ghex 0.4.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- ghex-0.4.0/.bumpversion.toml +30 -0
- ghex-0.4.0/.clang-format +92 -0
- ghex-0.4.0/.github/workflows/CI.yml +165 -0
- ghex-0.4.0/.github/workflows/pypi_deploy.yml +83 -0
- ghex-0.4.0/.github/workflows/test_pip.yml +83 -0
- ghex-0.4.0/.gitignore +50 -0
- ghex-0.4.0/.gitmodules +12 -0
- ghex-0.4.0/CMakeLists.txt +178 -0
- ghex-0.4.0/CTestConfig.cmake +16 -0
- ghex-0.4.0/LICENSE +33 -0
- ghex-0.4.0/LICENSE_HEADER +9 -0
- ghex-0.4.0/PKG-INFO +54 -0
- ghex-0.4.0/README.md +92 -0
- ghex-0.4.0/benchmarks/CMakeLists.txt +375 -0
- ghex-0.4.0/benchmarks/atlas_halo_exchange_nodecolumns.cpp +314 -0
- ghex-0.4.0/benchmarks/atlas_halo_exchange_nodecolumns.cu +10 -0
- ghex-0.4.0/benchmarks/comm_2_test_halo_exchange_3D_generic_full.cpp +2290 -0
- ghex-0.4.0/benchmarks/comm_2_test_halo_exchange_3D_generic_full.cu +11 -0
- ghex-0.4.0/benchmarks/gcl_test_halo_exchange_3D_generic_full.cpp +2159 -0
- ghex-0.4.0/benchmarks/gcl_test_halo_exchange_3D_generic_full.cu +11 -0
- ghex-0.4.0/benchmarks/simple_comm_test_halo_exchange_3D_generic_full.cpp +2065 -0
- ghex-0.4.0/benchmarks/simple_rma.cpp +368 -0
- ghex-0.4.0/benchmarks/simple_rma.cu +11 -0
- ghex-0.4.0/benchmarks/transport/CMakeLists.txt +54 -0
- ghex-0.4.0/benchmarks/transport/README +25 -0
- ghex-0.4.0/benchmarks/transport/fhex_p2p_bi_cb_avail_mt.f90 +364 -0
- ghex-0.4.0/benchmarks/transport/fhex_p2p_bi_cb_wait_mt.f90 +271 -0
- ghex-0.4.0/benchmarks/transport/fhex_p2p_bi_ft_avail_mt.f90 +338 -0
- ghex-0.4.0/benchmarks/transport/fhex_p2p_bi_ft_wait_mt.f90 +217 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_bi_cb_avail_mt.cpp +311 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_bi_cb_wait_mt.cpp +225 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_bi_ft_avail_mt.cpp +273 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_bi_ft_wait_mt.cpp +178 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_cb_dynamic.cpp +168 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_cb_dynamic_resubmit.cpp +169 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_cb_dynamic_resubmit_mt.cpp +211 -0
- ghex-0.4.0/benchmarks/transport/ghex_p2p_cb_resubmit.cpp +162 -0
- ghex-0.4.0/benchmarks/transport/mpi_p2p_avail_any.cpp +109 -0
- ghex-0.4.0/benchmarks/transport/mpi_p2p_avail_mt.cpp +129 -0
- ghex-0.4.0/benchmarks/transport/mpi_p2p_bi_avail.cpp +119 -0
- ghex-0.4.0/benchmarks/transport/mpi_p2p_bi_avail_mt.cpp +217 -0
- ghex-0.4.0/benchmarks/transport/mpi_p2p_bi_wait_mt.cpp +167 -0
- ghex-0.4.0/benchmarks/transport/pool_allocator.hpp +103 -0
- ghex-0.4.0/benchmarks/transport/results.txt +106 -0
- ghex-0.4.0/benchmarks/transport/results_locks.txt +16 -0
- ghex-0.4.0/benchmarks/transport/results_single.txt +107 -0
- ghex-0.4.0/benchmarks/transport/utils.hpp +37 -0
- ghex-0.4.0/benchmarks/unstructured_parmetis.cpp +814 -0
- ghex-0.4.0/benchmarks/unstructured_parmetis.cu +10 -0
- ghex-0.4.0/bindings/CMakeLists.txt +7 -0
- ghex-0.4.0/bindings/fhex/CMakeLists.txt +48 -0
- ghex-0.4.0/bindings/fhex/context_bind.cpp +92 -0
- ghex-0.4.0/bindings/fhex/context_bind.hpp +24 -0
- ghex-0.4.0/bindings/fhex/cubed_sphere_bind.cpp +203 -0
- ghex-0.4.0/bindings/fhex/ghex_cubed_sphere_mod.f90 +250 -0
- ghex-0.4.0/bindings/fhex/ghex_mod.f90 +38 -0
- ghex-0.4.0/bindings/fhex/ghex_structured_mod.f90 +279 -0
- ghex-0.4.0/bindings/fhex/ghex_unstructured_mod.f90 +212 -0
- ghex-0.4.0/bindings/fhex/obj_wrapper.cpp +21 -0
- ghex-0.4.0/bindings/fhex/obj_wrapper.hpp +62 -0
- ghex-0.4.0/bindings/fhex/structured_bind.cpp +218 -0
