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| Original file line number | Diff line number | Diff line change |
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| date = "2021-10-11T13:30:13+01:00" | ||
| title = "OpenGeoSys 6.4.1" | ||
| tag = "6.4.1" | ||
| author = "Lars Bilke" | ||
| release_date = "2021-10-11" | ||
|
|
||
| [downloads] | ||
| binary = [ | ||
| "Windows-10.0.14393-python-3.7.2-de-utils.zip", | ||
| "Windows-10.0.14393-python-3.7.2-utils.zip", | ||
| "Windows-10.0.14393-de-utils.zip", | ||
| "Windows-10.0.14393-utils.zip" | ||
| ] | ||
| container = [ | ||
| "serial.sif", | ||
| "openmpi-4.0.5.sif", | ||
| ] | ||
| note = """ | ||
| **Note:** When using Python bindings make sure to have Python installed on your system: | ||
| - Windows: [Python 3.7.2](https://www.python.org/ftp/python/3.7.2/python-3.7.2-amd64-webinstall.exe) | ||
| """ | ||
| +++ | ||
|
|
||
| ## Overview | ||
|
|
||
| This release features the implementation of the Thermo-Hydro-Hydro-Mechanical (`TH2M`) fully coupled process. The process is intended for modeling two-component two-phase flow in deformable porous media under non-isothermal conditions. Testing is in progress and development continues, so handle with care or wait a little longer until it got more refined. | ||
|
|
||
| Another new process, the StokesFlow process, is mainly used for simulating the low-Reynolds-number [incompressible flow in fractures](https://www.opengeosys.org/docs/benchmarks/stokes-flow/parallel-plate-flow/). The Stokes equations are solved using the standard Taylor-Hood scheme. Additionally including the Darcy term in the momentum balance equations, the `StokesFlow` process module is capable of modeling the fluid flow in fractured porous media. | ||
|
|
||
| The local assembly on inclined elements, which can be used to simulate the fluid low in fracture, are implemented. As a first application, [LiquidFlow](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3632) is enabled to use such local assembly. | ||
|
|
||
| Also work continued on new material models, e.g. the Günther Salzer model for transient and stationary rock salt creep, an improved HDF5-based output file handling which allows for [parallel postprocessing](https://gitlab.opengeosys.org/ogs/ogs/-/wikis/Working-with-HDF-data-(examples-h5py)) as well as the introduction of a first iteration of a [Jupyter Notebook based user workflow](https://www.opengeosys.org/docs/userguide/basics/jupyter-notebooks/). Stay tuned for more on interactive computing in future releases. | ||
|
|
||
| ## New processes | ||
|
|
||
| ### TH2M | ||
|
|
||
| A thermal two-phase flow in deformable solid media process. | ||
|
|
||
| * [!3588](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3588) Added an infrastructure for the TH2M Process that handles different models of phase transitions. | ||
| * [!3550](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3550) Monolithic scheme implementation using central differences Jacobian. | ||
| * [!3656](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3656) Collect all constitutive variables updates in single function. | ||
| * [!3684](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3684) HM flow-fully-saturated tests; liquid and gas formulations. | ||
| * [!3759](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3759) Restart; integration point data I/O. | ||
| * [!3763](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3763) Extract constitutive variables. | ||
| * [!3762](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3762) Excavation. Enable domain deactivation. | ||
| * [!3777](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3777) Switch to constant solid volume fraction | ||
| * [!3767](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3767) Implement partial analytical Jacobian, working for saturated media. | ||
| * [!3802](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3802) Gas and liquid phase density output directly from ip_data array. | ||
|
|
||
| ### Stokes flow | ||
|
|
||
| * [!3617](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3617) Monolithic scheme implementation. | ||
| * [!3658](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3658) Documentation | ||
| * [!3668](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3668) Extended to Stokes-Brinkman variant. | ||
|
|
||
| ## Process' changes | ||
|
|
||
| * [!3583](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3583) THM and TRM process need a thermal conductivity property on the medium level | ||
| * [!3561](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3561) Excavation support for coupled mechanics processes and Dirichlet boundary conditions on the excavated surfaces were added. | ||
| * [!3580](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3580) \[THM\] Replaced total thermal strain with incremental thermal strain | ||
| * [!3742](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3742) \[THM\] Adding integration point output for stress and strain and a restart test. | ||
| [!3706](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3706) Separate createLocalAssemblers respectively for BC/Source term and system of equations. | ||
|
|
||
| ### PhaseField | ||
|
|
||
| * [!3749](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3749) added constrained minimisation to the phase-field solution scheme. | ||
| * [!3779](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3779) added AT1 regularisation of the total energy (see (<https://link.springer.com/content/pdf/10.1007/s13137-019-0126-6.pdf>) for details). | ||
|
|
||
| ### ThermoRichardsFlow | ||
|
|
||
| * [!3419](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3419) added ThermoRichardsFlow process with optional corrections for solid elasticity under simplified assumptions (see [Improved predictions of thermal fluid pressurization in hydro-thermal models based on consistent incorporation of thermo-mechanical effects in anisotropic porous media](https://www.sciencedirect.com/science/article/abs/pii/S0017931021002301) for details) | ||
|
|
||
