Merge branch 'develop' into sub_def

.codespellrc

@@ -1,6 +1,6 @@
 # Ref: https://github.com/codespell-project/codespell#using-a-config-file
 [codespell]
-skip = .git,*.svg,.codespellrc,./bin/trace,./hl/tools/h5watch/h5watch.c,./tools/test/h5jam/tellub.c,./config/sanitizer/LICENSE,./config/sanitizer/sanitizers.cmake,./tools/test/h5repack/testfiles/*.dat,./test/API/driver,./configure,./bin/ltmain.sh,./bin/depcomp,./bin/config.guess,./bin/config.sub,./autom4te.cache,./m4/libtool.m4,./c++/src/*.html,./HDF5Examples/depcomp
+skip = .git,*.svg,.codespellrc,./bin/trace,./hl/tools/h5watch/h5watch.c,./tools/test/h5jam/tellub.c,./config/sanitizer/LICENSE,./config/sanitizer/sanitizers.cmake,./tools/test/h5import/testfiles/*.conf,./tools/test/h5repack/testfiles/*.dat,./test/API/driver,./configure,./bin/ltmain.sh,./bin/depcomp,./bin/config.guess,./bin/config.sub,./autom4te.cache,./m4/libtool.m4,./c++/src/*.html,./HDF5Examples/depcomp
 check-hidden = true
 # ignore-regex = 
-ignore-words-list = ot,isnt,inout,nd,parms,parm,ba,offsetP,ser,ois,had,fiter,fo,clude,refere,minnum,offsetp,creat,ans:,eiter,lastr,ans,isn't,ifset,sur,trun,dne,tthe,hda,filname,te,htmp,ake,gord,numer,ro,oce,msdos
+ignore-words-list = ot,isnt,inout,nd,parms,parm,ba,offsetP,ser,ois,had,fiter,fo,clude,refere,minnum,offsetp,creat,ans:,eiter,lastr,ans,isn't,ifset,sur,trun,dne,tthe,hda,filname,te,htmp,ake,gord,numer,ro,oce,msdos,TEXTIN

.github/workflows/autotools.yml

@@ -99,12 +99,6 @@ jobs:
       with:
             build_mode: "production"
 
-    call-release-auto-julia:
-        name: "Autotools Julia Workflows"
-        uses: ./.github/workflows/julia-auto.yml
-        with:
-            build_mode: "production"
-
     call-release-auto-xpr:
         name: "Autotools TestExpress Workflows"
         uses: ./.github/workflows/testxpr-auto.yml
@@ -116,4 +110,4 @@ jobs:
 #        build_mode: "production"
 #        build_option: "--enable-production"
 
-
+

.github/workflows/cmake.yml

@@ -102,14 +102,8 @@ jobs:
         with:
             build_mode: "Release"
 
-    call-release-cmake-julia:
-        name: "CMake Julia Workflows"
-        uses: ./.github/workflows/julia-cmake.yml
-        with:
-            build_mode: "Release"
-
     call-release-cmake-xpr:
         name: "CMake TestExpress Workflows"
         uses: ./.github/workflows/testxpr-cmake.yml
 
-
+

.github/workflows/main-cmake-spc.yml

@@ -80,7 +80,7 @@ jobs:
 #        working-directory: ${{ runner.workspace }}/build
 
   build_v1_10:
-    name: "gcc DBG v1.10 default API (build only)"
+    name: "gcc DBG v1.10 default API"
     runs-on: ubuntu-latest
     steps:
       # SETUP
@@ -140,7 +140,7 @@ jobs:
         working-directory: ${{ runner.workspace }}/build
 
   build_v1_12:
-    name: "gcc DBG v1.12 default API (build only)"
+    name: "gcc DBG v1.12 default API"
     runs-on: ubuntu-latest
     steps:
       # SETUP
@@ -199,21 +199,21 @@ jobs:
         run: ctest . --parallel 2 -C Debug -V
         working-directory: ${{ runner.workspace }}/build
 
-  build_v1_14:
-    name: "gcc DBG v1.14 default API (build only)"
+  build_zlibng:
+    name: "gcc use zlib-ng filter"
     runs-on: ubuntu-latest
     steps:
       # SETUP
       - name: Install Linux Dependencies
         run: |
-           sudo apt-get update
-           sudo apt-get install ninja-build doxygen graphviz
-           sudo apt install libssl3 libssl-dev libcurl4 libcurl4-openssl-dev
-           sudo apt install gcc-12 g++-12 gfortran-12
-           echo "CC=gcc-12" >> $GITHUB_ENV
-           echo "CXX=g++-12" >> $GITHUB_ENV
-           echo "FC=gfortran-12" >> $GITHUB_ENV
- 
+          sudo apt-get update
+          sudo apt-get install ninja-build doxygen graphviz
+          sudo apt install libssl3 libssl-dev libcurl4 libcurl4-openssl-dev
+          sudo apt install gcc-12 g++-12 gfortran-12
+          echo "CC=gcc-12" >> $GITHUB_ENV
+          echo "CXX=g++-12" >> $GITHUB_ENV
+          echo "FC=gfortran-12" >> $GITHUB_ENV
+
       # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
       - name: Get Sources
         uses: actions/[email protected]
@@ -227,34 +227,33 @@ jobs:
           cd "${{ runner.workspace }}/build"
           cmake -C $GITHUB_WORKSPACE/config/cmake/cacheinit.cmake \
             -G Ninja \
-            -DCMAKE_BUILD_TYPE=Debug \
+            -DCMAKE_BUILD_TYPE=Release \
             -DBUILD_SHARED_LIBS=ON \
             -DHDF5_ENABLE_ALL_WARNINGS=ON \
             -DHDF5_ENABLE_PARALLEL:BOOL=OFF \
             -DHDF5_BUILD_CPP_LIB:BOOL=ON \
             -DHDF5_BUILD_FORTRAN=ON \
             -DHDF5_BUILD_JAVA=ON \
             -DHDF5_BUILD_DOC=OFF \
-            -DLIBAEC_USE_LOCALCONTENT=OFF \
-            -DZLIB_USE_LOCALCONTENT=OFF \
+            -DLIBAEC_USE_LOCALCONTENT=ON \
+            -DZLIB_USE_LOCALCONTENT=ON \
             -DHDF5_ENABLE_MIRROR_VFD:BOOL=ON \
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
-            -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v114 \
+            -DHDF5_USE_ZLIBNG:BOOL=ON \
             $GITHUB_WORKSPACE
         shell: bash
 
