Update to latest dev changes

HDFGroup · Sep 13, 2024 · dbfb072 · dbfb072
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diff --git a/.github/CODEOWNERS b/.github/CODEOWNERS
@@ -2,7 +2,7 @@
 # Each line is a file pattern followed by one or more owners.
 
 # These owners will be the default owners for everything in the repo.
-*       @lrknox @byrnHDF
+* @lrknox @byrnHDF @derobins @fortnern @jhendersonHDF @bmribler @glennsong09 @mattjala @brtnfld
 
 # Order is important. The last matching pattern has the most precedence.
 # So if a pull request only touches javascript files, only these owners

diff --git a/.github/workflows/cmake-ctest.yml b/.github/workflows/cmake-ctest.yml
diff --git a/.github/workflows/daily-build.yml b/.github/workflows/daily-build.yml
@@ -1,5 +1,6 @@
 name: hdf5 plugins daily build
 
+# Triggers the workflow on a pull request or on demand
 on:
   workflow_dispatch:
     inputs:
@@ -14,8 +15,6 @@ on:
 permissions:
   contents: read
 
-# A workflow run is made up of one or more jobs that can run sequentially or
-# in parallel.
 jobs:
   get-old-names:
     runs-on: ubuntu-latest
@@ -25,7 +24,7 @@ jobs:
       run-ignore: ${{ steps.getinputs.outputs.INPUTS_IGNORE }}
 
     steps:
-    - uses: actions/checkout@v4.1.1
+    - uses: actions/checkout@v4.1.7
 
     - name: Get hdf5 release base name
       uses: dsaltares/fetch-gh-release-asset@master
@@ -76,6 +75,16 @@ jobs:
       use_hdf: ${{ needs.get-old-names.outputs.hdf5-name }}
 #      use_tag: snapshot-1.14
       use_environ: snapshots
+    secrets:
+        APPLE_CERTS_BASE64: ${{ secrets.APPLE_CERTS_BASE64 }}
+        APPLE_CERTS_BASE64_PASSWD: ${{ secrets.APPLE_CERTS_BASE64_PASSWD }}
+        KEYCHAIN_PASSWD: ${{ secrets.KEYCHAIN_PASSWD }}
+        AZURE_TENANT_ID: ${{ secrets.AZURE_TENANT_ID }}
+        AZURE_CLIENT_ID: ${{ secrets.AZURE_CLIENT_ID }}
+        AZURE_CLIENT_SECRET: ${{ secrets.AZURE_CLIENT_SECRET }}
+        AZURE_ENDPOINT: ${{ secrets.AZURE_ENDPOINT }}
+        AZURE_CODE_SIGNING_NAME: ${{ secrets.AZURE_CODE_SIGNING_NAME }}
+        AZURE_CERT_PROFILE_NAME: ${{ secrets.AZURE_CERT_PROFILE_NAME }}
     if: ${{ ((needs.call-workflow-tarball.outputs.has_changes == 'true') || (needs.get-base-names.outputs.run-ignore == 'ignore')) }}
 
   call-workflow-release:

diff --git a/.github/workflows/release-files.yml b/.github/workflows/release-files.yml
@@ -1,6 +1,6 @@
 name: hdf5 plugins release-files
 
-# Controls when the action will run. Triggers the workflow on a schedule
+# Triggers the workflow on a call from another workflow
 on:
   workflow_call:
     inputs:
@@ -40,9 +40,10 @@ jobs:
     steps:
       # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
       - name: Get Sources
-        uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # v4.1.1
+        uses: actions/checkout@9a9194f87191a7e9055e3e9b95b8cfb13023bb08 # v4.1.7
         with:
           fetch-depth: 0
+          ref: '${{ github.head_ref || github.ref_name }}'
 
       - name: Get Commit
         if: ${{ (inputs.use_environ == 'snapshots') }}
@@ -77,43 +78,71 @@ jobs:
 