| ### Component transport process / reactive transport process with coupling of Phreeqc | ||
|
|
||
| * [!3695](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3695) Enabled to input the amount of ion exchangers in subdomains via the MaterialPropertyLib | ||
| * [!3648](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3648) Added capability to model ion exchange reactions. | ||
| * [!3563](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3563) Added optional functionality for chemically induced porosity change. | ||
| * [!3567](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3567) Added optional functionality for irreversible equilibrium reactions to the ChemistryLib. | ||
| * [!3721](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3721) Provided a simple means of considering temperature effect on the diffusive transport process. | ||
| * [!3744](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3744) Allowed chemical calculations by means of the look-up table approach. | ||
| * [!3781](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3781) Solved the reaction equation in the reaction stage instead of doing extrapolation from integration points onto mesh nodes. | ||
| * [!3810](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3810) Incorporate the effect of change of storage capacity. | ||
|
|
||
| ### HeatTransportBHE | ||
|
|
||
| * [!3793](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3793) Add server communication feature after each time step | ||
|
|
||
| ### HydroMechanics | ||
|
|
||
| * [!3607](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3607) Simulation on a vertical slice of a 3D domain. | ||
|
|
||
| ### LIE | ||
|
|
||
| * [!3672](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3672) Use the existing class to compute the rotation matrix in LIE, which also corrects the orientation of the displacement jump. | ||
| * [!3676](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3676) Corrected the velocity and its orientation in the fracture. | ||
| * [!3834](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3834) Corrected matrix sizes in velocity computation. | ||
|
|
||
| ### LiquidFlow process | ||
|
|
||
| * [!3610](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3610) Use specific body force instead of darcy_gravity. Users LiquidFlow project files has to be adapted! | ||
| * [!3623](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3623) Use body force vector in the local assembler. | ||
| * [!3632](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3632) Add local assembly in inclined elements for simulating flow in fracture. | ||
|
|
||
| ### Richard's component transport process | ||
|
|
||
| * [!3606](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3606) [!3614](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3614) Employ MPL in Richard's component transport process. | ||
|
|
||
| ### Richard's mechanics process | ||
|
|
||
| * [!3574](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3574) Extend integration point data output to solid material state internal variables used by _e.g._ MFront. This makes correct restart possible. | ||
| * [!3690](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3690) Local Newton-Raphson: add optional scaling for convergence tests, which is used in the computation of micro-porosity. | ||
|
|
||
| ### SmallDeformation | ||
|
|
||
| * [!3683](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3683) Use the element wise reference temperature. | ||
|
|
||
| ### ThermoMechanics | ||
|
|
||
| * [3738](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3738) Fixed integration point (IP) data IO for restart computation. | ||
|
|
||
|
|
||
| ### ThermoRichardsMechanics and ThermoHydroMechanics | ||
|
|
||
| * [!3583](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3583) THM and TRM process need a thermal conductivity property on the medium level | ||
| * [!3758](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3758) THM/TRM; Add heat flux output. Corrected HydraulicFlow. | ||
| * [!3611](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3611) TRM; Include the thermal strain into total mechanical strain. | ||
| * [!3714](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3714) Replaced the hard coded solid density model in THM with the MPL property. With changes, the input parameter of `reference_temperature` is removed. | ||
| * [!3718](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3718) | ||
| Enabled integration point data I/O in THM | ||
|
|
||
| ## Material models | ||
|
|
||
| * [!3572](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3572) IdealGasLaw now uses molar mass from VariableArray rather than from another MPL-Property. | ||
| * [!3579](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3579) New saturation-capillary pressure relation, SaturationExponential, mainly for testing and prototyping purposes. | ||
| * [!3546](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3546) Implementing medium level property to mix thermal conductivities from phases. | ||
| * [!3599](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3599) Added orthotropic embedded fracture permeability model | ||
| * [!3640](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3640) A Function type MPL property using exprtk, similar to the Function type parameter. All scalar variables from VariableArray can be used. | ||
| * [!3721](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3721) Added temperature dependent model for molecular diffusion. | ||
| * [!3745](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3745) New stationary creep model for rock salt. | ||
| * [!3747](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3747) The damage-free version of the Günther Salzer model for transient and stationary rock salt creep. | ||
|
|
||
| ## Numerics | ||
|
|
||
| * [!3676](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3676) Dropped the rotation of the shape function gradients. These changes also correct the velocity and its orientation in the fracture. | ||
|
|
||
| ## Data Explorer | ||
|
|
||