       #
       # BUILD
       #
       - name: CMake Build
-        run: cmake --build . --parallel 3 --config Debug
+        run: cmake --build . --parallel 3 --config Release
         working-directory: ${{ runner.workspace }}/build
 
       #
       # RUN TESTS
       #
       - name: CMake Run Tests
-        run: ctest . --parallel 2 -C Debug -V
+        run: ctest . --parallel 2 -C Release -V
         working-directory: ${{ runner.workspace }}/build

.github/workflows/markdown-link-check.yml

@@ -6,9 +6,13 @@ on:
   pull_request:
     branches: [ develop ]
 
+# The config file handles things like http 500 errors from sites like GitLab
+# and http 200 responses
 jobs:
   markdown-link-check:
     runs-on: ubuntu-latest
     steps:
     - uses: actions/checkout@master
     - uses: gaurav-nelson/github-action-markdown-link-check@v1
+      with:
+        config-file: '.github/workflows/markdown_config.json'

.github/workflows/markdown_config.json

@@ -0,0 +1,3 @@
+{
+    "aliveStatusCodes": [200, 500]
+}

.github/workflows/nvhpc-auto.yml

@@ -34,21 +34,21 @@ jobs:
           curl https://developer.download.nvidia.com/hpc-sdk/ubuntu/DEB-GPG-KEY-NVIDIA-HPC-SDK | sudo gpg --dearmor -o /usr/share/keyrings/nvidia-hpcsdk-archive-keyring.gpg
           echo 'deb [signed-by=/usr/share/keyrings/nvidia-hpcsdk-archive-keyring.gpg] https://developer.download.nvidia.com/hpc-sdk/ubuntu/amd64 /' | sudo tee /etc/apt/sources.list.d/nvhpc.list
           sudo apt-get update -y
-          sudo apt-get install -y nvhpc-23-9
+          sudo apt-get install -y nvhpc-24-5
           echo "NVHPCSDK=/opt/nvidia/hpc_sdk" >> $GITHUB_ENV
-          echo "OMPI_CXX=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin/nvc++" >> $GITHUB_ENV
-          echo "OMPI_CC=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin/nvc" >> $GITHUB_ENV
-          echo "OMPI_FC=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin/nvfortran" >> $GITHUB_ENV
-          echo "CC=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin/mpicc" >> $GITHUB_ENV
-          echo "FC=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin/mpifort" >> $GITHUB_ENV
-          echo "LD_LIBRARY_PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/lib" >> $GITHUB_ENV
+          echo "OMPI_CXX=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/bin/nvc++" >> $GITHUB_ENV
+          echo "OMPI_CC=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/bin/nvc" >> $GITHUB_ENV
+          echo "OMPI_FC=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/bin/nvfortran" >> $GITHUB_ENV
+          echo "CC=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/comm_libs/openmpi4/bin/mpicc" >> $GITHUB_ENV
+          echo "FC=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/comm_libs/openmpi4/bin/mpifort" >> $GITHUB_ENV
+          echo "LD_LIBRARY_PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/lib" >> $GITHUB_ENV
           echo "DESTDIR=/tmp" >> $GITHUB_ENV
 
       - name: Autotools Configure
         shell: bash
         run: |
           export RUNPARALLEL="mpiexec -np 2"
-          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin:$PATH
+          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/bin:$PATH
           sh ./autogen.sh
           mkdir "${{ runner.workspace }}/build"
           cd "${{ runner.workspace }}/build"
@@ -62,26 +62,13 @@ jobs:
       - name: Autotools Build
         shell: bash
         run: |
-          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin:$PATH
+          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/bin:$PATH
           make -j3
         working-directory: ${{ runner.workspace }}/build
 
-      - name: Autotools Run Tests
-        shell: bash
-        run: |
-          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin:$PATH
-          make check -j
-        working-directory: ${{ runner.workspace }}/build
-
       - name: Autotools Install
         shell: bash
         run: |
-          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin:$PATH
+          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/bin:$PATH
           make install
         working-directory: ${{ runner.workspace }}/build
-
-#      - name: Autotools Verify Install
-#        run: |
-#          export PATH=/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/comm_libs/openmpi4/bin:/opt/nvidia/hpc_sdk/Linux_x86_64/23.9/compilers/bin:$PATH
-#          make check-install
-#        working-directory: ${{ runner.workspace }}/build