- ghex-0.4.0/bindings/fhex/structured_bulk_bind.cpp +279 -0
- ghex-0.4.0/bindings/fhex/structured_staged_bind.cpp +371 -0
- ghex-0.4.0/bindings/fhex/unstructured_bind.cpp +187 -0
- ghex-0.4.0/bindings/python/CMakeLists.txt +2 -0
- ghex-0.4.0/bindings/python/README.md +41 -0
- ghex-0.4.0/bindings/python/requirements-test.txt +13 -0
- ghex-0.4.0/bindings/python/requirements.txt +8 -0
- ghex-0.4.0/bindings/python/src/_pyghex/CMakeLists.txt +70 -0
- ghex-0.4.0/bindings/python/src/_pyghex/config.cpp +95 -0
- ghex-0.4.0/bindings/python/src/_pyghex/context_shim.cpp +59 -0
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- ghex-0.4.0/bindings/python/src/_pyghex/module.cpp +62 -0
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- ghex-0.4.0/bindings/python/src/_pyghex/register_class.hpp +31 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/communication_object.cpp +91 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/communication_object.hpp +117 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/domain_descriptor.cpp +74 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/domain_descriptor.hpp +40 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/field_descriptor.cpp +175 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/field_descriptor.hpp +40 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/halo_generator.cpp +75 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/halo_generator.hpp +38 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/pattern.cpp +78 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/regular/pattern.hpp +50 -0
- ghex-0.4.0/bindings/python/src/_pyghex/structured/types.hpp +83 -0
- ghex-0.4.0/bindings/python/src/_pyghex/types.hpp +24 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/communication_object.cpp +90 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/communication_object.hpp +29 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/domain_descriptor.cpp +59 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/domain_descriptor.hpp +29 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/field_descriptor.cpp +187 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/field_descriptor.hpp +31 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/halo_generator.cpp +44 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/halo_generator.hpp +30 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/pattern.cpp +79 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/pattern.hpp +41 -0
- ghex-0.4.0/bindings/python/src/_pyghex/unstructured/types.hpp +29 -0
- ghex-0.4.0/bindings/python/src/_pyghex/util/demangle.hpp +66 -0
- ghex-0.4.0/bindings/python/src/_pyghex/util/to_string.hpp +21 -0
- ghex-0.4.0/bindings/python/src/ghex/CMakeLists.txt +17 -0
- ghex-0.4.0/bindings/python/src/ghex/__init__.py +35 -0
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- ghex-0.4.0/bindings/python/src/ghex/pyghex/__init__.py +17 -0
- ghex-0.4.0/bindings/python/src/ghex/structured/__init__.py +9 -0
- ghex-0.4.0/bindings/python/src/ghex/structured/cartesian_sets.py +745 -0
- ghex-0.4.0/bindings/python/src/ghex/structured/regular.py +155 -0
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- ghex-0.4.0/ext/googletest/.clang-format +4 -0
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|
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atlas: "ON",
|
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|
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parmetis: "ON",
|
|
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|
+
backend: "MPI",
|
|
30
|
