Release branch 0.16.2: Backport recent CI fixes

.clang-tidy

@@ -2,5 +2,5 @@
 # FIXME: all performance-* reports
 # FIXME: all cert-* reports
 # FIXME: all bugprone-* reports
-Checks: -*,bugprone-*,-bugprone-unhandled-self-assignment,-bugprone-parent-virtual-call,-bugprone-narrowing-conversions,-bugprone-exception-escape,-bugprone-string-literal-with-embedded-nul,cppcoreguidelines-slicing,mpi-*,readability-non-const-parameter,performance-*,modernize-*,-modernize-use-trailing-return-type,-modernize-use-bool-literals,-modernize-avoid-c-arrays,-modernize-use-auto,-modernize-return-braced-init-list
+Checks: -*,bugprone-*,-bugprone-unhandled-self-assignment,-bugprone-parent-virtual-call,-bugprone-narrowing-conversions,-bugprone-exception-escape,-bugprone-string-literal-with-embedded-nul,cppcoreguidelines-slicing,mpi-*,readability-non-const-parameter,performance-*,modernize-*,-modernize-use-trailing-return-type,-modernize-use-bool-literals,-modernize-avoid-c-arrays,-modernize-use-auto,-modernize-return-braced-init-list,-bugprone-easily-swappable-parameters
 HeaderFilterRegex: '((^(?!\/share\/openPMD\/).*)*include\/openPMD\/.+\.hpp|src\/^(?!binding).+\.cpp$)'

.github/ci/spack-envs/clang7_nopy_nompi_h5_libcpp/spack.yaml → .github/ci/spack-envs/clang11_nopy_nompi_h5_libcpp/spack.yaml

@@ -12,7 +12,7 @@ spack:
     all:
       target: [x86_64]
       variants: ~mpi ~fortran
-      compiler: [clang@7.0.1]
+      compiler: [clang@11.1.0]
 
   compilers:
   - compiler:
@@ -22,13 +22,13 @@ spack:
         cxxflags: -stdlib=libc++
         ldflags: -stdlib=libc++
       modules: []
-      operating_system: ubuntu20.04
+      operating_system: ubuntu22.04
       paths:
-        cc: /usr/bin/clang-7
-        cxx: /usr/bin/clang++-7
+        cc: /usr/bin/clang-11
+        cxx: /usr/bin/clang++-11
         f77: null
         fc: null
-      spec: clang@7.0.1
+      spec: clang@11.1.0
       target: x86_64
 
   config:

.github/ci/spack-envs/clang7_nopy_ompi_h5_ad2/spack.yaml → .github/ci/spack-envs/clang11_nopy_ompi_h5_ad2/spack.yaml

@@ -12,47 +12,47 @@ spack:
 
   packages:
     adios2:
-      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2
+      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2 ~blosc2 ~mgard
     cmake:
       externals:
-      - spec: cmake@3.23.0
+      - spec: cmake@3.31.5
         prefix: /usr
       buildable: False
     openmpi:
       externals:
-      - spec: openmpi@2.1.1
+      - spec: openmpi@4.1.2
         prefix: /usr
       buildable: False
     perl:
       externals:
-      - spec: perl@5.26.1
+      - spec: perl@5.34.0
         prefix: /usr
       buildable: False
     python:
       externals:
-      - spec: python@3.8.0
+      - spec: python@3.10.12
         prefix: /usr
       buildable: False
     all:
       target: [x86_64]
       variants: ~fortran
       providers:
         mpi: [openmpi]
-      compiler: [clang@7.0.0]
+      compiler: [clang@11.1.0]
 
   compilers:
   - compiler:
       environment: {}
       extra_rpaths: []
       flags: {}
       modules: []
-      operating_system: ubuntu20.04
+      operating_system: ubuntu22.04
       paths:
-        cc: /usr/lib/llvm-7/bin/clang
-        cxx: /usr/lib/llvm-7/bin/clang++
+        cc: /usr/bin/clang-11
+        cxx: /usr/bin/clang++-11
         f77: /usr/bin/gfortran
         fc: /usr/bin/gfortran
-      spec: clang@7.0.0
+      spec: clang@11.1.0
       target: x86_64
 
   config:

.github/ci/spack-envs/clang7_nopy_ompi_h5_ad2_libcpp/spack.yaml → .github/ci/spack-envs/clang11_nopy_ompi_h5_ad2_libcpp/spack.yaml

