Implement support for Complex number datatypes

.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

.github/workflows/nvhpc-cmake.yml

@@ -33,20 +33,20 @@ 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/cuda/12.2/lib64:/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/cuda/12.3/lib64:/opt/nvidia/hpc_sdk/Linux_x86_64/24.5/compilers/lib" >> $GITHUB_ENV
           echo "DESTDIR=/tmp" >> $GITHUB_ENV
 
       - name: CMake Configure
         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
           mkdir "${{ runner.workspace }}/build"
           cd "${{ runner.workspace }}/build"
           cmake -C $GITHUB_WORKSPACE/config/cmake/cacheinit.cmake -G Ninja \
@@ -67,9 +67,3 @@ jobs:
         run: |
           cmake --build . --parallel 3 --config ${{ inputs.build_mode }}
         working-directory: ${{ runner.workspace }}/build
-
-      - name: CMake Run Tests
-        shell: bash
-        run: |
-          ctest . --parallel 2 -C ${{ inputs.build_mode }} -V -E "ph5_f90_hyperslab_by_chunk|ph5_f90_hyperslab_by_pattern"
-        working-directory: ${{ runner.workspace }}/build

CMakeFilters.cmake

@@ -133,14 +133,9 @@ if (HDF5_ENABLE_SZIP_SUPPORT)
   if (NOT SZIP_USE_EXTERNAL)
     set(libaec_USE_STATIC_LIBS ${HDF5_USE_LIBAEC_STATIC})
     set(SZIP_FOUND FALSE)
-    find_package (libaec 1.0.5 CONFIG)
-    if (SZIP_FOUND)
-      set (LINK_COMP_LIBS ${LINK_COMP_LIBS} ${H5_SZIP_LIBRARIES})
-    else ()
-      find_package (SZIP NAMES ${LIBAEC_PACKAGE_NAME}${HDF_PACKAGE_EXT} COMPONENTS static shared)
-      if (NOT SZIP_FOUND)
-        find_package (SZIP) # Legacy find
-      endif ()
+    find_package (SZIP NAMES ${LIBAEC_PACKAGE_NAME}${HDF_PACKAGE_EXT} COMPONENTS static shared)
+    if (NOT SZIP_FOUND)
+      find_package (SZIP) # Legacy find
     endif ()
     set(H5_SZIP_FOUND ${SZIP_FOUND})
     if (H5_SZIP_FOUND)

HDF5Examples/C/CMakeLists.txt

@@ -1,9 +1,10 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C C)
 
 #-----------------------------------------------------------------------------
 # Build the C Examples
 #-----------------------------------------------------------------------------
+add_subdirectory (${PROJECT_SOURCE_DIR}/TUTR)
 add_subdirectory (${PROJECT_SOURCE_DIR}/H5D)
 add_subdirectory (${PROJECT_SOURCE_DIR}/H5G)
 add_subdirectory (${PROJECT_SOURCE_DIR}/H5T)

HDF5Examples/C/H5D/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C_H5D C)
 
 #-----------------------------------------------------------------------------

HDF5Examples/C/H5FLT/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C_H5FLT C)
 
 set (dyn_examples)

HDF5Examples/C/H5G/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C_H5G C)
 
 #-----------------------------------------------------------------------------

HDF5Examples/C/H5PAR/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (H5PAR_C C)
 
 #-----------------------------------------------------------------------------

HDF5Examples/C/H5T/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C_H5T C)
 
 #-----------------------------------------------------------------------------

HDF5Examples/C/H5VDS/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C_H5VDS C)
 
 #-----------------------------------------------------------------------------

HDF5Examples/C/Perf/CMakeLists.txt

@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.12)
+cmake_minimum_required (VERSION 3.18)
 project (HDF5Examples_C_PERFORM C)
 
