Merge remote-tracking branch 'mainline/development' into particle_soa…

…_refactor
Thierry992 · Nov 1, 2022 · f1e1d6f · f1e1d6f
2 parents 4dbfbac + c4a4811
commit f1e1d6f
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Showing 284 changed files with 13,950 additions and 6,891 deletions.
diff --git a/.github/workflows/clang.yml b/.github/workflows/clang.yml
@@ -12,13 +12,13 @@ jobs:
   # Build and install libamrex as AMReX CMake project
   # Note: this is an intentional "minimal" build that does not enable (many) options
   library_clang:
-    name: Clang@6.0 C++14 SP NOMPI Debug [lib]
-    runs-on: ubuntu-18.04
-    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code -Wno-c++17-extensions"}
+    name: Clang@7.0 C++17 SP NOMPI Debug [lib]
+    runs-on: ubuntu-20.04
+    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code -Wnon-virtual-dtor"}
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Dependencies
-      run: .github/workflows/dependencies/dependencies_clang6.sh
+      run: .github/workflows/dependencies/dependencies_clang7.sh
     - name: Build & Install
       run: |
         mkdir build
@@ -34,7 +34,6 @@ jobs:
             -DAMReX_PLOTFILE_TOOLS=ON                 \
             -DAMReX_PRECISION=SINGLE                  \
             -DAMReX_PARTICLES_PRECISION=SINGLE        \
-            -DCMAKE_CXX_STANDARD=14                   \
             -DCMAKE_C_COMPILER=$(which clang)         \
             -DCMAKE_CXX_COMPILER=$(which clang++)     \
             -DCMAKE_Fortran_COMPILER=$(which gfortran)
@@ -48,14 +47,14 @@ jobs:
         ctest --output-on-failure
 
   tests_clang:
-    name: Clang@6.0 C++14 SP Particles DP Mesh Debug [tests]
-    runs-on: ubuntu-18.04
-    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code -Wno-c++17-extensions -O1"}
+    name: Clang@7.0 C++17 SP Particles DP Mesh Debug [tests]
+    runs-on: ubuntu-20.04
+    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code -O1 -Wnon-virtual-dtor"}
       # It's too slow with -O0
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Dependencies
-      run: .github/workflows/dependencies/dependencies_clang6.sh
+      run: .github/workflows/dependencies/dependencies_clang7.sh
     - name: Build & Install
       run: |
         mkdir build
@@ -70,7 +69,6 @@ jobs:
             -DAMReX_PARTICLES=ON                      \
             -DAMReX_PRECISION=DOUBLE                  \
             -DAMReX_PARTICLES_PRECISION=SINGLE        \
-            -DCMAKE_CXX_STANDARD=14                   \
             -DCMAKE_C_COMPILER=$(which clang)         \
             -DCMAKE_CXX_COMPILER=$(which clang++)     \
             -DCMAKE_Fortran_COMPILER=$(which gfortran)
@@ -80,14 +78,14 @@ jobs:
 
   # Build 2D libamrex with configure
   configure-2d:
-    name: Clang@6.0 NOMPI Release [configure 2D]
-    runs-on: ubuntu-18.04
+    name: Clang@7.0 NOMPI Release [configure 2D]
+    runs-on: ubuntu-20.04
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Dependencies
-      run: .github/workflows/dependencies/dependencies_clang6.sh
+      run: .github/workflows/dependencies/dependencies_clang7.sh
     - name: Build & Install
       run: |
         ./configure --dim 2 --with-fortran no --comp llvm --with-mpi no
-        make -j2 WARN_ALL=TRUE WARN_ERROR=TRUE XTRA_CXXFLAGS="-fno-operator-names -Wno-c++17-extensions"
+        make -j2 WARN_ALL=TRUE WARN_ERROR=TRUE XTRA_CXXFLAGS="-fno-operator-names"
         make install
diff --git a/.github/workflows/cuda.yml b/.github/workflows/cuda.yml
@@ -7,44 +7,13 @@ concurrency:
   cancel-in-progress: true
 
