[C++] Extended codecov for tiledbsoma library

.github/workflows/libtiledb-ci.yml

@@ -0,0 +1,30 @@
+name: libTileDB-SOMA CodeCov
+
+on:
+  pull_request:
+    paths-ignore:
+      - "apis/python/**"
+      - "apis/r/**"
+      - ".pre-commit-config.yaml"
+  push:
+    branches:
+      - main
+      - 'release-*'
+  workflow_dispatch:
+
+jobs:
+  codecov:
+    runs-on: macos-latest
+    steps:
+    - name: Checkout TileDB-SOMA
+      uses: actions/checkout@v3
+    - name: Build libTileDB-SOMA
+      run: TILEDBSOMA_COVERAGE="--coverage" ./scripts/bld
+    - name: Run libTileDB-SOMA unittests
+      run: ctest --test-dir build/libtiledbsoma -C Release --verbose --rerun-failed --output-on-failur
+    - name: Upload coverage to Codecov
+      uses: codecov/codecov-action@v3
+      with:
+        gcov: true
+        flags: libtiledbsoma
+        gcov_include: $(find libtiledbsoma/src -name "*.cc")

libtiledbsoma/src/CMakeLists.txt

@@ -2,6 +2,13 @@ message(STATUS "Starting TileDB-SOMA build.")
 
 set(TILEDBSOMA_INSTALL_TARGETS "")
 
+# ###########################################################
+# Adding coverage flags
+# ###########################################################
+
+set(CMAKE_CXX_FLAGS "$ENV{TILEDBSOMA_COVERAGE}")
+set(CMAKE_C_FLAGS "$ENV{TILEDBSOMA_COVERAGE}")
+
 # ###########################################################
 # Find required dependencies
 # See ../cmake/Modules/*.cmake for provenance/version info

libtiledbsoma/test/CMakeLists.txt

@@ -6,6 +6,12 @@
 get_filename_component(TILEDBSOMA_SOURCE_ROOT "${CMAKE_CURRENT_SOURCE_DIR}/../../" ABSOLUTE)
 add_compile_definitions(TILEDBSOMA_SOURCE_ROOT="${TILEDBSOMA_SOURCE_ROOT}")
 
+# ###########################################################
+# Adding coverage flags
+# ###########################################################
+set(CMAKE_CXX_FLAGS "$ENV{TILEDBSOMA_COVERAGE}")
+set(CMAKE_C_FLAGS "$ENV{TILEDBSOMA_COVERAGE}")
+
 ############################################################
 # Dependencies
 ############################################################

scripts/bld

@@ -82,7 +82,10 @@ cd "$(dirname "$0")/.."
 
 rm -rf build
 mkdir -p build
-cmake -B build -S libtiledbsoma -DCMAKE_BUILD_TYPE=${build} ${extra_opts}
-cmake --build build -j ${nproc}
-cmake --build build --target install-libtiledbsoma
-cmake --build build/libtiledbsoma --target build_tests -j ${nproc}
+
+if [ -z ${TILEDBSOMA_COVERAGE+x} ]; then TILEDBSOMA_COVERAGE=""; fi
+
+TILEDBSOMA_COVERAGE="${TILEDBSOMA_COVERAGE}" cmake -B build -S libtiledbsoma -DCMAKE_BUILD_TYPE=${build} ${extra_opts}
+TILEDBSOMA_COVERAGE="${TILEDBSOMA_COVERAGE}" cmake --build build -j ${nproc}
+TILEDBSOMA_COVERAGE="${TILEDBSOMA_COVERAGE}" cmake --build build --target install-libtiledbsoma
+TILEDBSOMA_COVERAGE="${TILEDBSOMA_COVERAGE}" cmake --build build/libtiledbsoma --target build_tests -j ${nproc}