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Merge branch 'develop' into test/omarduran/unitest_rttypes
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@OmarDuran
OmarDuran committed Dec 16, 2024
2 parents 0aeca31 + 93f0252 commit 7ec6018
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2 changes: 1 addition & 1 deletion .devcontainer/devcontainer.json
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"build": {
"dockerfile": "Dockerfile",
"args": {
"GEOS_TPL_TAG": "286-547"
"GEOS_TPL_TAG": "288-584"
}
},
"runArgs": [
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2 changes: 1 addition & 1 deletion .github/workflows/ci_tests.yml
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Expand Up @@ -330,7 +330,7 @@ jobs:
DOCKER_CERTS_DIR: "/etc/pki/ca-trust/source/anchors"
DOCKER_CERTS_UPDATE_COMMAND: "update-ca-trust"

- name: Pangea 3 (AlmaLinux 8.8, gcc 9.4.0, open-mpi 4.1.2, cuda 11.5.0, openblas 0.3.10)
- name: Pangea 3 CUDA (AlmaLinux 8.8, gcc 9.4.0, open-mpi 4.1.2, cuda 11.5.0, openblas 0.3.10)
BUILD_AND_TEST_CLI_ARGS: "--build-exe-only --no-install-schema"
CMAKE_BUILD_TYPE: Release
BUILD_GENERATOR: "--makefile"
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2 changes: 1 addition & 1 deletion .integrated_tests.yaml
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@@ -1,6 +1,6 @@
baselines:
bucket: geosx
baseline: integratedTests/baseline_integratedTests-pr3381-9063-399123c
baseline: integratedTests/baseline_integratedTests-pr3479-9362-cffefcc
allow_fail:
all: ''
streak: ''
30 changes: 28 additions & 2 deletions BASELINE_NOTES.md
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Expand Up @@ -6,11 +6,38 @@ This file is designed to track changes to the integrated test baselines.
Any developer who updates the baseline ID in the .integrated_tests.yaml file is expected to create an entry in this file with the pull request number, date, and their justification for rebaselining.
These notes should be in reverse-chronological order, and use the following time format: (YYYY-MM-DD).

PR #3479 (2024-12-15)
=====================
Refine inputFiles/compositionalMultiphaseFlow: shift reference pressures to initial pressures, make nonlinear tuning more reasonable, minimize output.

PR #3450 (2024-12-14)
=====================
Fix timestep selector flaw in SolidMechanicsLagrangeContact.

PR #3450 (2024-12-08)
=====================
Added test for explicit runge kutta sprinslider.

PR #3480 (2024-12-06)
=====================
Add "logLevel" parameter under /Problem/Outputs in baseline files

PR #3361 (2024-12-03)
=====================
Revert default gravity treatment to old version. Make the way introduced in #3337 optional.

PR #3361 (2024-12-03)
=====================
Baseline diffs after reimplementation of wave equation acoustic gradient for velocity and density parameters: new field "partialGradient2" and "pressureForward" field replacing "pressureDoubleDerivative".

PR #3393 (2024-12-02)
=====================
Fix netToGross bug.

PR #3381 (2024-12-01)
=====================
A few baseline diffs for order FaceElementSubRegion::m_toFacesRelation map. Not sure why this was changed by this PR, but the previous order seems incorrect for a couple of cases.


PR #2957 (2024-11-27)
=====================
Added ExternalDataRepository.
Expand All @@ -19,7 +46,6 @@ PR #3448 (2024-11-21)
=====================
Switched the FaceElementSubRegion::m_toFacesRelation and FaceElementSubRegion::m_2dElemToElems back to array2d instead of ArrayOfArray. This results in a reordering m_toFacesRelation back to the "correct" assumed order of "original face first". This fixes a bug that failed to remove the CellStencil entry when a FaceElement splits two cells.


PR #2637 (2024-11-21)
=====================
Added numberOfTargetProcesses.
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2 changes: 1 addition & 1 deletion COPYRIGHT
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Expand Up @@ -8,7 +8,7 @@ contributors. The following copyright applies to each file in the GEOS
distribution, unless otherwise stated in the file:

* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 Total, S.A
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
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13 changes: 0 additions & 13 deletions RELEASE
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This file was deleted.

82 changes: 0 additions & 82 deletions RELEASE_NOTES.md
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This file was deleted.