       # Get files created by tarball script
       - name: Get tgz-tarball (Linux)
-        uses: actions/download-artifact@c850b930e6ba138125429b7e5c93fc707a7f8427 # v4.1.4
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
         with:
               name: tgz-tarball
               path: ${{ github.workspace }}
 
       - name: Get zip-tarball (Windows)
-        uses: actions/download-artifact@c850b930e6ba138125429b7e5c93fc707a7f8427 # v4.1.4
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
         with:
               name: zip-tarball
               path: ${{ github.workspace }}
 
       # Get files created by cmake-ctest script
       - name: Get published binary (Windows)
-        uses: actions/download-artifact@c850b930e6ba138125429b7e5c93fc707a7f8427 # v4.1.4
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
         with:
               name: zip-vs2022_cl-binary
               path: ${{ github.workspace }}
 
+      - name: Get published msi binary (Windows)
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
+        with:
+              name: msi-vs2022_cl-binary
+              path: ${{ github.workspace }}
+
       - name: Get published binary (MacOS)
-        uses: actions/download-artifact@c850b930e6ba138125429b7e5c93fc707a7f8427 # v4.1.4
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
+        with:
+              name: tgz-macos14_clang-binary
+              path: ${{ github.workspace }}
+
+      - name: Get published dmg binary (MacOS)
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
         with:
-              name: tgz-osx-binary
+              name: tgz-macos14_clang-dmg-binary
               path: ${{ github.workspace }}
 
       - name: Get published binary (Linux)
-        uses: actions/download-artifact@c850b930e6ba138125429b7e5c93fc707a7f8427 # v4.1.4
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
         with:
               name: tgz-ubuntu-2204_gcc-binary
               path: ${{ github.workspace }}
 
+      - name: Get published deb binary (Linux)
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
+        with:
+              name: deb-ubuntu-2204_gcc-binary
+              path: ${{ github.workspace }}
+
+      - name: Get published rpm binary (Linux)
+        uses: actions/download-artifact@fa0a91b85d4f404e444e00e005971372dc801d16 # v4.1.8
+        with:
+              name: rpm-ubuntu-2204_gcc-binary
+              path: ${{ github.workspace }}
+
       - name: Create sha256 sums for files
         run: |
           sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}.tar.gz >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
           sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}.zip >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
-          sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-osx.tar.gz >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
+          sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.tar.gz >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
+          sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.dmg >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
           sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.tar.gz >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
+          sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.deb >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
+          sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.rpm >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
           sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.zip >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
+          sha256sum ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.msi >> ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
 
       - name: Store snapshot name
         run: |
@@ -122,33 +151,41 @@ jobs:
       - name: PreRelease tag
         id: create_prerelease
         if: ${{ (inputs.use_environ == 'snapshots') }}
-        uses: softprops/action-gh-release@9d7c94cfd0a1f3ed45544c887983e9fa900f0564 # v2.0.4
+        uses: softprops/action-gh-release@c062e08bd532815e2082a85e87e3ef29c3e6d191 # v2.0.8
         with:
           tag_name: "${{ inputs.use_tag }}"
           prerelease: true
           files: |
               last-file.txt
               ${{ steps.get-file-base.outputs.FILE_BASE }}.tar.gz
               ${{ steps.get-file-base.outputs.FILE_BASE }}.zip
-              ${{ steps.get-file-base.outputs.FILE_BASE }}-osx.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.dmg
               ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.deb
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.rpm
               ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.zip
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.msi
               ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
               if-no-files-found: error # 'warn' or 'ignore' are also available, defaults to `warn`
 
