ci: rehaul sanitizer builds

- Based them on opensuse tumbleweed to get recent
  versions of their packages.
- Update clang/llvm to 17
- Add build-images-opensuse-tw script

.gitlab/gitlab-ci-spack.yml

@@ -1,3 +1,4 @@
+#  This file is used to define the GitLab CI/CD pipeline for the ADIOS2 project.
 default:
   interruptible: true
   tags:
@@ -35,6 +36,7 @@ default:
       - $CI_BIN_DIR/testing/
       - $CI_BIN_DIR/source/**/*.h
       - $CI_BIN_DIR/source/**/*.in
+      - $CI_BIN_DIR/adios2_reorganize_wrapper
 
       # CTest and CMake install files.
       - $CI_BIN_DIR/CMakeCache.txt
@@ -54,38 +56,38 @@ default:
 #===============================================================================
 
 build:uo-sanitizer-asan:
-  image: ornladios/adios2:ci-fedora-asan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-asan-20241205
   extends: [.common-build]
 
 build:uo-sanitizer-msan:
-  image: ornladios/adios2:ci-fedora-msan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-msan-20241205
   extends: [.common-build]
 
 build:uo-sanitizer-tsan:
-  image: ornladios/adios2:ci-fedora-tsan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-tsan-20241205
   extends: [.common-build]
 
 build:uo-sanitizer-ubsan:
-  image: ornladios/adios2:ci-fedora-ubsan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-ubsan-20241205
   extends: [.common-build]
 
 test:uo-sanitizer-asan:
-  image: ornladios/adios2:ci-fedora-asan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-asan-20241205
   extends: [.common-test]
   needs: [build:uo-sanitizer-asan]
 
 test:uo-sanitizer-msan:
-  image: ornladios/adios2:ci-fedora-msan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-msan-20241205
   extends: [.common-test]
   needs: [build:uo-sanitizer-msan]
 
 test:uo-sanitizer-tsan:
-  image: ornladios/adios2:ci-fedora-tsan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-tsan-20241205
   extends: [.common-test]
   needs: [build:uo-sanitizer-tsan]
 
 test:uo-sanitizer-ubsan:
-  image: ornladios/adios2:ci-fedora-ubsan
+  image: ghcr.io/ornladios/adios2:ci-opensuse-tw-ubsan-20241205
   extends: [.common-test]
   needs: [build:uo-sanitizer-ubsan]
 

scripts/ci/cmake/ci-common.cmake

@@ -18,10 +18,15 @@ if(NOT CTEST_BUILD_FLAGS)
     set(CTEST_BUILD_FLAGS "-j${N2CPUS}")
   endif()
 endif()
+
 if(NOT PARALLEL_LEVEL IN_LIST CTEST_TEST_ARGS)
   list(APPEND CTEST_TEST_ARGS PARALLEL_LEVEL ${N2CPUS})
 endif()
 
+if(NOT PARALLEL_LEVEL IN_LIST CTEST_MEMCHECK_ARGS)
+  list(APPEND CTEST_MEMCHECK_ARGS PARALLEL_LEVEL ${N2CPUS})
+endif()
+
 if(NOT dashboard_model)
   set(dashboard_model Experimental)
 endif()

scripts/ci/cmake/ci-el7-spack.cmake

@@ -1,4 +1,4 @@
-# Client maintainer: chuck.atkins@kitware.com
+# Client maintainer: vicente.bolea@kitware.com
 
 include(ProcessorCount)
 ProcessorCount(NCPUS)

scripts/ci/cmake/ci-el7.cmake

@@ -1,4 +1,4 @@
-# Client maintainer: chuck.atkins@kitware.com
+# Client maintainer: vicente.bolea@kitware.com
 
 set(ENV{CC}  gcc)
 set(ENV{CXX} g++)

scripts/ci/cmake/ci-uo-sanitizer-asan.cmake

@@ -1,4 +1,4 @@
-# Client maintainer: chuck.atkins@kitware.com
+# Client maintainer: vicente.bolea@kitware.com
 
 set(ENV{CC}  clang)
 set(ENV{CXX} clang++)
@@ -8,6 +8,8 @@ set(ENV{LSAN_OPTIONS} "suppressions=$ENV{CI_SOURCE_DIR}/scripts/ci/cmake/adios-a
 set(ENV{CFLAGS}   "${ASAN_FLAGS}")
 set(ENV{CXXFLAGS} "${ASAN_FLAGS}")
 