2 changes: 1 addition & 1 deletion examples/ObjectCatalog/Base.hpp
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Expand Up @@ -3,7 +3,7 @@
* SPDX-License-Identifier: LGPL-2.1-only
*
* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 Total, S.A
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
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2 changes: 1 addition & 1 deletion examples/ObjectCatalog/Derived1.cpp
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Expand Up @@ -3,7 +3,7 @@
* SPDX-License-Identifier: LGPL-2.1-only
*
* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 Total, S.A
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
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2 changes: 1 addition & 1 deletion examples/ObjectCatalog/Derived1.hpp
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Expand Up @@ -3,7 +3,7 @@
* SPDX-License-Identifier: LGPL-2.1-only
*
* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 Total, S.A
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
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9 changes: 5 additions & 4 deletions examples/ObjectCatalog/Derived2.cpp
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Expand Up @@ -2,10 +2,11 @@
* ------------------------------------------------------------------------------------------------------------
* SPDX-License-Identifier: LGPL-2.1-only
*
* Copyright (c) 2018-2020 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2020 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2018-2020 Total, S.A
* Copyright (c) 2019- GEOSX Contributors
* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
* All rights reserved
*
* See top level LICENSE, COPYRIGHT, CONTRIBUTORS, NOTICE, and ACKNOWLEDGEMENTS files for details.
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2 changes: 1 addition & 1 deletion examples/ObjectCatalog/Derived2.hpp
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Expand Up @@ -3,7 +3,7 @@
* SPDX-License-Identifier: LGPL-2.1-only
*
* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 Total, S.A
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
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2 changes: 1 addition & 1 deletion examples/ObjectCatalog/main.cpp
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Expand Up @@ -3,7 +3,7 @@
* SPDX-License-Identifier: LGPL-2.1-only
*
* Copyright (c) 2016-2024 Lawrence Livermore National Security LLC
* Copyright (c) 2018-2024 Total, S.A
* Copyright (c) 2018-2024 TotalEnergies
* Copyright (c) 2018-2024 The Board of Trustees of the Leland Stanford Junior University
* Copyright (c) 2023-2024 Chevron
* Copyright (c) 2019- GEOS/GEOSX Contributors
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6 changes: 3 additions & 3 deletions host-configs/LLNL/lassen-clang-10-cuda-11.cmake
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@@ -1,16 +1,16 @@
include(${CMAKE_CURRENT_LIST_DIR}/../../src/coreComponents/LvArray/host-configs/LLNL/lassen-clang-10-cuda-11.cmake)

# Fortran
set(CMAKE_Fortran_COMPILER /usr/tce/packages/xl/xl-2022.08.19-cuda-11.8.0/bin/xlf_r CACHE PATH "")
set(CMAKE_Fortran_COMPILER /usr/tce/packages/xl/xl-2023.06.28/xlf/16.1.1/bin/xlf CACHE PATH "")
set(CMAKE_Fortran_FLAGS_RELEASE "-O3 -DNDEBUG -qarch=pwr9 -qtune=pwr9" CACHE STRING "")
set(FORTRAN_MANGLE_NO_UNDERSCORE ON CACHE BOOL "")
set(OpenMP_Fortran_FLAGS "-qsmp=omp" CACHE STRING "")
set(OpenMP_Fortran_LIB_NAMES "" CACHE STRING "")

# MPI
set(MPI_HOME /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-clang-10.0.1-gcc-8.3.1 CACHE PATH "")
set(MPI_Fortran_COMPILER /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-xl-2022.08.19-cuda-11.8.0/bin/mpifort CACHE PATH "")
set(MPI_Fortran_COMPILER /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-xl-2023.06.28-cuda-11.8.0/bin/mpifort CACHE PATH "")

include(${CMAKE_CURRENT_LIST_DIR}/lassen-base.cmake)

set(ENABLE_CUDA_NVTOOLSEXT OFF CACHE BOOL "")
set(ENABLE_CUDA_NVTOOLSEXT ON CACHE BOOL "")
4 changes: 2 additions & 2 deletions host-configs/LLNL/lassen-clang-13-cuda-11.cmake
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@@ -1,15 +1,15 @@
include(${CMAKE_CURRENT_LIST_DIR}/../../src/coreComponents/LvArray/host-configs/LLNL/lassen-clang-13-cuda-11.cmake)

# Fortran
set(CMAKE_Fortran_COMPILER /usr/tce/packages/xl/xl-2022.08.19-cuda-11.8.0/bin/xlf_r CACHE PATH "")
set(CMAKE_Fortran_COMPILER /usr/tce/packages/xl/xl-2023.06.28/xlf/16.1.1/bin/xlf CACHE PATH "")
set(CMAKE_Fortran_FLAGS_RELEASE "-O3 -DNDEBUG -qarch=pwr9 -qtune=pwr9" CACHE STRING "")
set(FORTRAN_MANGLE_NO_UNDERSCORE ON CACHE BOOL "")
set(OpenMP_Fortran_FLAGS "-qsmp=omp" CACHE STRING "")
set(OpenMP_Fortran_LIB_NAMES "" CACHE STRING "")