       - name: Release tag
         id: create_release
         if: ${{ (inputs.use_environ == 'release') }}
-        uses: softprops/action-gh-release@9d7c94cfd0a1f3ed45544c887983e9fa900f0564 # v2.0.4
+        uses: softprops/action-gh-release@c062e08bd532815e2082a85e87e3ef29c3e6d191 # v2.0.8
         with:
           tag_name: "${{ inputs.use_tag }}"
           prerelease: false
           files: |
               ${{ steps.get-file-base.outputs.FILE_BASE }}.tar.gz
               ${{ steps.get-file-base.outputs.FILE_BASE }}.zip
-              ${{ steps.get-file-base.outputs.FILE_BASE }}-osx.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.dmg
               ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.deb
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.rpm
               ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.zip
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.msi
               ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
               if-no-files-found: error # 'warn' or 'ignore' are also available, defaults to `warn`
 

diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
@@ -1,5 +1,6 @@
 name: hdf5 plugins release build
 
+# Triggers the workflow on demand
 on:
   workflow_dispatch:
     inputs:
@@ -17,8 +18,6 @@ on:
 permissions:
   contents: read
 
-# A workflow run is made up of one or more jobs that can run sequentially or
-# in parallel.
 jobs:
   log-the-inputs:
     runs-on: ubuntu-latest
@@ -51,6 +50,16 @@ jobs:
       use_hdf: ${{ needs.log-the-inputs.outputs.hdf_tag }}
       snap_name: hdf5_plugins-${{ needs.call-workflow-tarball.outputs.source_base }}
       use_environ: release
+    secrets:
+        APPLE_CERTS_BASE64: ${{ secrets.APPLE_CERTS_BASE64 }}
+        APPLE_CERTS_BASE64_PASSWD: ${{ secrets.APPLE_CERTS_BASE64_PASSWD }}
+        KEYCHAIN_PASSWD: ${{ secrets.KEYCHAIN_PASSWD }}
+        AZURE_TENANT_ID: ${{ secrets.AZURE_TENANT_ID }}
+        AZURE_CLIENT_ID: ${{ secrets.AZURE_CLIENT_ID }}
+        AZURE_CLIENT_SECRET: ${{ secrets.AZURE_CLIENT_SECRET }}
+        AZURE_ENDPOINT: ${{ secrets.AZURE_ENDPOINT }}
+        AZURE_CODE_SIGNING_NAME: ${{ secrets.AZURE_CODE_SIGNING_NAME }}
+        AZURE_CERT_PROFILE_NAME: ${{ secrets.AZURE_CERT_PROFILE_NAME }}
 
   call-workflow-release:
     needs: [log-the-inputs, call-workflow-tarball, call-workflow-ctest]

diff --git a/.github/workflows/remove-files.yml b/.github/workflows/remove-files.yml
@@ -1,6 +1,6 @@
 name: hdf5 plugins remove-files
 
-# Controls when the action will run. Triggers the workflow on a schedule
+# Triggers the workflow on a call from another workflow
 on:
   workflow_call:
     inputs:
@@ -47,8 +47,12 @@ jobs:
           assets: |
               ${{ steps.get-file-base.outputs.FILE_BASE }}.tar.gz
               ${{ steps.get-file-base.outputs.FILE_BASE }}.zip
-              ${{ steps.get-file-base.outputs.FILE_BASE }}-osx.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-macos14_clang.dmg
               ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.tar.gz
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.deb
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-ubuntu-2204_gcc.rpm
               ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.zip
+              ${{ steps.get-file-base.outputs.FILE_BASE }}-win-vs2022_cl.msi
               ${{ steps.get-file-base.outputs.FILE_BASE }}.sha256sums.txt
               
diff --git a/.github/workflows/tarball.yml b/.github/workflows/tarball.yml
@@ -1,6 +1,6 @@
 name: hdf5 plugins tarball
 
-# Controls when the action will run. Triggers the workflow on a schedule
+# Triggers the workflow on a call from another workflow
 on:
   workflow_call:
     inputs:
@@ -34,8 +34,6 @@ on:
 permissions:
   contents: read
 
-# A workflow run is made up of one or more jobs that can run sequentially or
-# in parallel
 jobs:
   check_commits:
     name: Check for recent commits
@@ -87,9 +85,10 @@ jobs:
     steps:
       # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
       - name: Get Sources
-        uses: actions/checkout@v4.1.1
+        uses: actions/checkout@v4.1.7
         with:
           path: hdfsrc
+          ref: '${{needs.check_commits.outputs.branch_ref }}'
 