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}
|
|
31
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+
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- {
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|
+
name: "cpu-gcc-ucx-atlas-parmetis",
|
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|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis",
|
|
35
|
+
cc: "gcc",
|
|
36
|
+
cxx: "g++",
|
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|
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fortran: "ON",
|
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|
+
gpu: "OFF",
|
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|
+
gpu_type: "AUTO",
|
|
40
|
+
run: "ON",
|
|
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|
+
atlas: "ON",
|
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parmetis: "ON",
|
|
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|
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backend: "UCX",
|
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|
+
}
|
|
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|
+
|
|
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+
- {
|
|
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|
+
name: "cpu-clang-mpi-atlas-parmetis",
|
|
48
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis-hip",
|
|
49
|
+
cc: "/opt/rocm/llvm/bin/clang",
|
|
50
|
+
cxx: "/opt/rocm/llvm/bin/clang++",
|
|
51
|
+
fortran: "OFF",
|
|
52
|
+
gpu: "OFF",
|
|
53
|
+
gpu_type: "AUTO",
|
|
54
|
+
run: "ON",
|
|
55
|
+
atlas: "ON",
|
|
56
|
+
parmetis: "ON",
|
|
57
|
+
backend: "MPI",
|
|
58
|
+
}
|
|
59
|
+
|
|
60
|
+
- {
|
|
61
|
+
name: "cpu-clang-ucx-atlas-parmetis",
|
|
62
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis-hip",
|
|
63
|
+
cc: "/opt/rocm/llvm/bin/clang",
|
|
64
|
+
cxx: "/opt/rocm/llvm/bin/clang++",
|
|
65
|
+
fortran: "OFF",
|
|
66
|
+
gpu: "OFF",
|
|
67
|
+
gpu_type: "AUTO",
|
|
68
|
+
run: "ON",
|
|
69
|
+
atlas: "ON",
|
|
70
|
+
parmetis: "ON",
|
|
71
|
+
backend: "UCX",
|
|
72
|
+
}
|
|
73
|
+
|
|
74
|
+
- {
|
|
75
|
+
name: "gpu-hip-mpi-atlas-parmetis",
|
|
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|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis-hip",
|
|
77
|
+
cc: "/opt/rocm/llvm/bin/clang",
|
|
78
|
+
cxx: "/opt/rocm/llvm/bin/clang++",
|
|
79
|
+
fortran: "OFF",
|
|
80
|
+
gpu: "ON",
|
|
81
|
+
gpu_type: "AMD",
|
|
82
|
+
run: "OFF",
|
|
83
|
+
atlas: "ON",
|
|
84
|
+
parmetis: "ON",
|
|
85
|
+
backend: "MPI",
|
|
86
|
+
}
|
|
87
|
+
|
|
88
|
+
- {
|
|
89
|
+
name: "gpu-cuda-mpi-atlas-parmetis",
|
|
90
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis-cuda-11",
|
|
91
|
+
cc: "gcc",
|
|
92
|
+
cxx: "g++",
|
|
93
|
+
fortran: "ON",
|
|
94
|
+
gpu: "ON",
|
|
95
|
+
gpu_type: "NVIDIA",
|
|
96
|
+
run: "OFF",
|
|
97
|
+
atlas: "ON",
|
|
98
|
+
parmetis: "ON",
|
|
99
|
+
backend: "MPI",
|
|
100
|
+
}
|
|
101
|
+
|
|
102
|
+
env:
|
|
103
|
+
CC: ${{ matrix.config.cc }}
|
|
104
|
+
CXX: ${{ matrix.config.cxx }}
|
|
105
|
+
GHEX_USE_GPU: ${{ matrix.config.gpu }}
|
|
106
|
+
GHEX_GPU_TYPE: ${{ matrix.config.gpu_type }}
|
|
107
|
+
eckit_DIR: ${{ matrix.eckit }}
|
|
108
|
+
Atlas_DIR: ${{ matrix.atlas }}
|
|
109
|
+
SHLVL: "1"
|
|
110
|
+
OMPI_ALLOW_RUN_AS_ROOT: "1"
|
|
111
|
+
OMPI_ALLOW_RUN_AS_ROOT_CONFIRM: "1"
|
|
112
|
+
CTEST_OUTPUT_ON_FAILURE: "1"
|
|
113
|
+
UCX_DIR: "/opt/ucx"
|
|
114
|
+
#ECKIT_DIR: "/opt/eckit"
|
|
115
|
+
#ATLAS_DIR: "/opt/atlas"
|
|
116
|
+
METIS_INCLUDE_DIR: "/opt/metis/include"
|
|
117
|
+
METIS_LIB_DIR: "/opt/metis/lib"
|
|
118
|
+