 jobs:
-  # Build libamrex and all tests with CUDA 10.2
-  tests-cuda10:
-    name: CUDA@10.2 GNU@6.5.0 C++14 Release [tests]
-    runs-on: ubuntu-18.04
-    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wunreachable-code"}
-    steps:
-    - uses: actions/checkout@v2
-    - name: Dependencies
-      run: .github/workflows/dependencies/dependencies_nvcc10.sh
-    - name: Build & Install
-      run: |
-        export PATH=/usr/local/nvidia/bin:/usr/local/cuda/bin:${PATH}
-        export LD_LIBRARY_PATH=/usr/local/nvidia/lib:/usr/local/nvidia/lib64:/usr/local/cuda/lib64:${LD_LIBRARY_PATH}
-        which nvcc || echo "nvcc not in PATH!"
-        mkdir build
-        cd build
-        cmake ..                                           \
-            -DCMAKE_VERBOSE_MAKEFILE=ON                    \
-            -DAMReX_EB=OFF                                 \
-            -DAMReX_ENABLE_TESTS=ON                        \
-            -DAMReX_FORTRAN=OFF                            \
-            -DAMReX_PARTICLES=ON                           \
-            -DAMReX_GPU_BACKEND=CUDA                       \
-            -DCMAKE_C_COMPILER=$(which gcc-6)              \
-            -DCMAKE_CXX_COMPILER=$(which g++-6)            \
-            -DCMAKE_CUDA_HOST_COMPILER=$(which g++-6)      \
-            -DCMAKE_Fortran_COMPILER=$(which gfortran-6)   \
-            -DAMReX_CUDA_ARCH=7.0 \
-            -DAMReX_CUDA_ERROR_CROSS_EXECUTION_SPACE_CALL=ON
-        make -j 2
-
   # Build libamrex and all tests with CUDA 11.0.2 (recent supported)
   tests-cuda11:
     name: CUDA@11.2 GNU@9.3.0 C++17 Release [tests]
     runs-on: ubuntu-20.04
-    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code"}
+    env: {CXXFLAGS: "-fno-operator-names -Werror -Wall -Wextra -Wpedantic -Wnull-dereference -Wfloat-conversion -Wshadow -Woverloaded-virtual -Wextra-semi -Wunreachable-code -Wnon-virtual-dtor -Wlogical-op -Wmisleading-indentation -Wduplicated-cond -Wduplicated-branches"}
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Dependencies
       run: .github/workflows/dependencies/dependencies_nvcc11.sh
     - name: Build & Install
@@ -64,9 +33,7 @@ jobs:
             -DCMAKE_CXX_COMPILER=$(which g++)            \
             -DCMAKE_CUDA_HOST_COMPILER=$(which g++)      \
             -DCMAKE_Fortran_COMPILER=$(which gfortran)   \
-            -DCMAKE_CUDA_STANDARD=17                     \
-            -DCMAKE_CXX_STANDARD=17                      \
-            -DAMReX_CUDA_ARCH=8.0                        \
+            -DAMReX_CUDA_ARCH=7.0                        \
             -DAMReX_CUDA_ERROR_CROSS_EXECUTION_SPACE_CALL=ON \
             -DAMReX_CUDA_ERROR_CAPTURE_THIS=ON
 
@@ -78,7 +45,7 @@ jobs:
     runs-on: ubuntu-20.04
     env: {CXXFLAGS: "-Werror -Wall -Wextra -Wpedantic -Wshadow"}
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Dependencies
       run: .github/workflows/dependencies/dependencies_nvhpc21-11.sh
     - name: Build & Install
@@ -106,8 +73,6 @@ jobs:
             -DCMAKE_CXX_COMPILER=$(which nvc++)          \
             -DCMAKE_CUDA_HOST_COMPILER=$(which nvc++)    \
             -DCMAKE_Fortran_COMPILER=$(which nvfortran)  \
-            -DCMAKE_CUDA_STANDARD=17                     \
-            -DCMAKE_CXX_STANDARD=17                      \
             -DAMReX_CUDA_ARCH=8.0                        \
             -DAMReX_CUDA_ERROR_CROSS_EXECUTION_SPACE_CALL=ON \
             -DAMReX_CUDA_ERROR_CAPTURE_THIS=ON
@@ -119,12 +84,12 @@ jobs:
     name: CUDA@11.2 GNU@9.3.0 [configure 3D]
     runs-on: ubuntu-20.04
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Dependencies
       run: .github/workflows/dependencies/dependencies_nvcc11.sh
     - name: Build & Install
       run: |
         export PATH=/usr/local/nvidia/bin:/usr/local/cuda/bin:${PATH}
         ./configure --dim 3 --with-cuda yes --enable-eb yes --enable-xsdk-defaults yes --with-fortran no
-        make -j2 WARN_ALL=TRUE WARN_ERROR=TRUE XTRA_CXXFLAGS=-fno-operator-names CXXSTD=c++17
+        make -j2 WARN_ALL=TRUE WARN_ERROR=TRUE XTRA_CXXFLAGS=-fno-operator-names
         make install
diff --git a/.github/workflows/dependencies/dependencies.sh b/.github/workflows/dependencies/dependencies.sh
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash
 #
-# Copyright 2020 The AMReX Community
+# Copyright 2020-2022 The AMReX Community
 #
 # License: BSD-3-Clause-LBNL
 # Authors: Axel Huebl

