Merge branch 'HDFGroup:develop' into develop

HDFGroup · Oct 23, 2024 · 572be44 · 572be44
2 parents bc9cc4a + baa1e8e
commit 572be44
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diff --git a/.autom4te.cfg b/.autom4te.cfg
@@ -3,7 +3,7 @@
 #
 # This file is part of HDF5.  The full HDF5 copyright notice, including
 # terms governing use, modification, and redistribution, is contained in
-# the COPYING file, which can be found at the root of the source code
+# the LICENSE file, which can be found at the root of the source code
 # distribution tree, or in https://www.hdfgroup.org/licenses.
 # If you do not have access to either file, you may request a copy from
 # help@hdfgroup.org.

diff --git a/.gitattributes b/.gitattributes
@@ -72,7 +72,6 @@ hl/tools/gif2h5/testfiles/ex_image2.h5 -text
 hl/tools/gif2h5/testfiles/h52giftst.h5 -text
 hl/tools/gif2h5/testfiles/image1.gif -text
 java/CMakeLists.txt -text
-java/COPYING -text
 java/Makefile.am -text
 java/examples/CMakeLists.txt -text
 java/examples/Makefile.am -text

diff --git a/.github/workflows/autotools.yml b/.github/workflows/autotools.yml
@@ -12,7 +12,7 @@ on:
       - 'doc/**'
       - 'release_docs/**'
       - 'ACKNOWLEDGEMENTS'
-      - 'COPYING**'
+      - 'LICENSE**'
       - '**.md'
 
 # Using concurrency to cancel any in-progress job or run

diff --git a/.github/workflows/cmake-analysis.yml b/.github/workflows/cmake-analysis.yml
@@ -195,7 +195,7 @@ jobs:
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_BUILD_CPP_LIB:BOOL=ON")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_BUILD_FORTRAN:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SANITIZERS:BOOL=ON")
-              set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DUSE_SANITIZER:STRING=Leak")
+              set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_USE_SANITIZER:STRING=Leak")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF")
@@ -295,7 +295,7 @@ jobs:
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_BUILD_CPP_LIB:BOOL=ON")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_BUILD_FORTRAN:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SANITIZERS:BOOL=ON")
-              set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DUSE_SANITIZER:STRING=Address")
+              set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_USE_SANITIZER:STRING=Address")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF")
@@ -395,7 +395,7 @@ jobs:
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_BUILD_CPP_LIB:BOOL=ON")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_BUILD_FORTRAN:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SANITIZERS:BOOL=ON")
-              set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DUSE_SANITIZER:STRING=Undefined")
+              set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_USE_SANITIZER:STRING=Undefined")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF")
               set (ADD_BUILD_OPTIONS "${ADD_BUILD_OPTIONS} -DHDF5_ENABLE_SZIP_ENCODING:BOOL=OFF")

diff --git a/.github/workflows/cmake-ctest.yml b/.github/workflows/cmake-ctest.yml
@@ -169,8 +169,8 @@ jobs:
         run: |
           mkdir "${{ runner.workspace }}/build"
           mkdir "${{ runner.workspace }}/build/hdf5"
-          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING -Destination ${{ runner.workspace }}/build/hdf5/
-          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING_LBNL_HDF5 -Destination ${{ runner.workspace }}/build/hdf5/
+          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE -Destination ${{ runner.workspace }}/build/hdf5/
+          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE_LBNL_HDF5 -Destination ${{ runner.workspace }}/build/hdf5/
           Copy-Item -Path ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-MSVC/README.md -Destination ${{ runner.workspace }}/build/hdf5/
           Copy-Item -Path ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-MSVC/* -Destination ${{ runner.workspace }}/build/hdf5/ -Include *.zip
           cd "${{ runner.workspace }}/build"
@@ -261,8 +261,8 @@ jobs:
         run: |
           mkdir "${{ runner.workspace }}/build"
           mkdir "${{ runner.workspace }}/build/hdf5"
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING ${{ runner.workspace }}/build/hdf5
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-GNUC/README.md ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-GNUC/*.tar.gz ${{ runner.workspace }}/build/hdf5
           cd "${{ runner.workspace }}/build"
@@ -498,8 +498,8 @@ jobs:
         run: |
           mkdir "${{ runner.workspace }}/build"
           mkdir "${{ runner.workspace }}/build/hdf5"
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING ${{ runner.workspace }}/build/hdf5
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-macos-Clang/README.md ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-macos-Clang/*.tar.gz ${{ runner.workspace }}/build/hdf5
           cd "${{ runner.workspace }}/build"
@@ -584,8 +584,8 @@ jobs:
         run: |
           mkdir "${{ runner.workspace }}/build"
           mkdir "${{ runner.workspace }}/build/hdf5"
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING ${{ runner.workspace }}/build/hdf5
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-GNUC-S3/README.md ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-GNUC-S3/*.tar.gz ${{ runner.workspace }}/build/hdf5
           cd "${{ runner.workspace }}/build"
@@ -709,8 +709,8 @@ jobs:
         run: |
           mkdir "${{ runner.workspace }}/build"
           mkdir "${{ runner.workspace }}/build/hdf5"
-          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING -Destination ${{ runner.workspace }}/build/hdf5/
-          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING_LBNL_HDF5 -Destination ${{ runner.workspace }}/build/hdf5/
+          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE -Destination ${{ runner.workspace }}/build/hdf5/
+          Copy-Item -Path ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE_LBNL_HDF5 -Destination ${{ runner.workspace }}/build/hdf5/
           Copy-Item -Path ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-Intel/README.md -Destination ${{ runner.workspace }}/build/hdf5/
           Copy-Item -Path ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-Intel/* -Destination ${{ runner.workspace }}/build/hdf5/ -Include *.zip
           cd "${{ runner.workspace }}/build"
@@ -807,8 +807,8 @@ jobs:
         run: |
           mkdir "${{ runner.workspace }}/build"
           mkdir "${{ runner.workspace }}/build/hdf5"
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING ${{ runner.workspace }}/build/hdf5
-          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/COPYING_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE ${{ runner.workspace }}/build/hdf5
+          cp ${{ runner.workspace }}/hdf5/${{ steps.set-file-base.outputs.SOURCE_BASE }}/LICENSE_LBNL_HDF5 ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-Intel/README.md ${{ runner.workspace }}/build/hdf5
           cp ${{ runner.workspace }}/hdf5/build/${{ inputs.preset_name }}-Intel/*.tar.gz ${{ runner.workspace }}/build/hdf5
           cd "${{ runner.workspace }}/build"