PARMETIS_INCLUDE_DIR: "/opt/parmetis/include"
|
|
119
|
+
PARMETIS_LIB_DIR: "/opt/parmetis/lib"
|
|
120
|
+
|
|
121
|
+
|
|
122
|
+
steps:
|
|
123
|
+
- name: Install packages
|
|
124
|
+
run: |
|
|
125
|
+
apt update
|
|
126
|
+
apt-get -y install python3-dev python3-venv python3-pybind11 ninja-build
|
|
127
|
+
|
|
128
|
+
- name: Clone w/ submodules
|
|
129
|
+
uses: actions/checkout@v3
|
|
130
|
+
with:
|
|
131
|
+
submodules: recursive
|
|
132
|
+
|
|
133
|
+
- name: Configure
|
|
134
|
+
run: |
|
|
135
|
+
mkdir -p build
|
|
136
|
+
cd build
|
|
137
|
+
cmake .. \
|
|
138
|
+
-GNinja \
|
|
139
|
+
-DCMAKE_BUILD_TYPE=Debug \
|
|
140
|
+
-DGHEX_GIT_SUBMODULE=OFF \
|
|
141
|
+
-DGHEX_USE_BUNDLED_LIBS=ON \
|
|
142
|
+
-DGHEX_USE_BUNDLED_GRIDTOOLS=ON \
|
|
143
|
+
-DUCX_DIR=${UCX_DIR} \
|
|
144
|
+
-DGHEX_TRANSPORT_BACKEND=${{ matrix.config.backend }} \
|
|
145
|
+
-DGHEX_USE_BUNDLED_OOMPH=ON \
|
|
146
|
+
-DGHEX_WITH_TESTING=ON \
|
|
147
|
+
-DGHEX_BUILD_PYTHON_BINDINGS=ON \
|
|
148
|
+
-DGHEX_BUILD_FORTRAN=${{ matrix.config.fortran }} \
|
|
149
|
+
-DGHEX_ENABLE_ATLAS_BINDINGS=${{ matrix.config.atlas }} \
|
|
150
|
+
-DGHEX_ENABLE_PARMETIS_BINDINGS=${{ matrix.config.parmetis }} \
|
|
151
|
+
-DMETIS_INCLUDE_DIR=${METIS_INCLUDE_DIR} \
|
|
152
|
+
-DMETIS_LIB_DIR=${METIS_LIB_DIR} \
|
|
153
|
+
-DPARMETIS_INCLUDE_DIR=${PARMETIS_INCLUDE_DIR} \
|
|
154
|
+
-DPARMETIS_LIB_DIR=${PARMETIS_LIB_DIR} \
|
|
155
|
+
-DMPIEXEC_PREFLAGS=--oversubscribe \
|
|
156
|
+
-DGHEX_USE_GPU=${{ matrix.config.gpu }} \
|
|
157
|
+
-DGHEX_GPU_TYPE=${{ matrix.config.gpu_type }}
|
|
158
|
+
|
|
159
|
+
- name: Build
|
|
160
|
+
run: cmake --build build --parallel 4
|
|
161
|
+
|
|
162
|
+
- if: ${{ matrix.config.run == 'ON' }}
|
|
163
|
+
name: Execute tests
|
|
164
|
+
run: cd build && ctest
|
|
165
|
+
|
|
@@ -0,0 +1,83 @@
|
|
|
1
|
+
name: Deploy Python Distribution
|
|
2
|
+
|
|
3
|
+
on:
|
|
4
|
+
push:
|
|
5
|
+
branches: [master]
|
|
6
|
+
pull_request:
|
|
7
|
+
branches: [master]
|
|
8
|
+
release:
|
|
9
|
+
types: [published]
|
|
10
|
+
workflow_dispatch:
|
|
11
|
+
|
|
12
|
+
jobs:
|
|
13
|
+
build:
|
|
14
|
+
name: Build Python distribution
|
|
15
|
+
runs-on: ubuntu-latest
|
|
16
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis"
|
|
17
|
+
steps:
|
|
18
|
+
- uses: actions/checkout@v4
|
|
19
|
+
with:
|
|
20
|
+
submodules: recursive
|
|
21
|
+
- name: Set up Python 3.10
|
|
22
|
+
uses: actions/setup-python@v5
|
|
23
|
+
with:
|
|
24
|
+
python-version: "3.10"
|
|
25
|
+
- name: Install pypa/build
|
|
26
|
+
run: |
|
|
27
|
+
python -m pip install build --user
|
|
28
|
+
- name: Build source tarball
|
|
29
|
+
run: |
|
|
30
|
+
python -m build --sdist --outdir dist/
|
|
31
|
+
- name: Test sdist
|
|
32
|
+
run: |
|
|
33
|
+
python -m venv .venv
|
|
34
|
+
. .venv/bin/activate
|
|
35
|
+
python -m pip install -r ./bindings/python/requirements-test.txt # before ghex installation to avoid mpi4py version conflict
|
|
36
|
+
python -m pip install dist/*.tar.gz
|
|
37
|
+
python -c "import ghex"
|
|
38
|
+
python -m pytest -s ./test/bindings/python/
|
|
39
|
+
- name: Upload artifact
|
|
40
|
+
uses: actions/upload-artifact@v4
|
|
41
|
+
with:
|
|
42
|
+
name: ghex-dist
|
|
43
|
+
path: ./dist/**
|
|
44
|
+
# publish-pypi:
|
|
45
|
+
# name: Publish Python distribution to pypi.org
|
|
46
|
+
# runs-on: ubuntu-latest
|
|
47
|
+
# needs: build
|
|
48
|
+
# if: ${{ github.event_name == 'workflow_dispatch' }} # the action was triggered manually
|
|
49
|
+
# environment:
|
|
50
|
+
# name: pypi
|
|
51
|
+
# url: https://pypi.org/project/ghex
|