+set(CTEST_MEMORYCHECK_SANITIZER_OPTIONS "detect_odr_violation=0")
+
 set(dashboard_cache "
 BUILD_TESTING:BOOL=ON
 ADIOS2_BUILD_EXAMPLES:BOOL=ON
@@ -23,6 +25,13 @@ set(dashboard_track "Analysis")
 set(CTEST_CMAKE_GENERATOR "Ninja")
 set(CTEST_MEMORYCHECK_TYPE "AddressSanitizer")
 
+list(APPEND EXCLUDE_EXPRESSIONS
+  "Install.*"
+  "Unit.FileTransport.FailOnEOF.Serial"
+  )
+list(JOIN EXCLUDE_EXPRESSIONS "|" TEST_EXCLUDE_STRING)
+set(CTEST_MEMCHECK_ARGS EXCLUDE "${TEST_EXCLUDE_STRING}")
+
 set(ADIOS_TEST_REPEAT 0)
 list(APPEND CTEST_UPDATE_NOTES_FILES "${CMAKE_CURRENT_LIST_FILE}")
 include(${CMAKE_CURRENT_LIST_DIR}/ci-common.cmake)

scripts/ci/cmake/ci-uo-sanitizer-msan.cmake

@@ -1,4 +1,7 @@
-# Client maintainer: [email protected]
+# Client maintainer: [email protected]
+
+set(ENV{CC}  clang)
+set(ENV{CXX} clang++)
 
 set(dashboard_cache "
 BUILD_TESTING:BOOL=ON
@@ -19,8 +22,11 @@ set(CTEST_CMAKE_GENERATOR "Ninja")
 set(CTEST_MEMORYCHECK_TYPE "MemorySanitizer")
 
 list(APPEND EXCLUDE_EXPRESSIONS
-  "Engine.BP.BPBufferSizeTest.SyncDeferredIdenticalUsage.BP3.Serial"
-  "Engine.BP.BPBufferSizeTest.SyncDeferredIdenticalUsage.BP4.Serial"
+  "Install.*"
+  "Staging.1x1DefSync.BP3"
+  "Engine.DataMan.DataManEngineTest"
+  "Unit.FileTransport.FailOnEOF.Serial"
+  "Engine.BP.BPBufferSizeTest.SyncDeferredIdenticalUsage.*.Serial"
   )
 list(JOIN EXCLUDE_EXPRESSIONS "|" TEST_EXCLUDE_STRING)
 set(CTEST_MEMCHECK_ARGS EXCLUDE "${TEST_EXCLUDE_STRING}")

scripts/ci/cmake/ci-uo-sanitizer-tsan.cmake

@@ -1,4 +1,4 @@
-# Client maintainer: chuck.atkins@kitware.com
+# Client maintainer: vicente.bolea@kitware.com
 
 set(dashboard_cache "
 BUILD_TESTING:BOOL=ON
@@ -18,6 +18,14 @@ set(dashboard_track "Analysis")
 set(CTEST_CMAKE_GENERATOR "Ninja")
 set(CTEST_MEMORYCHECK_TYPE "ThreadSanitizer")
 
+list(APPEND EXCLUDE_EXPRESSIONS
+  "Install.*"
+  "Unit.FileTransport.FailOnEOF.Serial"
+  "Engine.BP.BPBufferSizeTest.SyncDeferredIdenticalUsage.*.Serial"
+  )
+list(JOIN EXCLUDE_EXPRESSIONS "|" TEST_EXCLUDE_STRING)
+set(CTEST_MEMCHECK_ARGS EXCLUDE "${TEST_EXCLUDE_STRING}")
+
 set(ADIOS_TEST_REPEAT 0)
 list(APPEND CTEST_UPDATE_NOTES_FILES "${CMAKE_CURRENT_LIST_FILE}")
 include(${CMAKE_CURRENT_LIST_DIR}/ci-common.cmake)

scripts/ci/cmake/ci-uo-sanitizer-ubsan.cmake

@@ -1,4 +1,4 @@
-# Client maintainer: chuck.atkins@kitware.com
+# Client maintainer: vicente.bolea@kitware.com
 
 set(ENV{CC}  gcc)
 set(ENV{CXX} g++)
@@ -7,14 +7,15 @@ set(UBSAN_FLAGS "-fsanitize=undefined -fno-sanitize-recover=all -pthread")
 set(ENV{CFLAGS}   "${UBSAN_FLAGS}")
 set(ENV{CXXFLAGS} "${UBSAN_FLAGS}")
 set(ENV{FFLAGS}   "${UBSAN_FLAGS}")
-set(ENV{UBSAN_OPTIONS} "print_stacktrace=1")
+set(CTEST_MEMORYCHECK_SANITIZER_OPTIONS "print_stacktrace=1")
 