# MPI
set(MPI_HOME /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-clang-13.0.1-gcc-8.3.1 CACHE PATH "")
set(MPI_Fortran_COMPILER /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-xl-2022.08.19-cuda-11.8.0/bin/mpifort CACHE PATH "")
set(MPI_Fortran_COMPILER /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-xl-2023.06.28-cuda-11.8.0/bin/mpifort CACHE PATH "")

include(${CMAKE_CURRENT_LIST_DIR}/lassen-base.cmake)

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2 changes: 2 additions & 0 deletions host-configs/LLNL/lassen-gcc-8-cuda-11.cmake
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Expand Up @@ -14,4 +14,6 @@ set(FORTRAN_MANGLE_NO_UNDERSCORE OFF CACHE BOOL "")
set(MPI_HOME /usr/tce/packages/spectrum-mpi/spectrum-mpi-rolling-release-gcc-8.3.1 CACHE PATH "")
set(MPI_Fortran_COMPILER ${MPI_HOME}/bin/mpifort CACHE PATH "")

set(ENABLE_CUDA_NVTOOLSEXT ON CACHE BOOL "")

include(${CMAKE_CURRENT_LIST_DIR}/lassen-base.cmake)
2 changes: 1 addition & 1 deletion inputFiles/compositionalMultiphaseFlow/2ph_cap_1d_ihu.xml
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Expand Up @@ -94,7 +94,7 @@
<PressurePorosity
name="rockPorosity"
defaultReferencePorosity="0.2"
referencePressure="0.0"
referencePressure="7.5e6"
compressibility="1.0e-9"/>

<BrooksCoreyRelativePermeability
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2 changes: 1 addition & 1 deletion inputFiles/compositionalMultiphaseFlow/4comp_2ph_1d.xml
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Expand Up @@ -104,7 +104,7 @@
<PressurePorosity
name="rockPorosity"
defaultReferencePorosity="0.2"
referencePressure="0.0"
referencePressure="5e6"
compressibility="1.0e-9"/>

<BrooksCoreyRelativePermeability
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7 changes: 3 additions & 4 deletions inputFiles/compositionalMultiphaseFlow/4comp_2ph_cap_1d.xml
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Expand Up @@ -45,7 +45,7 @@
maxTime="2e7">
<PeriodicEvent
name="outputs"
timeFrequency="1e6"
timeFrequency="1e7"
target="/Outputs/siloOutput"/>

<PeriodicEvent
Expand Down Expand Up @@ -77,8 +77,7 @@
<NumericalMethods>
<FiniteVolume>
<TwoPointFluxApproximation
name="fluidTPFA"
/>
name="fluidTPFA"/>
</FiniteVolume>
</NumericalMethods>

Expand Down Expand Up @@ -117,7 +116,7 @@
<PressurePorosity
name="rockPorosity"
defaultReferencePorosity="0.2"
referencePressure="0.0"
referencePressure="5e6"
compressibility="1.0e-9"/>

<BrooksCoreyRelativePermeability
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8 changes: 3 additions & 5 deletions inputFiles/compositionalMultiphaseFlow/co2_flux_3d.xml
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Expand Up @@ -9,12 +9,10 @@
temperature="368.15"
useMass="1"
useTotalMassEquation="0"
useSimpleAccumulation="1"
targetRegions="{ region }">
<NonlinearSolverParameters
newtonTol="1.0e-5"
newtonMaxIter="100"
maxTimeStepCuts="5"
newtonMaxIter="10"
lineSearchAction="None"/>
<LinearSolverParameters
directParallel="0"/>
Expand Down Expand Up @@ -92,7 +90,7 @@

<PeriodicEvent
name="outputs"
timeFrequency="1e5"
timeFrequency="5e5"
target="/Outputs/vtkOutput"/>

<PeriodicEvent
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<PressurePorosity
name="rockPorosity"
defaultReferencePorosity="0.2"
referencePressure="0.0"
referencePressure="1.1e7"
compressibility="1.0e-9"/>
<ConstantPermeability
name="rockPerm"
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5 changes: 2 additions & 3 deletions inputFiles/compositionalMultiphaseFlow/co2_flux_dirichlet.xml
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Expand Up @@ -11,8 +11,7 @@
targetRegions="{ region }">
<NonlinearSolverParameters
newtonTol="1.0e-4"
newtonMaxIter="100"
maxTimeStepCuts="5"
newtonMaxIter="20"
lineSearchAction="None"/>
<LinearSolverParameters
solverType="fgmres"
Expand Down Expand Up @@ -61,7 +60,7 @@

<PeriodicEvent
name="outputs"
timeFrequency="1e5"
timeFrequency="5e5"
targetExactTimestep="1"
target="/Outputs/vtkOutput" />

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