|
52
|
+
# permissions:
|
|
53
|
+
# id-token: write
|
|
54
|
+
# steps:
|
|
55
|
+
# - name: Download wheel
|
|
56
|
+
# uses: actions/download-artifact@v3
|
|
57
|
+
# with:
|
|
58
|
+
# name: ghex-dist
|
|
59
|
+
# path: dist
|
|
60
|
+
# - name: Publish distribution to PyPI
|
|
61
|
+
# uses: pypa/gh-action-pypi-publish@release/v1
|
|
62
|
+
publish-test-pypi:
|
|
63
|
+
name: Publish Python distribution to test.pypi.org
|
|
64
|
+
runs-on: ubuntu-latest
|
|
65
|
+
needs: build
|
|
66
|
+
if: ${{ github.event_name == 'workflow_dispatch' }} # TODO: once working, enable line below
|
|
67
|
+
# if: ${{ github.event_name == 'release' }} # triggered by releasing on github, test first before manually triggering the deployment to PyPI (see release documentation)
|
|
68
|
+
environment:
|
|
69
|
+
name: testpypi
|
|
70
|
+
url: https://test.pypi.org/project/ghex/
|
|
71
|
+
permissions:
|
|
72
|
+
id-token: write
|
|
73
|
+
steps:
|
|
74
|
+
- name: Download wheel
|
|
75
|
+
uses: actions/download-artifact@v4
|
|
76
|
+
with:
|
|
77
|
+
name: ghex-dist
|
|
78
|
+
path: dist
|
|
79
|
+
- name: Publish distribution to Test PyPI
|
|
80
|
+
uses: pypa/gh-action-pypi-publish@release/v1
|
|
81
|
+
with:
|
|
82
|
+
repository-url: https://test.pypi.org/legacy/
|
|
83
|
+
verbose: true
|
|
@@ -0,0 +1,83 @@
|
|
|
1
|
+
name: Test pip
|
|
2
|
+
|
|
3
|
+
on:
|
|
4
|
+
push:
|
|
5
|
+
pull_request:
|
|
6
|
+
branches: [ master ]
|
|
7
|
+
|
|
8
|
+
jobs:
|
|
9
|
+
test-pip:
|
|
10
|
+
name: "Install ghex through pip"
|
|
11
|
+
runs-on: ubuntu-latest
|
|
12
|
+
container: ${{ matrix.config.container }}
|
|
13
|
+
|
|
14
|
+
strategy:
|
|
15
|
+
matrix:
|
|
16
|
+
config:
|
|
17
|
+
- {
|
|
18
|
+
name: "cpu",
|
|
19
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis",
|
|
20
|
+
cc: "gcc",
|
|
21
|
+
cxx: "g++",
|
|
22
|
+
gpu: "OFF",
|
|
23
|
+
gpu_type: "AUTO",
|
|
24
|
+
run: "ON",
|
|
25
|
+
}
|
|
26
|
+
|
|
27
|
+
- {
|
|
28
|
+
name: "gpu-cuda",
|
|
29
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis-cuda-11",
|
|
30
|
+
cc: "gcc",
|
|
31
|
+
cxx: "g++",
|
|
32
|
+
gpu: "ON",
|
|
33
|
+
gpu_type: "NVIDIA",
|
|
34
|
+
run: "OFF",
|
|
35
|
+
}
|
|
36
|
+
|
|
37
|
+
- {
|
|
38
|
+
name: "gpu-hip",
|
|
39
|
+
container: "ghcr.io/gridtools/gridtools-base:gcc-9-ucx-mpi-atlas-parmetis-hip",
|
|
40
|
+
cc: "/opt/rocm/llvm/bin/clang",
|
|
41
|
+
cxx: "/opt/rocm/llvm/bin/clang++",
|
|
42
|
+
gpu: "ON",
|
|
43
|
+
gpu_type: "AMD",
|
|
44
|
+
run: "OFF",
|
|
45
|
+
}
|
|
46
|
+
|
|
47
|
+
env:
|
|
48
|
+
CC: ${{ matrix.config.cc }}
|
|
49
|
+
CXX: ${{ matrix.config.cxx }}
|
|
50
|
+
GHEX_USE_GPU: ${{ matrix.config.gpu }}
|
|
51
|
+
GHEX_GPU_TYPE: ${{ matrix.config.gpu_type }}
|
|
52
|
+
SHLVL: "1"
|
|
53
|
+
OMPI_ALLOW_RUN_AS_ROOT: "1"
|
|
54
|
+
OMPI_ALLOW_RUN_AS_ROOT_CONFIRM: "1"
|
|
55
|
+
|
|
56
|
+
steps:
|
|
57
|
+
- name: Install python
|
|
58
|
+
run: |
|
|
59
|
+
apt update
|
|
60
|
+
apt-get -y install python3-dev python3-venv python3-pybind11
|
|
61
|
+
|
|
62
|
+
- name: Clone w/ submodules
|
|
63
|
+
uses: actions/checkout@v3
|
|
64
|
+
with:
|
|
65
|
+
submodules: recursive
|
|
66
|
+
|
|
67
|
+
- name: Setup venv
|
|
68
|
+
run: |
|
|
69
|
+
python3 -m venv ~/env
|
|
70
|
+
|
|
71
|
+
- name: Build and install ghex
|
|
72
|
+
run: |
|
|
73
|
+
. ~/env/bin/activate
|
|
74
|
+
python3 -m pip install --upgrade pip
|
|
75
|
+
python3 -m pip install -r ./bindings/python/requirements-test.txt # before ghex installation to avoid mpi4py version conflict
|
|
76
|
+
python3 -m pip install -v .