       - name: Retrieve version
         id: version

diff --git a/BLOSC/config/cmake/H5BLOSCMacros.cmake b/BLOSC/config/cmake/H5BLOSCMacros.cmake
@@ -24,22 +24,19 @@ macro (EXTERNAL_BLOSC_LIBRARY compress_type)
         URL_HASH ""
     )
   endif ()
-  FetchContent_GetProperties(BLOSC)
-  if(NOT blosc_POPULATED)
-    FetchContent_Populate(BLOSC)
-    set (BUILD_SHARED OFF CACHE BOOL "" FORCE)
-    set (BUILD_TESTS OFF CACHE BOOL "" FORCE)
-    set (BUILD_FUZZERS OFF CACHE BOOL "" FORCE)
-    set (BUILD_BENCHMARKS OFF CACHE BOOL "" FORCE)
-    set (PREFER_EXTERNAL_SNAPPY OFF CACHE BOOL "" FORCE)
-    set (PREFER_EXTERNAL_ZLIB OFF CACHE BOOL "" FORCE)
-    set (PREFER_EXTERNAL_ZSTD OFF CACHE BOOL "" FORCE)
-    set (DEACTIVATE_SNAPPY ON CACHE BOOL "" FORCE)
-    set (BLOSC_IS_SUBPROJECT ON CACHE BOOL "" FORCE)
-    set (BLOSC_INSTALL OFF CACHE BOOL "" FORCE)
 
-    add_subdirectory(${blosc_SOURCE_DIR} ${blosc_BINARY_DIR})
-  endif()
+  set (BUILD_SHARED OFF CACHE BOOL "" FORCE)
+  set (BUILD_TESTS OFF CACHE BOOL "" FORCE)
+  set (BUILD_FUZZERS OFF CACHE BOOL "" FORCE)
+  set (BUILD_BENCHMARKS OFF CACHE BOOL "" FORCE)
+  set (PREFER_EXTERNAL_SNAPPY OFF CACHE BOOL "" FORCE)
+  set (PREFER_EXTERNAL_ZLIB OFF CACHE BOOL "" FORCE)
+  set (PREFER_EXTERNAL_ZSTD OFF CACHE BOOL "" FORCE)
+  set (DEACTIVATE_SNAPPY ON CACHE BOOL "" FORCE)
+  set (BLOSC_IS_SUBPROJECT ON CACHE BOOL "" FORCE)
+  set (BLOSC_INSTALL OFF CACHE BOOL "" FORCE)
+
+  FetchContent_MakeAvailable(BLOSC)
 
 ##include (${BINARY_DIR}/${BLOSC_PACKAGE_NAME}${H5BLOSC_PACKAGE_EXT}-targets.cmake)
   set (BLOSC_STATIC_LIBRARY "blosc_static")
@@ -69,23 +66,20 @@ macro (EXTERNAL_BLOSC_ZLIB_LIBRARY compress_type)
     FetchContent_Declare (BLOSC_ZLIB
         GIT_REPOSITORY ${BLOSC_ZLIB_URL}
         GIT_TAG ${BLOSC_ZLIB_BRANCH}
+        PATCH_COMMAND ${CMAKE_COMMAND} -E copy
+            ${H5BLOSC_SOURCE_DIR}/config/zlib-CMakeLists.txt
+            <SOURCE_DIR>/CMakeLists.txt
     )
   elseif (${compress_type} MATCHES "TGZ")
     FetchContent_Declare (BLOSC_ZLIB
         URL ${BLOSC_ZLIB_URL}
         URL_HASH ""
+        PATCH_COMMAND ${CMAKE_COMMAND} -E copy
+            ${H5BLOSC_SOURCE_DIR}/config/zlib-CMakeLists.txt
+            <SOURCE_DIR>/CMakeLists.txt
     )
   endif ()
-  FetchContent_GetProperties(BLOSC_ZLIB)
-  if(NOT blosc_zlib_POPULATED)
-    FetchContent_Populate(BLOSC_ZLIB)
-
-    # Copy an additional/replacement files into the populated source
-    file(COPY ${H5BLOSC_SOURCE_DIR}/config/zlib-CMakeLists.txt DESTINATION ${blosc_zlib_SOURCE_DIR})
-    file(RENAME ${blosc_zlib_SOURCE_DIR}/zlib-CMakeLists.txt ${blosc_zlib_SOURCE_DIR}/CMakeLists.txt)
-
-    add_subdirectory(${blosc_zlib_SOURCE_DIR} ${blosc_zlib_BINARY_DIR})
-  endif()
+  FetchContent_MakeAvailable(BLOSC_ZLIB)
 
