Hi,

I am trying to build the plugins (1.12.2) and managed to do so as a standalone set of libraries for CMAKE_BUILD_TYPE=Release. I am building on Mac OS X 10.14.6. When I attempt to build in Debug mode, however, I run into issues with libbzz and liblzf not properly building. The configure script is as follows:

!/bin/csh

setenv HDF5_ROOT "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug" setenv PLUGIN_SOURCE "/Users/mdg/hdf5_plugins" cmake -C ${PLUGIN_SOURCE}/config/cmake/cacheinit.cmake -DCMAKE_INSTALL_PREFIX=${HDF5_ROOT} -DHDF5_INCLUDE_DIR=${HDF5_ROOT}/include/ -DHDF5_LINK_LIBS=${HDF5_ROOT}/lib/ -DCMAKE_BUILD_TYPE:STRING=Debug -DUSE_SHARED_LIBS:BOOL=ON -DBUILD_SHARED_LIBS:BOOL=ON -DTGZPATH:PATH=${PLUGIN_SOURCE}/libs -DH5PL_ALLOW_EXTERNAL_SUPPORT:STRING=\"TGZ\" ${PLUGIN_SOURCE}

The output when I execute this script (everything looks normal):

loading initial cache file /Users/mdg/hdf5_plugins/config/cmake/cacheinit.cmake -- The C compiler identification is AppleClang 10.0.1.10010046 -- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc -- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- HDF5 find comps: C;shared -- HDF5 C libs:1 static: and shared:1 -- HDF5 found: INC=/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include; TOOLS=/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/bin -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- HDF5 link libs: hdf5::hdf5-shared Configuring for bshuf HDF5 Plugin version: h5bshuf 1.0 -- Check if the system is big endian -- Searching 16 bit integer -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of unsigned short -- Check size of unsigned short - done -- Using unsigned short -- Check if the system is big endian - little endian -- Looking for include file sys/stat.h -- Looking for include file sys/stat.h - found -- Looking for 5 include files sys/stat.h, ..., unistd.h -- Looking for 5 include files sys/stat.h, ..., unistd.h - found -- Looking for 6 include files sys/stat.h, ..., io.h -- Looking for 6 include files sys/stat.h, ..., io.h - not found -- Looking for 6 include files sys/stat.h, ..., winsock2.h -- Looking for 6 include files sys/stat.h, ..., winsock2.h - not found -- Looking for 6 include files sys/stat.h, ..., pthread.h -- Looking for 6 include files sys/stat.h, ..., pthread.h - found -- Looking for 7 include files sys/stat.h, ..., string.h -- Looking for 7 include files sys/stat.h, ..., string.h - found -- Looking for 8 include files sys/stat.h, ..., strings.h -- Looking for 8 include files sys/stat.h, ..., strings.h - found -- Looking for 9 include files sys/stat.h, ..., stdlib.h -- Looking for 9 include files sys/stat.h, ..., stdlib.h - found -- Looking for 10 include files sys/stat.h, ..., memory.h -- Looking for 10 include files sys/stat.h, ..., memory.h - found -- Looking for 11 include files sys/stat.h, ..., dlfcn.h -- Looking for 11 include files sys/stat.h, ..., dlfcn.h - found -- Looking for 12 include files sys/stat.h, ..., fcntl.h -- Looking for 12 include files sys/stat.h, ..., fcntl.h - found -- Looking for 13 include files sys/stat.h, ..., inttypes.h -- Looking for 13 include files sys/stat.h, ..., inttypes.h - found -- Looking for 14 include files sys/stat.h, ..., stdbool.h -- Looking for 14 include files sys/stat.h, ..., stdbool.h - found -- Looking for ceil in m; -- Looking for ceil in m; - found -- Looking for dlopen in dl;m -- Looking for dlopen in dl;m - found -- Looking for WSAStartup in ws2_32;m;dl -- Looking for WSAStartup in ws2_32;m;dl - not found -- Looking for gethostbyname in wsock32;m;dl -- Looking for gethostbyname in wsock32;m;dl - not found -- Looking for gethostname in ucb;m;dl -- Looking for gethostname in ucb;m;dl - not found -- Check size of char -- Check size of char - done -- Check size of short -- Check size of short - done -- Check size of int -- Check size of int - done -- Check size of unsigned -- Check size of unsigned - done -- Check size of long long -- Check size of long long - done -- Check size of int64 -- Check size of int64 - failed -- Check size of float -- Check size of float - done -- Check size of double -- Check size of double - done -- Check size of long double -- Check size of long double - done -- Check size of int8_t -- Check size of int8_t - done -- Check size of uint8_t -- Check size of uint8_t - done -- Check size of int_least8_t -- Check size of int_least8_t - done -- Check size of uint_least8_t -- Check size of uint_least8_t - done -- Check size of int_fast8_t -- Check size of int_fast8_t - done -- Check size of uint_fast8_t -- Check size of uint_fast8_t - done -- Check size of int16_t -- Check size of int16_t - done -- Check size of uint16_t -- Check size of uint16_t - done -- Check size of int_least16_t -- Check size of int_least16_t - done -- Check size of uint_least16_t -- Check size of uint_least16_t - done -- Check size of int_fast16_t -- Check size of int_fast16_t - done -- Check size of uint_fast16_t -- Check size of uint_fast16_t - done -- Check size of int32_t -- Check size of int32_t - done -- Check size of uint32_t -- Check size of uint32_t - done -- Check size of int_least32_t -- Check size of int_least32_t - done -- Check size of uint_least32_t -- Check size of uint_least32_t - done -- Check size of int_fast32_t -- Check size of int_fast32_t - done -- Check size of uint_fast32_t -- Check size of uint_fast32_t - done -- Check size of int64_t -- Check size of int64_t - done -- Check size of uint64_t -- Check size of uint64_t - done -- Check size of int_least64_t -- Check size of int_least64_t - done -- Check size of uint_least64_t -- Check size of uint_least64_t - done -- Check size of int_fast64_t -- Check size of int_fast64_t - done -- Check size of uint_fast64_t -- Check size of uint_fast64_t - done -- Check size of off_t -- Check size of off_t - done -- Check size of off64_t -- Check size of off64_t - failed -- Check size of time_t -- Check size of time_t - done -- Check size of bool -- Check size of bool - done -- Looking for vprintf -- Looking for vprintf - found -- Looking for _doprnt -- Looking for _doprnt - not found -- Looking for memset -- Looking for memset - found -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5BSHUF link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- The CXX compiler identification is AppleClang 10.0.1.10010046 -- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ -- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done Configuring for blosc HDF5 Plugin version: h5blosc 1.0.0 -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5BLOSC link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- Looking for pthread.h -- Looking for pthread.h - found -- Looking for pthread_create -- Looking for pthread_create - found -- Found Threads: TRUE
-- BLOSC is built -- BLOSC is ON Configuring for bz2 HDF5 Plugin version: h5bz2 1.0.0 -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5BZ2 link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- Filter BZ2 is built -- bz2 found: INC=/Users/mdg/hdf5_plugins_build/BZIP2/BZ2-prefix/src/BZ2/src LIBS=bz2 Configuring for jpeg HDF5 Plugin version: h5jpeg 1.0.0 -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5JPEG link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- Filter JPEG is built -- jpeg found: INC=/Users/mdg/hdf5_plugins_build/JPEG/JPEG-prefix/src/JPEG/src LIBS=jpeg Configuring for lz4 HDF5 Plugin version: h5lz4 1.0 -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5LZ4 link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Configuring for lzf HDF5 Plugin version: h5lzf 1.0 -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5LZF link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- Filter LZF is built -- lzf found: INC=/Users/mdg/hdf5_plugins_build/LZF/LZF-prefix/src/LZF TOOLS=lzf Configuring for SZ HDF5 Plugin version: h5sz 1.0 -- Looking for include file sys/file.h -- Looking for include file sys/file.h - found -- Looking for include files sys/file.h, sys/ioctl.h -- Looking for include files sys/file.h, sys/ioctl.h - found -- Looking for 3 include files sys/file.h, ..., sys/resource.h -- Looking for 3 include files sys/file.h, ..., sys/resource.h - found -- Looking for 4 include files sys/file.h, ..., sys/socket.h -- Looking for 4 include files sys/file.h, ..., sys/socket.h - found -- Looking for 6 include files sys/file.h, ..., sys/time.h -- Looking for 6 include files sys/file.h, ..., sys/time.h - found -- Looking for 8 include files sys/file.h, ..., features.h -- Looking for 8 include files sys/file.h, ..., features.h - not found -- Looking for 8 include files sys/file.h, ..., dirent.h -- Looking for 8 include files sys/file.h, ..., dirent.h - found -- Looking for 12 include files sys/file.h, ..., mach/mach_time.h -- Looking for 12 include files sys/file.h, ..., mach/mach_time.h - found -- Looking for 13 include files sys/file.h, ..., sys/timeb.h -- Looking for 13 include files sys/file.h, ..., sys/timeb.h - found -- Looking for CLOCK_MONOTONIC -- Looking for CLOCK_MONOTONIC - not found -- Performing Test HAVE_TIMESPEC -- Performing Test HAVE_TIMESPEC - Success -- Performing Test HAVE_TM_GMTOFF -- Performing Test HAVE_TM_GMTOFF - Success -- Performing Test HAVE_TMGMTOFF -- Performing Test HAVETM_GMTOFF - Failed -- Performing Test TIME_WITH_SYS_TIME -- Performing Test TIME_WITH_SYS_TIME - Success -- Performing Test HAVE_STRUCT_TIMEZONE -- Performing Test HAVE_STRUCT_TIMEZONE - Failed -- Looking for clock_gettime -- Looking for clock_gettime - found -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5SZ link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- Filter SZ is built -- SZ found: INC=/Users/mdg/hdf5_plugins_build/SZ/SZF-prefix/src/SZF/sz/include TOOLS=SZ;zstd;ZLIB Configuring for zfp HDF5 Plugin version: h5zfp 1.0 -- HDF5 link libs: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared Includes: /Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/include -- H5ZFP link libs: m;dl;/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/;hdf5::hdf5-shared -- Filter ZFP is built -- zfp found: INC=/Users/mdg/hdf5_plugins_build/ZFP/ZFP-prefix/src/ZFP/include TOOLS=zfp -- Configuring done WARNING: Target "h5bshuf" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_bshuf" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5blosc" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_blosc" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5bz2" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_bzip2" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5jpeg" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_jpeg" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5lz4" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_lz4" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5lzf" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_lzf" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5sz" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_sz" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5zfp" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. WARNING: Target "h5ex_d_zfp" requests linking to directory "/Users/Shared/EMsoftOO_SDK/hdf5-1.12.2-Debug/lib/". Targets may link only to libraries. CMake is dropping the item. -- Generating done -- Build files have been written to: /Users/mdg/hdf5_plugins_build