|
|
77
|
+
|
|
78
|
+
- if: ${{ matrix.config.run == 'ON' }}
|
|
79
|
+
name: Run Python tests
|
|
80
|
+
run: |
|
|
81
|
+
. ~/env/bin/activate
|
|
82
|
+
python3 -m pytest -s ./test/bindings/python/
|
|
83
|
+
mpirun --oversubscribe -np 4 python3 -m pytest -s --with-mpi ./test/bindings/python/
|
ghex-0.4.0/.gitignore
ADDED
|
@@ -0,0 +1,50 @@
|
|
|
1
|
+
# Prerequisites
|
|
2
|
+
*.d
|
|
3
|
+
|
|
4
|
+
# Compiled Object files
|
|
5
|
+
*.slo
|
|
6
|
+
*.lo
|
|
7
|
+
*.o
|
|
8
|
+
*.obj
|
|
9
|
+
|
|
10
|
+
# Precompiled Headers
|
|
11
|
+
*.gch
|
|
12
|
+
*.pch
|
|
13
|
+
|
|
14
|
+
# Compiled Dynamic libraries
|
|
15
|
+
*.so
|
|
16
|
+
*.dylib
|
|
17
|
+
*.dll
|
|
18
|
+
|
|
19
|
+
# Fortran module files
|
|
20
|
+
*.mod
|
|
21
|
+
*.smod
|
|
22
|
+
|
|
23
|
+
# Compiled Static libraries
|
|
24
|
+
*.lai
|
|
25
|
+
*.la
|
|
26
|
+
*.a
|
|
27
|
+
*.lib
|
|
28
|
+
|
|
29
|
+
# Executables
|
|
30
|
+
*.exe
|
|
31
|
+
*.out
|
|
32
|
+
*.app
|
|
33
|
+
|
|
34
|
+
# Temporaries
|
|
35
|
+
*.swp
|
|
36
|
+
*.swo
|
|
37
|
+
*~
|
|
38
|
+
|
|
39
|
+
CMakeCache.txt
|
|
40
|
+
CMakeFiles
|
|
41
|
+
.vscode
|
|
42
|
+
build
|
|
43
|
+
bin
|
|
44
|
+
lib/
|
|
45
|
+
pyvenv.cfg
|
|
46
|
+
doc_src/__pycache__
|
|
47
|
+
doc_src/_build/
|
|
48
|
+
__pycache__
|
|
49
|
+
_build
|
|
50
|
+
.venv*/
|
ghex-0.4.0/.gitmodules
ADDED
|
@@ -0,0 +1,12 @@
|
|
|
1
|
+
[submodule "ext/gridtools"]
|
|
2
|
+
path = ext/gridtools
|
|
3
|
+
url = https://github.com/GridTools/gridtools.git
|
|
4
|
+
branch = v2.3.2
|
|
5
|
+
[submodule "ext/googletest"]
|
|
6
|
+
path = ext/googletest
|
|
7
|
+
url = https://github.com/google/googletest.git
|
|
8
|
+
branch = v1.14.0
|
|
9
|
+
[submodule "ext/oomph"]
|
|
10
|
+
path = ext/oomph
|
|
11
|
+
url = https://github.com/ghex-org/oomph.git
|
|
12
|
+
branch = main
|
|
@@ -0,0 +1,178 @@
|
|
|
1
|
+
cmake_minimum_required(VERSION 3.21)
|
|
2
|
+
|
|
3
|
+
if (NOT ${CMAKE_VERSION} VERSION_LESS 3.27)
|
|
4
|
+
# new in 3.27: additionally use uppercase <PACKAGENAME>_ROOT
|
|
5
|
+
# environment and CMake variables for find_package
|
|
6
|
+
cmake_policy(SET CMP0144 NEW)
|
|
7
|
+
set(CMAKE_POLICY_DEFAULT_CMP0144 NEW)
|
|
8
|
+
endif()
|
|
9
|
+
|
|
10
|
+
set(GHEX_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}/cmake")
|
|
11
|
+
list(APPEND CMAKE_MODULE_PATH "${GHEX_MODULE_PATH}")
|
|
12
|
+
|
|
13
|
+
include(ghex_version)
|
|
14
|
+
# note: version should not be changed manually, use bump-my-version instead:
|
|
15
|
+
# install: pip install bump-my-version
|
|
16
|
+
# example: bump-my-version bump patch
|
|
17
|
+
make_version(GHEX 0 4 0)
|
|
18
|
+
|
|
19
|
+
project(GHEX VERSION ${GHEX_VERSION} LANGUAGES C CXX)
|
|
20
|
+
|
|
21
|
+
# ---------------------------------------------------------------------
|
|
22
|
+
# CMake setup, C++ version, build type, modules, etc
|
|
23
|
+
# ---------------------------------------------------------------------
|
|
24
|
+
set(CMAKE_CXX_STANDARD 17)
|
|
25
|
+
set(CMAKE_CXX_EXTENSIONS OFF)
|
|
26
|
+
if(NOT CMAKE_BUILD_TYPE) # AND NOT CMAKE_CONFIGURATION_TYPES)
|
|
27
|
+
set(CMAKE_BUILD_TYPE "Release" CACHE STRING "Choose the type of build." FORCE)
|
|
28
|
+
set_property(CACHE CMAKE_BUILD_TYPE PROPERTY STRINGS "Debug" "Release" "MinSizeRel" "RelWithDebInfo")
|
|
29
|
+
endif()
|
|
30
|
+
|
|
31
|
+
# Position Independent Code (PIC) option
|
|
32
|
+
set(POSITION_INDEPENDENT_CODE ON)
|
|
33
|
+
|
|
34
|
+
# Set the output directory
|
|
35
|
+
set(CMAKE_RUNTIME_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/bin)
|
|
36
|
+
|
|
37
|
+
# Set the library and archive output directories
|
|
38
|
+