   set (BLOSC_ZLIB_STATIC_LIBRARY "zlibstat")
   set (BLOSC_ZLIB_LIBRARY ${BLOSC_ZLIB_STATIC_LIBRARY})

diff --git a/BLOSC/config/cmake/HDFMacros.cmake b/BLOSC/config/cmake/HDFMacros.cmake
@@ -301,6 +301,7 @@ macro (PLUGIN_README_PROPERTIES pkg_name)
   if (WIN32)
     set (BINARY_EXAMPLE_ENDING "zip")
     set (BINARY_INSTALL_ENDING "msi")
+    set (BINARY_COMPRESS_ENDING "zip")
     if (CMAKE_CL_64)
       set (BINARY_SYSTEM_NAME "win64")
     else ()
@@ -343,21 +344,25 @@ macro (PLUGIN_README_PROPERTIES pkg_name)
           set (BINARY_PLATFORM "${BINARY_PLATFORM}, using VISUAL STUDIO 2019")
         elseif (${CMAKE_C_COMPILER_VERSION} MATCHES "^19.3.*")
           set (BINARY_PLATFORM "${BINARY_PLATFORM}, using VISUAL STUDIO 2022")
+        elseif (${CMAKE_C_COMPILER_VERSION} MATCHES "^19.4.*")
+          set (BINARY_PLATFORM "${BINARY_PLATFORM}, using VISUAL STUDIO 2022")
         else ()
-          set (BINARY_PLATFORM "${BINARY_PLATFORM}, using VISUAL STUDIO ???")
+          set (BINARY_PLATFORM "${BINARY_PLATFORM}, using VISUAL STUDIO ????")
         endif ()
       else ()
         set (BINARY_PLATFORM "${BINARY_PLATFORM}, using VISUAL STUDIO ${CMAKE_C_COMPILER_VERSION}")
       endif ()
     endif ()
   elseif (APPLE)
     set (BINARY_EXAMPLE_ENDING "tar.gz")
+    set (BINARY_COMPRESS_ENDING "tar.gz")
     set (BINARY_INSTALL_ENDING "sh") # if packaging changes - use dmg
     set (BINARY_PLATFORM "${BINARY_PLATFORM} ${CMAKE_SYSTEM_VERSION} ${CMAKE_SYSTEM_PROCESSOR}")
     set (BINARY_PLATFORM "${BINARY_PLATFORM}, using ${CMAKE_C_COMPILER_ID} C ${CMAKE_C_COMPILER_VERSION}")
   else ()
     set (BINARY_EXAMPLE_ENDING "tar.gz")
-    set (BINARY_INSTALL_ENDING "sh")
+    set (BINARY_COMPRESS_ENDING "tar.gz")
+    set (BINARY_INSTALL_ENDING "sh/deb/rpm")
     set (BINARY_PLATFORM "${BINARY_PLATFORM} ${CMAKE_SYSTEM_VERSION} ${CMAKE_SYSTEM_PROCESSOR}")
     set (BINARY_PLATFORM "${BINARY_PLATFORM}, using ${CMAKE_C_COMPILER_ID} C ${CMAKE_C_COMPILER_VERSION}")
   endif ()