diff --git a/...flows/dependencies/dependencies_clang6.sh → ...flows/dependencies/dependencies_clang7.sh b/...flows/dependencies/dependencies_clang6.sh → ...flows/dependencies/dependencies_clang7.sh
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash
 #
-# Copyright 2020 The AMReX Community
+# Copyright 2020-2022 The AMReX Community
 #
 # License: BSD-3-Clause-LBNL
 # Authors: Axel Huebl
@@ -11,4 +11,4 @@ sudo apt-get update
 
 sudo apt-get install -y  \
     build-essential      \
-    clang gfortran
+    clang-7 gfortran
diff --git a/.github/workflows/dependencies/dependencies_gcc8.sh b/.github/workflows/dependencies/dependencies_gcc8.sh
@@ -0,0 +1,17 @@
+#!/usr/bin/env bash
+#
+# Copyright 2020-2022 The AMReX Community
+#
+# License: BSD-3-Clause-LBNL
+# Authors: Axel Huebl
+
+set -eu -o pipefail
+
+sudo add-apt-repository ppa:ubuntu-toolchain-r/test
+sudo apt-get update
+
+sudo apt-get install -y --no-install-recommends \
+    build-essential    \
+    g++-8 gfortran-8   \
+    libopenmpi-dev     \
+    openmpi-bin
diff --git a/.github/workflows/dependencies/dependencies_nofortran.sh b/.github/workflows/dependencies/dependencies_nofortran.sh
@@ -1,8 +1,9 @@
 #!/usr/bin/env bash
 #
-# Copyright 2020 Axel Huebl
+# Copyright 2020-2022 The AMReX Community
 #
 # License: BSD-3-Clause-LBNL
+# Authors: Axel Huebl
 
 # search recursive inside a folder if a file contains tabs
 #

diff --git a/.github/workflows/dependencies/dependencies_nvcc10.sh b/.github/workflows/dependencies/dependencies_nvcc10.sh
diff --git a/.github/workflows/dependencies/dependencies_nvcc11.sh b/.github/workflows/dependencies/dependencies_nvcc11.sh
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash
 #
-# Copyright 2020 Axel Huebl
+# Copyright 2020-2022 Axel Huebl
 #
 # License: BSD-3-Clause-LBNL
 
@@ -19,9 +19,8 @@ sudo apt-get install -y \
     pkg-config          \
     wget
 
-sudo apt-key adv --fetch-keys https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1804/x86_64/3bf863cc.pub
-echo "deb https://developer.download.nvidia.com/compute/cuda/repos/ubuntu2004/x86_64 /" \
-    | sudo tee /etc/apt/sources.list.d/cuda.list
+curl -O https://developer.download.nvidia.com/compute/cuda/repos/ubuntu2004/x86_64/cuda-keyring_1.0-1_all.deb
+sudo dpkg -i cuda-keyring_1.0-1_all.deb
 sudo apt-get update
 sudo apt-get install -y \
     cuda-command-line-tools-11-2 \

diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml
@@ -11,7 +11,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Checkout
-        uses: actions/checkout@v2.3.1 # If you're using actions/checkout@v2 you must set persist-credentials to false in most cases for the deployment to work correctly.
+        uses: actions/checkout@v3
         with:
           persist-credentials: false