set(CMAKE_LIBRARY_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/lib)
|
|
39
|
+
set(CMAKE_ARCHIVE_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/lib)
|
|
40
|
+
|
|
41
|
+
# ---------------------------------------------------------------------
|
|
42
|
+
# GHEX options
|
|
43
|
+
# ---------------------------------------------------------------------
|
|
44
|
+
option(GHEX_GIT_SUBMODULE "Check submodules during build" OFF)
|
|
45
|
+
option(GHEX_USE_BUNDLED_LIBS "Use bundled 3rd party libraries" OFF)
|
|
46
|
+
set(GHEX_NO_RMA OFF CACHE BOOL "Disable in-node RMA completely")
|
|
47
|
+
set(GHEX_USE_XPMEM OFF CACHE BOOL "Set to true to use xpmem shared memory")
|
|
48
|
+
set(GHEX_USE_XPMEM_ACCESS_GUARD OFF CACHE BOOL "Use xpmem to synchronize rma access")
|
|
49
|
+
mark_as_advanced(GHEX_USE_XPMEM_ACCESS_GUARD)
|
|
50
|
+
set(GHEX_ENABLE_PARMETIS_BINDINGS OFF CACHE BOOL "Set to true to build with ParMETIS bindings")
|
|
51
|
+
set(GHEX_ENABLE_ATLAS_BINDINGS OFF CACHE BOOL "Set to true to build with Atlas bindings")
|
|
52
|
+
set(GHEX_BUILD_FORTRAN OFF CACHE BOOL "True if FORTRAN bindings shall be built")
|
|
53
|
+
set(GHEX_BUILD_PYTHON_BINDINGS OFF CACHE BOOL "Set to true to build Python bindings")
|
|
54
|
+
set(GHEX_WITH_TESTING OFF CACHE BOOL "True if tests shall be built")
|
|
55
|
+
|
|
56
|
+
# ---------------------------------------------------------------------
|
|
57
|
+
# Common includes
|
|
58
|
+
# ---------------------------------------------------------------------
|
|
59
|
+
include(ghex_device)
|
|
60
|
+
include(ghex_compile_options)
|
|
61
|
+
include(ghex_copy_files)
|
|
62
|
+
include(ghex_reg_test)
|
|
63
|
+
|
|
64
|
+
# ---------------------------------------------------------------------
|
|
65
|
+
# Define main library
|
|
66
|
+
# ---------------------------------------------------------------------
|
|
67
|
+
include(ghex_common)
|
|
68
|
+
|
|
69
|
+
# ---------------------------------------------------------------------
|
|
70
|
+
# Dependencies
|
|
71
|
+
# ---------------------------------------------------------------------
|
|
72
|
+
include(ghex_external_dependencies)
|
|
73
|
+
target_link_libraries(ghex_common INTERFACE MPI::MPI_CXX)
|
|
74
|
+
target_link_libraries(ghex_common INTERFACE Boost::boost)
|
|
75
|
+
target_link_libraries(ghex_common INTERFACE GridTools::gridtools)
|
|
76
|
+
target_link_libraries(ghex_common INTERFACE oomph::oomph)
|
|
77
|
+
target_link_libraries(ghex PRIVATE MPI::MPI_CXX)
|
|
78
|
+
if (UNIX AND NOT APPLE)
|
|
79
|
+
target_link_libraries(ghex PUBLIC ${LIBRT})
|
|
80
|
+
endif()
|
|
81
|
+
target_link_libraries(ghex INTERFACE oomph::oomph)
|
|
82
|
+
if (GHEX_USE_XPMEM)
|
|
83
|
+
target_link_libraries(ghex_common INTERFACE XPMEM::libxpmem)
|
|
84
|
+
target_link_libraries(ghex PRIVATE XPMEM::libxpmem)
|
|
85
|
+
endif()
|
|
86
|
+
|
|
87
|
+
# ---------------------------------------------------------------------
|
|
88
|
+
# include paths
|
|
89
|
+
# ---------------------------------------------------------------------
|
|
90
|
+
target_include_directories(ghex_common INTERFACE
|
|
91
|
+
$<INSTALL_INTERFACE:include>
|
|
92
|
+
$<BUILD_INTERFACE:${CMAKE_CURRENT_SOURCE_DIR}/include>
|
|
93
|
+
$<BUILD_INTERFACE:${CMAKE_CURRENT_BINARY_DIR}/include>)
|
|
94
|
+
|
|
95
|
+
# ---------------------------------------------------------------------
|
|
96
|
+
# main src subdir
|
|
97
|
+
# ---------------------------------------------------------------------
|
|
98
|
+
add_subdirectory(src)
|
|
99
|
+
|
|
100
|
+
# ---------------------------------------------------------------------
|
|
101
|
+