 #-----------------------------------------------------------------------------

HDF5Examples/C/TUTR/CMakeLists.txt

@@ -0,0 +1,113 @@
+cmake_minimum_required (VERSION 3.18)
+project (HDF5Examples_C_TUTR C)
+
+#-----------------------------------------------------------------------------
+# Define Sources
+#-----------------------------------------------------------------------------
+include (C_sourcefiles.cmake)
+
+foreach (example_name ${examples})
+  add_executable (${EXAMPLE_VARNAME}_tutr_${example_name} ${PROJECT_SOURCE_DIR}/${example_name}.c)
+  target_compile_options(${EXAMPLE_VARNAME}_tutr_${example_name}
+      PRIVATE
+          "$<$<BOOL:${${EXAMPLE_VARNAME}_USE_16_API}>:-DH5_USE_16_API>"
+          "$<$<BOOL:${${EXAMPLE_VARNAME}_USE_18_API}>:-DH5_USE_18_API>"
+          "$<$<BOOL:${${EXAMPLE_VARNAME}_USE_110_API}>:-DH5_USE_110_API>"
+          "$<$<BOOL:${${EXAMPLE_VARNAME}_USE_112_API}>:-DH5_USE_112_API>"
+          "$<$<BOOL:${${EXAMPLE_VARNAME}_USE_114_API}>:-DH5_USE_114_API>"
+          "$<$<BOOL:${${EXAMPLE_VARNAME}_USE_116_API}>:-DH5_USE_116_API>"
+  )
+  if (H5_HAVE_PARALLEL)
+    target_include_directories (${EXAMPLE_VARNAME}_tutr_${example_name} PUBLIC ${MPI_C_INCLUDE_DIRS})
+  endif ()
+  target_link_libraries (${EXAMPLE_VARNAME}_tutr_${example_name} ${H5EX_HDF5_LINK_LIBS})
+endforeach ()
+
+
+if (H5EX_BUILD_TESTING)
+  file (MAKE_DIRECTORY ${PROJECT_BINARY_DIR}/red ${PROJECT_BINARY_DIR}/blue ${PROJECT_BINARY_DIR}/u2w)
+
+  set (${EXAMPLE_VARNAME}_tutr_CLEANFILES
+      Attributes.h5
+      btrees_file.h5
+      cmprss.h5
+      default_file.h5
+      dset.h5
+      extend.h5
+      extlink_prefix_source.h5
+      extlink_source.h5
+      extlink_target.h5
+      group.h5
+      groups.h5
+      hard_link.h5
+      mount1.h5
+      mount2.h5
+      one_index_file.h5
+      only_dspaces_and_attrs_file.h5
+      only_huge_mesgs_file.h5
+      REF_REG.h5
+      refere.h5
+      refer_deprec.h5
+      refer_extern1.h5
+      refer_extern2.h5
+      SDS.h5
+      SDScompound.h5
+      SDSextendible.h5
+      Select.h5
+      separate_indexes_file.h5
+      small_lists_file.h5
+      soft_link.h5
+      subset.h5
+      unix2win.h5
+      blue/prefix_target.h5
+      red/prefix_target.h5
+      u2w/u2w_target.h5
+  )
+
+   # Remove any output file left over from previous test run
+  add_test (
+      NAME ${EXAMPLE_VARNAME}_tutr-clear-objects
+      COMMAND    ${CMAKE_COMMAND} -E remove ${${EXAMPLE_VARNAME}_tutr_CLEANFILES}
+  )
+  set_tests_properties (${EXAMPLE_VARNAME}_tutr-clear-objects PROPERTIES
+      FIXTURES_SETUP clear_${EXAMPLE_VARNAME}_tutr
+      WORKING_DIRECTORY ${PROJECT_BINARY_DIR}
+  )
+  add_test (
+      NAME ${EXAMPLE_VARNAME}_tutr-clean-objects
+      COMMAND    ${CMAKE_COMMAND} -E remove ${${EXAMPLE_VARNAME}_tutr_CLEANFILES}
+  )
+  set_tests_properties (${EXAMPLE_VARNAME}_tutr-clean-objects PROPERTIES
+      FIXTURES_CLEANUP clear_${EXAMPLE_VARNAME}_tutr
+      WORKING_DIRECTORY ${PROJECT_BINARY_DIR}
+  )
+
+  macro (ADD_H5_TEST testname)
+    if (HDF5_USING_ANALYSIS_TOOL)
+      add_test (NAME ${EXAMPLE_VARNAME}_tutr_${testname} COMMAND ${CMAKE_CROSSCOMPILING_EMULATOR} $<TARGET_FILE:${EXAMPLE_VARNAME}_tutr_${testname}>)
+    else ()
+      add_test (
+          NAME ${EXAMPLE_VARNAME}_tutr_${testname}
+          COMMAND "${CMAKE_COMMAND}"
+              -D "TEST_EMULATOR=${CMAKE_CROSSCOMPILING_EMULATOR}"
+              -D "TEST_PROGRAM=$<TARGET_FILE:${EXAMPLE_VARNAME}_tutr_${testname}>"
+              -D "TEST_ARGS:STRING="
+              -D "TEST_FOLDER=${PROJECT_BINARY_DIR}"
+              -D "TEST_EXPECT=0"
+              -D "TEST_SKIP_COMPARE=TRUE"
+              -D "TEST_OUTPUT=${testname}.out"
+              -D "TEST_LIBRARY_DIRECTORY=${CMAKE_TEST_LIB_DIRECTORY}"
+              -P "${H5EX_RESOURCES_DIR}/runTest.cmake"
+      )
+    endif ()
+    set_tests_properties (${EXAMPLE_VARNAME}_tutr_${testname} PROPERTIES FIXTURES_REQUIRED clear_${EXAMPLE_VARNAME}_tutr)
+    if (last_test)
+      set_tests_properties (${EXAMPLE_VARNAME}_tutr_${testname} PROPERTIES DEPENDS ${last_test})
+    endif ()
+    set (last_test "${EXAMPLE_VARNAME}_tutr_${testname}")
+  endmacro ()
+
+  foreach (example_name ${examples})
+    ADD_H5_TEST (${example_name})
+  endforeach ()
+endif ()

HDF5Examples/C/TUTR/C_sourcefiles.cmake

@@ -0,0 +1,32 @@
+#-----------------------------------------------------------------------------
+# Define Sources, one file per application
+#-----------------------------------------------------------------------------
+set (examples
+    h5_crtdat
+    h5_rdwt
+    h5_crtatt
+    h5_crtgrp
+    h5_crtgrpar
+    h5_crtgrpd
+    h5_cmprss
+    h5_extend
+    h5_subset
+    h5_write
+    h5_read
+    h5_extend_write
+    h5_chunk_read
+    h5_compound
+    h5_group
+    h5_select
+    h5_attribute
+    h5_mount
+    h5_ref_extern
+    h5_ref_compat
+    h5_reference_deprec
+    h5_drivers
+    h5_ref2reg_deprec
+    h5_extlink
+    h5_elink_unix2win
+    h5_shared_mesg
+    h5_debug_trace
+)