When I compile using "make" the process stops with the following error:

..... many lines deleted [ 32%] Performing build step for 'BZ2' Scanning dependencies of target bz2-static [ 12%] Building C object src/CMakeFiles/bz2-static.dir/blocksort.c.o [ 25%] Building C object src/CMakeFiles/bz2-static.dir/huffman.c.o [ 37%] Building C object src/CMakeFiles/bz2-static.dir/crctable.c.o [ 50%] Building C object src/CMakeFiles/bz2-static.dir/randtable.c.o [ 62%] Building C object src/CMakeFiles/bz2-static.dir/compress.c.o [ 75%] Building C object src/CMakeFiles/bz2-static.dir/decompress.c.o [ 87%] Building C object src/CMakeFiles/bz2-static.dir/bzlib.c.o [100%] Linking C static library /Users/mdg/hdf5_plugins_build/bin/libbz2_debug.a [100%] Built target bz2-static [ 33%] No install step for 'BZ2' [ 33%] Completed 'BZ2' [ 33%] Built target BZ2 Scanning dependencies of target h5bz2 [ 34%] Building C object BZIP2/src/CMakeFiles/h5bz2.dir/H5Zbzip2.c.o make[2]: No rule to make target bin/libbz2.a', needed bybin/libh5bz2.so'. Stop. make[1]: [BZIP2/src/CMakeFiles/h5bz2.dir/all] Error 2 make: *** [all] Error 2

This works fine in Release mode, so maybe there is a problem in one of the CMake files ?

Thanks! Marc.

HDFGroup / hdf5_plugins

Build issue for Release/1.12.2 in CMAKE_BUILD_TYPE=Debug mode #47

!/bin/csh