# generate config file
|
|
102
|
+
# ---------------------------------------------------------------------
|
|
103
|
+
configure_file(${CMAKE_CURRENT_SOURCE_DIR}/cmake/config.hpp.in
|
|
104
|
+
${CMAKE_CURRENT_BINARY_DIR}/include/ghex/config.hpp @ONLY)
|
|
105
|
+
install(FILES ${PROJECT_BINARY_DIR}/include/ghex/config.hpp
|
|
106
|
+
DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}/ghex)
|
|
107
|
+
configure_file(${CMAKE_CURRENT_SOURCE_DIR}/cmake/ghex_version.txt.in
|
|
108
|
+
${CMAKE_CURRENT_BINARY_DIR}/version.txt @ONLY)
|
|
109
|
+
|
|
110
|
+
# ---------------------------------------------------------------------
|
|
111
|
+
# fortran bindings
|
|
112
|
+
# ---------------------------------------------------------------------
|
|
113
|
+
include(ghex_fortran)
|
|
114
|
+
|
|
115
|
+
# ---------------------------------------------------------------------
|
|
116
|
+
# python bindings
|
|
117
|
+
# ---------------------------------------------------------------------
|
|
118
|
+
include(ghex_python)
|
|
119
|
+
|
|
120
|
+
# bindings
|
|
121
|
+
add_subdirectory(bindings)
|
|
122
|
+
|
|
123
|
+
# ---------------------------------------------------------------------
|
|
124
|
+
# testing
|
|
125
|
+
# ---------------------------------------------------------------------
|
|
126
|
+
if (GHEX_WITH_TESTING)
|
|
127
|
+
enable_testing()
|
|
128
|
+
add_subdirectory(test)
|
|
129
|
+
endif()
|
|
130
|
+
|
|
131
|
+
# ---------------------------------------------------------------------
|
|
132
|
+
# benchmarks
|
|
133
|
+
# ---------------------------------------------------------------------
|
|
134
|
+
|
|
135
|
+
# ---------------------------------------------------------------------
|
|
136
|
+
# installation
|
|
137
|
+
# ---------------------------------------------------------------------
|
|
138
|
+
install(EXPORT ghex-targets
|
|
139
|
+
FILE ghex-targets.cmake
|
|
140
|
+
NAMESPACE GHEX::
|
|
141
|
+
DESTINATION ${CMAKE_INSTALL_LIBDIR}/cmake)
|
|
142
|
+
|
|
143
|
+
configure_package_config_file(${CMAKE_CURRENT_SOURCE_DIR}/cmake/ghex_config.cmake.in
|
|
144
|
+
${CMAKE_CURRENT_BINARY_DIR}/GHEXConfig.cmake
|
|
145
|
+
INSTALL_DESTINATION ${CMAKE_INSTALL_LIBDIR}/cmake)
|
|
146
|
+
|
|
147
|
+
write_basic_package_version_file(GHEXConfigVersion.cmake
|
|
148
|
+
VERSION ${PROJECT_VERSION} COMPATIBILITY SameMajorVersion)
|
|
149
|
+
|
|
150
|
+
install(
|
|
151
|
+
FILES
|
|
152
|
+
${CMAKE_CURRENT_BINARY_DIR}/GHEXConfig.cmake
|
|
153
|
+
${CMAKE_CURRENT_BINARY_DIR}/GHEXConfigVersion.cmake
|
|
154
|
+
${CMAKE_CURRENT_LIST_DIR}/cmake/FindXPMEM.cmake
|
|
155
|
+
DESTINATION
|
|
156
|
+
${CMAKE_INSTALL_LIBDIR}/cmake)
|
|
157
|
+
|
|
158
|
+
install(
|
|
159
|
+
FILES "${PROJECT_SOURCE_DIR}/LICENSE"
|
|
160
|
+
DESTINATION ${CMAKE_INSTALL_DATADIR}/ghex
|
|
161
|
+
COMPONENT license
|
|
162
|
+
)
|
|
163
|
+
|
|
164
|
+
export(EXPORT ghex-targets
|
|
165
|
+
FILE "${CMAKE_CURRENT_BINARY_DIR}/ghex-targets.cmake")
|
|
166
|
+
|
|
167
|
+
# set rpaths for bundled oomph libraries
|
|
168
|
+
if(GHEX_USE_BUNDLED_OOMPH)
|
|
169
|
+
include(ghex_rpath)
|
|
170
|
+
set_target_properties(ghex PROPERTIES INSTALL_RPATH "${rpath_origin}")
|
|
171
|
+
if (GHEX_TRANSPORT_BACKEND STREQUAL "LIBFABRIC")
|
|
172
|
+
set_target_properties(oomph_libfabric PROPERTIES INSTALL_RPATH "${rpath_origin}")
|
|
173
|
+
elseif (GHEX_TRANSPORT_BACKEND STREQUAL "UCX")
|
|
174
|
+
set_target_properties(oomph_ucx PROPERTIES INSTALL_RPATH "${rpath_origin}")
|
|
175
|
+
else()
|
|
176
|
+
set_target_properties(oomph_mpi PROPERTIES INSTALL_RPATH "${rpath_origin}")
|
|
177
|
+
endif()
|
|
178
|
+
endif()
|