@@ -12,33 +12,33 @@ spack:
 
   packages:
     adios2:
-      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2
+      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2 ~mgard ~blosc2
     cmake:
       externals:
-      - spec: cmake@3.23.0
+      - spec: cmake@3.31.5
         prefix: /usr
       buildable: False
     openmpi:
       externals:
-      - spec: openmpi@2.1.1
+      - spec: openmpi@4.1.2
         prefix: /usr
       buildable: False
     perl:
       externals:
-      - spec: perl@5.26.1
+      - spec: perl@5.34.0
         prefix: /usr
       buildable: False
     python:
       externals:
-      - spec: python@3.8.0
+      - spec: python@3.10.12
         prefix: /usr
       buildable: False
     all:
       target: [x86_64]
       variants: ~fortran
       providers:
         mpi: [openmpi]
-      compiler: [clang@7.0.1]
+      compiler: [clang@11.1.0]
 
   compilers:
   - compiler:
@@ -48,13 +48,13 @@ spack:
         cxxflags: -stdlib=libc++
         ldflags: -stdlib=libc++
       modules: []
-      operating_system: ubuntu20.04
+      operating_system: ubuntu22.04
       paths:
-        cc: /usr/bin/clang-7
-        cxx: /usr/bin/clang++-7
+        cc: /usr/bin/clang-11
+        cxx: /usr/bin/clang++-11
         f77: /usr/bin/gfortran
         fc: /usr/bin/gfortran
-      spec: clang@7.0.1
+      spec: clang@11.1.0
       target: x86_64
 
   config:

.github/ci/spack-envs/clang14_py311_nompi_h5_ad2/spack.yaml → .github/ci/spack-envs/clang15_py311_nompi_h5_ad2/spack.yaml

@@ -13,7 +13,7 @@ spack:
     hdf5:
       variants: ~mpi
     adios2:
-      variants: ~mpi ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2
+      variants: ~mpi ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2 ~mgard
     cmake:
       externals:
       - spec: cmake@3.22.1
@@ -34,7 +34,7 @@ spack:
       variants: ~fortran
       providers:
         mpi: [openmpi]
-      compiler: [clang@14.0.0]
+      compiler: [clang@15.0.7]
 
   compilers:
   - compiler:
@@ -44,11 +44,11 @@ spack:
       modules: []
       operating_system: ubuntu22.04
       paths:
-        cc: /usr/lib/llvm-14/bin/clang
-        cxx: /usr/lib/llvm-14/bin/clang++
+        cc: /usr/bin/clang-15
+        cxx: /usr/bin/clang++-15
         f77: /usr/bin/gfortran
         fc: /usr/bin/gfortran
-      spec: clang@14.0.0
+      spec: clang@15.0.7
       target: x86_64
 
   config:

.github/ci/spack-envs/clangtidy_nopy_ompi_h5_ad2/spack.yaml

@@ -12,47 +12,51 @@ spack:
 
   packages:
     adios2:
-      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2
+      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2 ~mgard
+    c-blosc2:
+      # snappy broken on CMake 4.0
+      # fixed snappy not yet deployed to a Spack release
+      variants: ~snappy
     cmake:
       externals:
-      - spec: cmake@3.23.0
+      - spec: cmake@3.31.5
         prefix: /usr
       buildable: False
     openmpi:
       externals:
-      - spec: openmpi@2.1.1
+      - spec: openmpi@4.1.2
         prefix: /usr
       buildable: False
     perl:
       externals:
-      - spec: perl@5.26.1
+      - spec: perl@5.34.0
         prefix: /usr
       buildable: False
     python:
       externals:
-      - spec: python@3.8.0
+      - spec: python@3.10.12
         prefix: /usr
       buildable: False
     all:
       target: [x86_64]
       variants: ~fortran
       providers:
         mpi: [openmpi]
-      compiler: [clang@10.0.0]
+      compiler: [clang@14.0.0]
 
   compilers:
   - compiler:
       environment: {}
       extra_rpaths: []
       flags: {}
       modules: []
-      operating_system: ubuntu20.04
+      operating_system: ubuntu22.04
       paths:
-        cc: /usr/lib/llvm-10/bin/clang
-        cxx: /usr/lib/llvm-10/bin/clang++
+        cc: /usr/bin/clang-14
+        cxx: /usr/bin/clang++-14
         f77: /usr/bin/gfortran
         fc: /usr/bin/gfortran
-      spec: clang@10.0.0
+      spec: clang@14.0.0
       target: x86_64
 
   config:

.github/ci/spack-envs/gcc7_py36_ompi_h5_ad2/spack.yaml → .github/ci/spack-envs/gcc12_py36_ompi_h5_ad2/spack.yaml