| * [!3578](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3578) Elevation of station data can be mapped based on meshes or rasters | ||
|
|
||
| ## Testing | ||
|
|
||
| * [!3586](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3586) Modular project files by patching a base project file with multiple patch files with syntax for adding, removing and modifying parts of the base. The selection is done via XPath expressions. | ||
| * [!3664](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3664) First implementation of a code coverage visualization. | ||
|
|
||
| ## Bug fixes | ||
|
|
||
| * [!3615](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3615) Bug fixing in EffectiveThermalConductivityPorosityMixing: Avoided the porosity calculation | ||
| * [!3566](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3566) Fixed a bug in NodalSourceTerm when the Taylor-Hood elements are used. | ||
| * [!3682](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3682) Fixed the output of phase compositions in TH2M process | ||
| * [!3585](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3585) Use correct saturatation for swelling stress update in output of the RichardsMechanics process. | ||
| * [!3652](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3652) Fixed a MFront related bug in HydroMechanics. | ||
| * [!3756](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3756) Speedup Dirichlet BCs for deactivated subdomains avoiding costly reallocations. | ||
| * [!3788](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3788) Use local topology information while removing global numbering dependencies in Mesh. Resolves base node id larger then higher order node id warning. | ||
| * [!3797](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3797) Refactored material ID list parser, prevents some (unlikely) bugs with malformed prj files. | ||
| * [!3816](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3816) Fix Brooks-Corey saturation derivative. | ||
| * [!3834](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3834) Fixed an Eigen matrix size related bug in LIE, which sporadically causes LIE benchmark failed on Mac OS. | ||
|
|
||
| ## CMake | ||
|
|
||
| * [!3592](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3592) Added build and test presets. | ||
| * [!3624](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3624) Job pools for Ninja: optimizes build parallelization (full cores for everything but processes, processes depend on available memory) | ||
| * [!3671](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3671) Integrate tfel with `ExternalProject_Add()` instead of Conan. | ||
| * [!3687](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3687) Qt is not handled by Conan anymore! Use [aqt](https://github.com/miurahr/aqtinstall) to install it on your system. | ||
| * [!3698](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3698) Moved LIS dependency from Conan to ExternalProject. | ||
| * [!3727](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3727) Added support for ccache on Windows, dropped clcache. | ||
| * [!3707](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3707) CMake test presets, requires CMake 3.21. | ||
|
|
||
| ## Infrastructure | ||
|
|
||
| * [!3555](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3555) and [!3835](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3835) Clang-format all of the code base. Thriving for consistency. | ||
| * [!3562](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3562) Added threshold for Doxygen warnings (16). | ||
| * [!3570](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3570) Enabled compiler warnings for executables. | ||
| * [!3622](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3622) Correct naming of private data members using trailing underscore. | ||
| * [!3671](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3671) Enabled mfront on CI mac job. | ||
| * [!3712](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3712) Added library dependency reports to Doxygen documentation. Added Lizard code complexity report to Doxygen CI job as a build artifact. | ||
| * [!3720](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3720) Added clang-format check in pre-commit. | ||
| * [!3751](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3751) OGS binaries are now in the `PATH` in the container environment. Execution via `--app ogs` is not required anymore. | ||
| * [!3755](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3755), [!3757](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3757) Initial Apple ARM (M1) support. | ||
| * [!3761](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3761) CI now runs with [Pipelines for merged results](https://docs.gitlab.com/ee/ci/pipelines/pipelines_for_merged_results.html). Also switched to `git clang-format` instead of `clang-format`. | ||
| * [!3776](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3776) Added predefined container with Jupyter Notebook, ogs and Python tools. | ||
|
|
||
| ## File I/O | ||
|
|
||
| * [!3598](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3598) Time is additional dimension HDF5 output data - allows slicing with h5py | ||
| * [!3604](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3604) HDF5 can now contain multiple meshes (boundary conditions) and an attribute "times" with time step values for each step | ||
| * [!3764](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3764) HDF5 can now be written to multiple files. The number of files can be adapted to allow different I/O-patterns (1-file-per-process, single-file, 1-file-per-node). | ||
|
|
||
| ## Version info | ||
|
|
||
| * [!3647](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3647) MFront based on [TFEL branch rliv-3.4](https://github.com/thelfer/tfel/tree/rliv-3.4) | ||
| * [!3757](https://gitlab.opengeosys.org/ogs/ogs/-/merge_requests/3757) Conan 1.34.0 (optional) | ||
| * [!3707] [CMake presets](https://www.opengeosys.org/docs/devguide/getting-started/build-configuration/#available-cmake-presets) require CMake 3.21. |