 set(dashboard_cache "
 BUILD_TESTING:BOOL=ON
 ADIOS2_BUILD_EXAMPLES:BOOL=ON
 
 ADIOS2_USE_HDF5:STRING=ON
 ADIOS2_USE_MPI:STRING=OFF
+ADIOS2_USE_Python:STRING=OFF
 
 HDF5_C_COMPILER_EXECUTABLE:FILEPATH=/usr/bin/h5cc
 HDF5_DIFF_EXECUTABLE:FILEPATH=/usr/bin/h5diff
@@ -24,6 +25,13 @@ set(dashboard_track "Analysis")
 set(CTEST_CMAKE_GENERATOR "Ninja")
 set(CTEST_MEMORYCHECK_TYPE "UndefinedBehaviorSanitizer")
 
+list(APPEND EXCLUDE_EXPRESSIONS
+  "Install.*"
+  "Unit.FileTransport.FailOnEOF.Serial"
+  )
+list(JOIN EXCLUDE_EXPRESSIONS "|" TEST_EXCLUDE_STRING)
+set(CTEST_MEMCHECK_ARGS EXCLUDE "${TEST_EXCLUDE_STRING}")
+
 set(ADIOS_TEST_REPEAT 0)
 list(APPEND CTEST_UPDATE_NOTES_FILES "${CMAKE_CURRENT_LIST_FILE}")
 include(${CMAKE_CURRENT_LIST_DIR}/ci-common.cmake)

scripts/ci/images/opensuse-tw/build-images-opensuse-tw

@@ -0,0 +1,49 @@
+#!/bin/bash
+
+# This script is used to build the openSUSE Tumbleweed images
+
+set -xeuo pipefail
+
+declare -r DOCKER_REPOSITORY=ghcr.io/ornladios/adios2
+declare -u ENABLE_PUSH=
+
+#=============================================================================
+# Functions
+
+# Function to build a docker image
+function docker_build() {
+  local docker_file=$1
+  local docker_tag=$2
+  local args=(--progress=plain --rm)
+
+  if [[ -n "${ENABLE_PUSH}" ]]; then
+    args+=("--push")
+  fi
+
+  sudo docker build "${args[@]}"  \
+    --file "${docker_file}" \
+    --tag "${DOCKER_REPOSITORY}:${docker_tag}-$(date +"%Y%m%d")" \
+    .
+}
+
+function usage() {
+  echo "Usage: $0 [-p <PROJECT>] [-m <MILESTONE>]"
+  echo "    -p    Push to the docker registry"
+  exit 0
+}
+
+#=============================================================================
+# Main
+while getopts "p" o; do
+  case "${o}" in
+    p) ENABLE_PUSH=true ;;
+    *) usage ;;
+  esac
+done
+
+docker_build opensuse-tw-sanitizer-base.dockerfile ci-opensuse-tw-sanitizer-base
+docker_build opensuse-tw-full-stack-onbuild.dockerfile ci-opensuse-tw-full-stack-onbuild
+docker_build opensuse-tw-asan.dockerfile ci-opensuse-tw-asan
+docker_build opensuse-tw-msan.dockerfile ci-opensuse-tw-msan
+docker_build opensuse-tw-tsan.dockerfile ci-opensuse-tw-tsan
+docker_build opensuse-tw-ubsan.dockerfile ci-opensuse-tw-ubsan

scripts/ci/images/opensuse-tw/opensuse-tw-asan.dockerfile

@@ -0,0 +1,20 @@
+FROM ghcr.io/ornladios/adios2:ci-opensuse-tw-sanitizer-base
+
+# Install core dev packages
+RUN zypper install -y --no-recommends libasan8 hdf5-devel && \
+    zypper clean --all
+
+# Install ZFP
+WORKDIR /opt/zfp
+RUN curl -L https://github.com/LLNL/zfp/releases/download/0.5.5/zfp-0.5.5.tar.gz | tar -xvz && \
+    cmake -GNinja -S zfp-0.5.5 -B build \
+      -DBUILD_SHARED_LIBS=ON \
+      -DCMAKE_BUILD_TYPE=Release \
+      -DCMAKE_INSTALL_PREFIX=/opt/zfp/0.5.5 \
+      && \
+    cmake --build build && \
+    cmake --install build && \
+    rm -rf zfp-0.5.5 build
+ENV PATH=/opt/zfp/0.5.5/bin:${PATH} \
+    LD_LIBRARY_PATH=/opt/zfp/0.5.5/lib64:${LD_LIBRARY_PATH} \
+    CMAKE_PREFIX_PATH=/opt/zfp/0.5.5:${CMAKE_PREFIX_PATH}