@@ -12,45 +12,52 @@ spack:
 
   packages:
     adios2:
-      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2
+      # mgard not supported on CMake 4.0 due to unresolved compatibility
+      # issue in dependency yaml-cpp
+      # https://github.com/jbeder/yaml-cpp/issues/1352
+      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2 ~mgard
+    c-blosc2:
+      # snappy broken on CMake 4.0
+      # fixed snappy not yet deployed to a Spack release
+      variants: ~snappy
     cmake:
       externals:
-      - spec: cmake@3.23.0
+      - spec: cmake@3.31.5
         prefix: /usr
       buildable: False
     openmpi:
       externals:
-      - spec: openmpi@2.1.1
+      - spec: openmpi@4.1.2
         prefix: /usr
       buildable: False
     perl:
       externals:
-      - spec: perl@5.26.1
+      - spec: perl@5.34.0
         prefix: /usr
       buildable: False
     python:
       externals:
-      - spec: python@3.6.3
+      - spec: python@3.10.12
         prefix: /usr
       buildable: False
     all:
       target: [x86_64]
       variants: ~fortran
-      compiler: [gcc@7.0.0]
+      compiler: [gcc@12.3.0]
 
   compilers:
   - compiler:
       environment: {}
       extra_rpaths: []
       flags: {}
       modules: []
-      operating_system: ubuntu20.04
+      operating_system: ubuntu22.04
       paths:
-        cc: /usr/bin/gcc-7
-        cxx: /usr/bin/g++-7
+        cc: /usr/bin/gcc-12
+        cxx: /usr/bin/g++-12
         f77: /usr/bin/gfortran
         fc: /usr/bin/gfortran
-      spec: gcc@7.0.0
+      spec: gcc@12.3.0
       target: x86_64
 
   config:

.github/ci/spack-envs/clang8_py38_mpich_h5_ad2/spack.yaml → .github/ci/spack-envs/gcc13_py312_mpich_h5_ad2/spack.yaml

@@ -6,57 +6,59 @@
 #
 spack:
   specs:
-  - adios2@2.7.1
-  - hdf5
+  - adios2@2.10 +mpi
+  - hdf5 +mpi
   - mpich
 
   packages:
     adios2:
-      variants: ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2
+      variants: +mpi ~zfp ~sz ~png ~dataman ~python ~fortran ~ssc ~shared ~bzip2 ~blosc2 ~mgard
     cmake:
       externals:
-      - spec: cmake@3.23.0
-        prefix: /usr
+      - spec: cmake@3.31.6
+        prefix: /usr/local
       buildable: False
+    hdf5:
+      variants: +mpi
     mpich:
       externals:
-      - spec: mpich@3.3
-        prefix: /usr
+      - spec: mpich@4.2.1
+        prefix: /usr/local
       buildable: False
     perl:
       externals:
-      - spec: perl@5.26.1
+      - spec: perl@5.38.2
         prefix: /usr
       buildable: False
     python:
       externals:
-      - spec: python@3.8.0
+      - spec: python@3.12.3
         prefix: /usr
       buildable: False
     all:
       target: [x86_64]
       variants: ~fortran
       providers:
         mpi: [mpich]
-      compiler: [clang@8.0.0]
+      compiler: [gcc@13.3.0]
 
   compilers:
   - compiler:
       environment: {}
       extra_rpaths: []
       flags: {}
       modules: []
-      operating_system: ubuntu20.04
+      operating_system: ubuntu24.04
       paths:
-        cc: /usr/lib/llvm-8/bin/clang
-        cxx: /usr/lib/llvm-8/bin/clang++
+        cc: /usr/bin/gcc
+        cxx: /usr/bin/g++
         f77: /usr/bin/gfortran
         fc: /usr/bin/gfortran
-      spec: clang@8.0.0
+      spec: gcc@13.3.0
       target: x86_64
 
   config:
-    build_jobs: 2
+    build_jobs: 4
 
   mirrors:
     E4S: https://cache.e4s.io

.github/workflows/dependencies/install_mpich

@@ -0,0 +1,16 @@
+#!/usr/bin/env bash
+#
+
+set -eu -o pipefail
+
+mpich_ver="4.3.0"
+
+cd /opt
+wget https://www.mpich.org/static/downloads/${mpich_ver}/mpich-${mpich_ver}.tar.gz
+tar -xzf mpich-${mpich_ver}.tar.gz
+cd mpich-${mpich_ver}
+./configure --prefix=/usr/local
+make -j 4
+make -j 4 install
+cd ..
+rm -rf mpich-${mpich_ver} mpich-${mpich_ver}.tar.gz