OpenGeoSys 6.2.0

Released on Wednesday, Mar 20, 2019, GitHub release

The following notable changes and new features were implemented between OpenGeoSys 6.1.0 and 6.2.0:

Features

New processes

• HeatTransportBHE process supporting 1U, CXA, and CXC BHE types. #2221, #2332, #2271, #2275
• Staggered implementation of a thermo-mechanical with phasefield process. #2102
• Richards mechanics process. #2189
• Small deformation process with non-local integration of damage. #2294
• Staggered implementation of phasefield process. #2052
• ComponentTransport process in revised formulation. #2200
• Multi-component transport process. #2304

Other process’ changes

• A Jacobian tester: a process’s Jacobian assembly can be compared to a numerical Jacobian (mostly for development. #2238
• Add setInitialConditions() call to processes and local assemblers. #2334
• Several bug fixes for LIE/HM process including “fracture into matrix leak-off”, Darcy velocity output in the fracture. #2129
• Support for intersecting fractures (x-crossing and t-junction) in LIE/SD process. #2235, #2293
• Fixed the calculation of the Darcy velocity in staggered TH. #2127

Numerics

• Staggered scheme for coupled processes with different orders of elements. #2016
• Subdomain deactivation within time intervals. #2297
• Add a driver for an iteration based time stepping algorithm. #2318

Boundary condition

• Implementation of Python boundary conditions. #2170
• Implementation of constraint boundary conditions. #2145
• Dirichlet boundary condition within a time interval. #2272
• BoundaryElementSearch: Return bulk element id and bulk element face id. #2125
• Removed Neumann boundary condition for displacement jumps in LIE processes. #2153

Source term

• Use parameter for source terms. #2061
• Volumetric source terms implementation. #2220, #2234, #2241, #2261

Input and output

• Writing and reading of integration point data. Implemented sigma and epsilon output for some processes. #2071, #2203, #2324
• Add input of vtu-meshes for boundary conditions additionally to the gml input. This is later used by the heterogeneous parameters and source terms. #2140, #2141, #2156
• Parameters may now be explicitly defined on arbitrary subdomains. This merges the Heterogeneous Dirichlet and Neumann boundary conditions with their, previously only homogeneous, counterparts. #2376
• Parameters now support space-dependent function input via exprtk library. #2325, #2339
• Output of primary variables on arbitrary subdomains. #2372, #2299
• Output is possible at specific times for adaptive time stepping and evolutionaryPIDController. #2079
• Calculate and output specific flux. #2411
• Enable surface flux calculation for component transport process. #2168
• Interpolated pressure (on higher order elements’ nodes) output for Richards-mechanics and hydro-mechanics processes. #2228
• Improve output of nodal aperture and aperture vector in LIE/HM. #2050
• Add output of nodal forces and hydraulic flow in mechanics and coupled mechanics processes, SD, HM, LIE/SD, LIE/HM. #2118
• Enable surface flux calculation for HT process. #2132
• Fixed pvd output. #2036

Material models

• BGRa creep model. #2167
• New cohesive zone mode I fracture model for LIE processes. #2142, #2157
• Add MFront/TFEL solid constitutive relation support via. MFrontGenericInterfaceSupport library. CMake option OGS_USE_MFRONT. #2259
• Infrastructure for multi-phase, multi-component material properties library. #2303, #2415
• Anisotropic tensors may now be given in given local coordinate system. #2370
• Non-constant density model implementation in HC process. #2200
• Add second derivatives of permeability functions in Richards flow. #2188
• Different solid material models can now be defined on different materialIDs. #2216, #2262, #2270
• Move solid constitutive relation creation in single place. #2160