diff --git a/.github/workflows/cmake.yml b/.github/workflows/cmake.yml
@@ -12,7 +12,7 @@ on:
       - 'doc/**'
       - 'release_docs/**'
       - 'ACKNOWLEDGEMENTS'
-      - 'COPYING**'
+      - 'LICENSE**'
       - '**.md'
 
 # Using concurrency to cancel any in-progress job or run

diff --git a/.github/workflows/cve.yml b/.github/workflows/cve.yml
@@ -12,7 +12,7 @@ on:
       - 'doc/**'
       - 'release_docs/**'
       - 'ACKNOWLEDGEMENTS'
-      - 'COPYING**'
+      - 'LICENSE**'
       - '**.md'
 
 # Using concurrency to cancel any in-progress job or run

diff --git a/.github/workflows/hdfeos5.yml b/.github/workflows/hdfeos5.yml
@@ -12,7 +12,7 @@ on:
       - 'doc/**'
       - 'release_docs/**'
       - 'ACKNOWLEDGEMENTS'
-      - 'COPYING**'
+      - 'LICENSE**'
       - '**.md'
 
 # Using concurrency to cancel any in-progress job or run

diff --git a/.github/workflows/main-cmake-spc.yml b/.github/workflows/main-cmake-spc.yml
@@ -61,7 +61,7 @@ jobs:
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
             -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v16 \
+            -DHDF5_DEFAULT_API_VERSION:STRING=v16 \
             $GITHUB_WORKSPACE
         shell: bash
 
@@ -121,7 +121,7 @@ jobs:
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
             -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v18 \
+            -DHDF5_DEFAULT_API_VERSION:STRING=v18 \
             $GITHUB_WORKSPACE
         shell: bash
 
@@ -181,7 +181,7 @@ jobs:
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
             -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v110 \
+            -DHDF5_DEFAULT_API_VERSION:STRING=v110 \
             $GITHUB_WORKSPACE
         shell: bash
 
@@ -241,7 +241,7 @@ jobs:
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
             -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v112 \
+            -DHDF5_DEFAULT_API_VERSION:STRING=v112 \
             $GITHUB_WORKSPACE
         shell: bash
 
@@ -301,7 +301,7 @@ jobs:
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
             -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v114 \
+            -DHDF5_DEFAULT_API_VERSION:STRING=v114 \
             $GITHUB_WORKSPACE
         shell: bash
 
@@ -361,7 +361,7 @@ jobs:
             -DHDF5_ENABLE_DIRECT_VFD:BOOL=ON \
             -DHDF5_ENABLE_ROS3_VFD:BOOL=ON \
             -DH5_NO_DEPRECATED_SYMBOLS:BOOL=OFF \
-            -DDEFAULT_API_VERSION:STRING=v116 \
+            -DHDF5_DEFAULT_API_VERSION:STRING=v116 \
             $GITHUB_WORKSPACE
         shell: bash
 

diff --git a/.github/workflows/netcdf.yml b/.github/workflows/netcdf.yml
@@ -12,7 +12,7 @@ on:
       - 'doc/**'
       - 'release_docs/**'
       - 'ACKNOWLEDGEMENTS'
-      - 'COPYING**'
+      - 'LICENSE**'
       - '**.md'
 
 permissions:

diff --git a/.github/workflows/vol_adios2.yml b/.github/workflows/vol_adios2.yml
@@ -42,7 +42,7 @@ jobs:
             -DHDF5_TEST_API_ENABLE_ASYNC:BOOL=ON \
             -DHDF5_ENABLE_PARALLEL:BOOL=ON \
             -DHDF5_ENABLE_THREADSAFE:BOOL=ON \
-            -DALLOW_UNSUPPORTED:BOOL=ON \
+            -DHDF5_ALLOW_UNSUPPORTED:BOOL=ON \
             -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF \
             ${{ github.workspace }}/hdf5
           cat src/libhdf5.settings

diff --git a/.github/workflows/vol_async.yml b/.github/workflows/vol_async.yml
@@ -54,7 +54,7 @@ jobs:
             -DHDF5_TEST_API_ENABLE_ASYNC:BOOL=ON \
             -DHDF5_ENABLE_PARALLEL:BOOL=ON \
             -DHDF5_ENABLE_THREADSAFE:BOOL=ON \
-            -DALLOW_UNSUPPORTED:BOOL=ON \
+            -DHDF5_ALLOW_UNSUPPORTED:BOOL=ON \
             -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF \
             -DHDF5_VOL_ALLOW_EXTERNAL:STRING="GIT" \
             -DHDF5_VOL_URL01:STRING="https://github.com/HDFGroup/vol-async.git" \

diff --git a/.github/workflows/vol_cache.yml b/.github/workflows/vol_cache.yml
@@ -82,7 +82,7 @@ jobs:
             -DHDF5_TEST_API_ENABLE_ASYNC:BOOL=ON \
             -DHDF5_ENABLE_PARALLEL:BOOL=ON \
             -DHDF5_ENABLE_THREADSAFE:BOOL=ON \
-            -DALLOW_UNSUPPORTED:BOOL=ON \
+            -DHDF5_ALLOW_UNSUPPORTED:BOOL=ON \
             -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF \
             -DHDF5_VOL_ALLOW_EXTERNAL:STRING="GIT" \
             -DHDF5_VOL_URL01:STRING="https://github.com/HDFGroup/vol-async.git" \

diff --git a/.github/workflows/vol_log.yml b/.github/workflows/vol_log.yml
@@ -40,7 +40,7 @@ jobs:
             -DHDF5_TEST_API_ENABLE_ASYNC:BOOL=ON \
             -DHDF5_ENABLE_PARALLEL:BOOL=ON \
             -DHDF5_ENABLE_THREADSAFE:BOOL=ON \
-            -DALLOW_UNSUPPORTED:BOOL=ON \
+            -DHDF5_ALLOW_UNSUPPORTED:BOOL=ON \
             -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF \
             ${{ github.workspace }}/hdf5
           cat src/libhdf5.settings

diff --git a/.github/workflows/vol_rest.yml b/.github/workflows/vol_rest.yml
@@ -56,7 +56,7 @@ jobs:
             -DBUILD_STATIC_LIBS=OFF \
             -DHDF5_BUILD_HL_LIB:BOOL=ON \
             -DHDF5_TEST_API:BOOL=ON \
-            -DALLOW_UNSUPPORTED:BOOL=ON \
+            -DHDF5_ALLOW_UNSUPPORTED:BOOL=ON \
             -DHDF5_ENABLE_SZIP_SUPPORT:BOOL=OFF \
             -DHDF5_ENABLE_Z_LIB_SUPPORT:BOOL=OFF \
             -DHDF5_VOL_ALLOW_EXTERNAL:STRING="GIT" \

diff --git a/.gitignore b/.gitignore
@@ -32,15 +32,7 @@ m4/ltoptions.m4
 m4/ltsugar.m4
 m4/ltversion.m4
 m4/lt~obsolete.m4
-src/H5Edefin.h
-src/H5Einit.h
-src/H5Emajdef.h
-src/H5Emindef.h
-src/H5Epubgen.h
-src/H5Eterm.h
 src/H5config.h.in
-src/H5overflow.h
-src/H5version.h
 
 /.classpath
 /CMakeUserPresets.json

diff --git a/.h5chkright.ini b/.h5chkright.ini
@@ -3,7 +3,7 @@
 #
 # This file is part of HDF5.  The full HDF5 copyright notice, including
 # terms governing use, modification, and redistribution, is contained in
-# the COPYING file, which can be found at the root of the source code
+# the LICENSE file, which can be found at the root of the source code
 # distribution tree, or in https://www.hdfgroup.org/licenses.
 # If you do not have access to either file, you may request a copy from
 # help@hdfgroup.org.
@@ -17,8 +17,8 @@
 #		with the same name.  E.g.,
 #		"prune test" skips test, fortran/test, c++/test, ...
 
-# Skip COPYING since it is the detail Copyright notice.
-skip COPYING
+# Skip LICENSE since it is the detail Copyright notice.
+skip LICENSE
 
 # Sort of strange to have a copyright notice in README
 skip README