Diffusion App

.github/workflows/regression.yaml

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+name: Regression Tests
+
+on:
+  schedule:
+    - cron: "0 0 * * *"
+  push:
+    branches: [main]
+  workflow_dispatch:
+  pull_request:
+    branches:
+      - main
+
+jobs:
+  run-tests:
+    runs-on: [self-hosted]
+    strategy:
+      fail-fast: false
+    steps:
+      - name: checkout testapp
+        uses: actions/checkout@v4
+      - name: checkout opensn
+        uses: actions/checkout@v4
+        with:
+          repository: Open-Sn/opensn
+          path: opensn
+      - name: install opensn
+        shell: bash
+        run: |
+          module load opensn/clang/17 python3/3.12.3
+          cd opensn && mkdir build && mkdir install && cd build 
+          cmake -DOPENSN_WITH_PYTHON=True -DCMAKE_INSTALL_PREFIX=../install .. && make -j && make install
+      - name: compile app
+        shell: bash
+        run: |
+          module load opensn/clang/17 python3/3.12.3
+          cd OpenSnApp && mkdir build && cd build
+          cmake -DCMAKE_PREFIX_PATH=../../opensn/install .. && make -j
+      - name: test examples
+        shell: bash
+        run: |
+          module load opensn/clang/17 python3/3.12.3
+          test/run_tests -d test/diffusion -j 32 -v 1 -w 3

.gitignore

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+.git
+cmake-build-debug/
+cmake-build-debug
+.idea
+bin
+build*/
+
+# root Makefile is generated by CMake automatically
+Makefile
+
+# Latex compile files
+*.aux
+*.lof
+*.log
+*.lot
+*.synctex.gz
+*.toc
+*.pdf
+
+# All vtk mesh files
+/*.vtu
+/*.pvtu
+
+# All exodus files
+/*.e
+
+# python files
+.DS_Store
+._.DS_Store
+*.pyc
+*.pmesh
+__pycache__
+**/__pycache__
+
+*-private.sh
+
+#visual studio code files
+.vscode/
+
+test/**/out/
+
+#Scratch directory
+scratch/

CMakeLists.txt

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+cmake_minimum_required(VERSION 3.14)
+project(OpenSnApp LANGUAGES C CXX)
+
+find_package(MPI REQUIRED)
+find_package(VTK REQUIRED COMPONENTS
+    CommonCore
+    CommonDataModel
+    IOLegacy
+    IOCore
+    IOXML
+    ParallelCore
+    IOParallelXML
+    FiltersCore
+    IOEnSight
+    IOExodus
+)
+find_package(OpenSn REQUIRED)
+
+find_package(pybind11 REQUIRED)
+
+find_package(caliper REQUIRED)
+
+find_package(Python REQUIRED COMPONENTS Interpreter Development)
+
+file(GLOB_RECURSE DIFFUSION_SRCS CONFIGURE_DEPENDS ${PROJECT_SOURCE_DIR}/src/diffusion/*.cc)
+
+# Python module
+add_library(diffapp MODULE
+    src/main.cc
+    src/diff_py_app.cc
+    src/diffusion.cc
+    ${DIFFUSION_SRCS}
+)
+
+execute_process(
+    COMMAND python3 -m pybind11 --includes
+    OUTPUT_VARIABLE PYBIND11_INCLUDE_FLAGS
+    OUTPUT_STRIP_TRAILING_WHITESPACE
+)
+string(REPLACE "-I" "" PYBIND11_INCLUDE_DIRS "${PYBIND11_INCLUDE_FLAGS}")
+separate_arguments(PYBIND11_INCLUDE_DIRS)
+
+target_include_directories(diffapp 
+    PRIVATE 
+    ${PROJECT_SOURCE_DIR}/diffusion
+    ${PYBIND11_INCLUDE_DIRS}
+    ${PROJECT_SOURCE_DIR}/external
+    ${OpenSn_INSTALL_PREFIX}/include/opensn 
+)
+target_link_libraries(diffapp PRIVATE opensn::libopensn opensn::libopensnpy MPI::MPI_CXX caliper pybind11::module Python::Python)
+
+set_target_properties(diffapp PROPERTIES
+    PREFIX ""    # remove "lib" prefix
+    OUTPUT_NAME "diffapp"  # Python import name
+    LIBRARY_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/python
+)
+
+# Optional executable
+add_executable(diff_app_exec src/main.cc src/diff_py_app.cc src/diffusion.cc ${DIFFUSION_SRCS})
+target_include_directories(diff_app_exec PRIVATE
+    ${PROJECT_SOURCE_DIR}/diffusion
+    ${PROJECT_SOURCE_DIR}/external
+    ${PYBIND11_INCLUDE_DIRS}
+    ${OpenSn_INSTALL_PREFIX}/include/opensn 
+)
+target_link_libraries(diff_app_exec PRIVATE opensn::libopensn opensn::libopensnpy MPI::MPI_C caliper pybind11::module Python::Python)

external/CMakeLists.txt

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+add_subdirectory("paraview")
+
+set(TARGET external)
+add_library(${TARGET} STATIC
+    $<TARGET_OBJECTS:ThirdPartyParaView>)

external/README.md

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+# ThirdParty
+
+This directory contains third party projects distributed with OpenSn
+by permission of their respective licences.
+For additional details, please refer to the list that follows, as well as
+the license files contained in each subdirectory and/or on the original
+project website.
+
+## Directory: paraview
+- Project: ParaView
+- Website: <https://www.paraview.org/>
+- License: BSD-3-Clause
+- Information: This directory contains a partial version of the ParaView
+source files. The directory structure does not necessarily conform to that
+of the original ParaView project and the file `CMakeLists.txt` is written
+by the developers of OpenSn specifically for the OpenSn project.