Testing and documentation

• Migrated Appveyor tests to Azure Pipelines. #2342
• Added cppcheck, clang-tidy and include-what-you-use. #2078, #2328, #2377
• Added check for header standalone compilation, can be enabled with OGS_CHECK_HEADER_COMPILATION=ON. #2043
• Jenkins shows nice summaries of compiler warnings. #2206
• Large tests are fixed and run on Jenkins upon master merge. #2056, #2155
• Re-enabled code coverage reports (for the testrunner only) with Codecov. #2333, #2336
• Commits containing [ci skip] in the commit message do not trigger a Jenkins build.
• Add vtkdiff test configuration to project files, s.t. the vtkdiff tests are performed after successful run comparing output to reference files. This possibility is also reflected in a new CMake function OgsTest as an alternative to the AddTest. #2255, #2257

New tools

• TecPlotTools: splitting files containing multiple zones into seperate TecPlot files. #2114
• TecPlot-Reader: converting TecPlot rasters into OGS meshes (one file per zone, containing all variables as scalar arrays). #2114
• constructMeshesFromGeometry: Construction of boundary meshes from bulk mesh and gml files. #2144
• identifySubdomains: Identification of boundary meshes (or any subdomains in general) in the bulk mesh. Performs geometrical tests and creates and verifies necessary bulk_node_ids and bulk_element_ids maps. #2227, #2252
• Mesh2Raster: converts 2D OGS meshes into raster files of arbitrary pixel size, where node elevation is represented by pixel value. #2367
• GocadSGridReader tool reading the Gocad/SKUA stratigraphic grid format and writing the data in the vtu format. #2316

New tools and CLI usage

• ogs --help shows the given CMake options. #2210
• Unify command line version info output. #2194
• Rewrite partmesh tool and add partitioning of boundary meshes (or subdomains in general) according to the partition of the bulk mesh. #2159, #2178, #2195
• Add new features to ExtractSurface tool. #2387, #2401
• updated utility moveMeshNodes: algorithm for mesh on mesh mapping now calculates exact node elevation instead of using interpolation. #2390

Data Explorer

• Listing of source terms and boundary conditions in Data Explorer DataView (no visualisation yet). #2110
• Mesh element removal can now remove elements based on value ranges of arbitrary scalar arrays (currently only int- and double arrays are supported). #2115
• added custom VTK filter to represent raster data as point clouds. #2121
• geometrical points can now be converted into station points. #2369
• fixed issue with geometrical surfaces not being loaded correctly. #2388
• Replace deprecated QVTKWidget with QVTKOpenGLWidget #2432

Other notable code changes

• C++17 standard is enabled and is allowed in the production code (given the compiler support). #2298
• Separate monolithic ProcessLib into individual processes. Now it is possible to build ogs with selected processes only. This also improves linking times. #2017
• Parameters are extracted in own library. #2413
• Port secondary variable extrapolation and output for PETSc builds. #2082
• Extend Kelvin mapping functions and move implementation to MathLib. #2060, #2075, #2044
• Collect generic algorithms in single header file. #2161
• Remove unused MeshSubsets class. #2135
• Removed writing of xsd header in XML files, #2198

Infrastructure

• Migrated LFS storage from GitLab to Artifactory. #2359
• Optimized ctest runtime by starting long-running benchmarks first. #2310
• Proper RPATH handling for shared library installations. #2208
• Package OGS inside container with Singularity; more docs. #2193, #2356
• Migrated opengeosys.org to a static site generator (Hugo) unifying documentation and general OGS info. #2088, #2095, #2123
• Speed-up CMake run time. #2072, #2392

CMake options changes

• OGS_USE_PYTHON enables Python BCs. #2170
• OGS_BUILD_TESTS was renamed to BUILD_TESTING. #2350
• Added OGS_USE_CVODE. #2344
• Added OGS_BUILD_PROCESSES for ;-separated list of processes to build. #2233
• OGS_USE_CONAN=ON is now the default when conan was found. #2207

Version info

• CMake minimum version 3.10
• Visual Studio minimum (and tested) version 2017
• GCC minimum version 6.2 (tested: 6.4)
• Clang minimum version 3.5 (tested: 7.0)
• Boost minimum version 1.66.0
• VTK minimum version 8.1. #2158
• Qt tested version 5.11.2
• Python tested version 3.7.2