on a refined mesh is for the moment still supported and can be activated by calling
- `setUseVTKQuadraticTriangle( false )` or
- `setUseVTKQuadraticTetra( false )`
on the corresponding `VTKOutput` object.
Comparison of the old versus the new approach looks good so far. In the following figures the left part shows a visualisation with the old and the right with the new approach:
![VTK_Quadratic_Triangle-partialAnnulus](/uploads/7fc7c7ed185be1f2fd4bd6ab77057d21/VTK_Quadratic_Triangle-partialAnnulus.png)
![VTK_QUADRATIC_TETRA_3TETS_LVL2-v2](/uploads/3a5ce647b6dca79acc120c590bca1df5/VTK_QUADRATIC_TETRA_3TETS_LVL2-v2.png)
Marcus Mohr
Marcus Mohr
https://i10git.cs.fau.de/hyteg/hyteg/-/merge_requests/585
Add isIdentity and isAffine to GeometryMap
2023-04-20T17:38:29+02:00
Daniel Bauer
Add isIdentity and isAffine to GeometryMap
Fixes hyteg/hyteg#208.
Fixes hyteg/hyteg#208.
Daniel Bauer
Daniel Bauer